Study Comparison Entry Entrez_id Entrez_name Entrez_description Map_method n_studies n_comparisons n_total_samples net_fold_change net_direction net_direction_score n_disagreements up_down avg_fold_change n_comparisons_FC n_total_samples_FC max_fold_change min_fold_change Probe_Tag_Acc Probe Tag Accession Description Gene Fold_change Std_Fold_Change up_down_cond1_vs_cond2 RT-PCR Western IHC Class_predictor Signif Pvalue_listed Cond1 Cond2 n_cond1 n_cond2 Source Comment PMID 15 23 1093 15 AANAT arylalkylamine N-acetyltransferase Gene_symbol_2_NCBI_Entrez 1 1 5 4 up 1 0 1/0 4 1 5 4.00 4.00 Arylalkylamine N-acetyltransferase AANAT 4 4.00 up FVPTC PTC 3 2 publication 15475448 25 34 1628 29 ABR active BCR-related gene affy_probe_2_Entrez 1 1 55 2.15 up 1 0 1/0 2.15 1 55 2.15 2.15 212895_s_at 212895_s_at active BCR-related gene ABR 2.147 2.15 up 0.001479792 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 22 1040 31 ACACA acetyl-Coenzyme A carboxylase alpha Gene_symbol_2_NCBI_Entrez 1 1 7 -2 down 1 0 0/1 -2 1 7 -2.00 -2.00 Acetyl-Coenzyme A carboxylase ACACA 0.5 -2.00 down FTC FA 3 4 publication 15475448 5 10 385 48 ACO1 aconitase 1, soluble tag_2_refseq_or_mgc_2_Entrez 1 1 3 0 up 1 0 1/0 0 0 0 0 0 GATAGGTCGG GATAGGTCGG ACO1 up no FTC FA;Norm 1 2 publication 15085203 4 8 357 90 ACVR1 activin A receptor, type I affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 39764_at 39764_at activin A receptor, type I_ACVR1 ACVR1 up PTC FTC;Norm 6 22 provided by authors 15337802 16 24 1239 97 ACYP1 acylphosphatase 1, erythrocyte (common) type Gene_symbol_2_NCBI_Entrez 1 1 63 -1.94 down 1 0 0/1 -1.94 1 63 -1.94 -1.94 ACYP1 0.516587678 -1.94 down 0.01 PTC;FVPTC FA;HN 32 31 publication 15087409 15 22 1023 107 ADCY1 adenylate cyclase 1 (brain) Gene_symbol_2_NCBI_Entrez 1 1 7 4 up 1 0 1/0 4 1 7 4.00 4.00 Adenylate cyclase 1 ADCY1 4 4.00 up FTC FA 3 4 publication 15475448 15 23 1141 118 ADD1 adducin 1 (alpha) Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Adducin 1 (alpha) ADD1 2 2.00 up FVPTC PTC 3 2 publication 15475448 4 7 257 120 ADD3 adducin 3 (gamma) affy_probe_2_Entrez 2 2 30 3.04 even 1 1 1/1 3.04 1 2 3.04 3.04 33103_s_at 33103_s_at adducin 3 (gamma)_ADD3 ADD3 down FTC PTC;Norm 9 19 provided by authors 15337802 8 13 549 120 ADD3 adducin 3 (gamma) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 30 3.04 even 1 1 1/1 3.04 1 2 3.04 3.04 U37122 U37122 Adducin gamma-subunit 3.04 3.04 up M-ACL ACL 1 1 publication 15579771 25 34 1724 125 ADH1B alcohol dehydrogenase IB (class I), beta polypeptide affy_probe_2_Entrez 1 1 55 -4.72 down 1 0 0/1 -4.72 1 55 -4.72 -4.72 209612_s_at 209612_s_at alcohol dehydrogenase IB (class I), beta polypeptide ADH1B -3.897 -3.90 down 1.11929E-07 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1736 125 ADH1B alcohol dehydrogenase IB (class I), beta polypeptide affy_probe_2_Entrez 1 1 55 -4.72 down 1 0 0/1 -4.72 1 55 -4.72 -4.72 209613_s_at 209613_s_at alcohol dehydrogenase IB (class I), beta polypeptide ADH1B -4.720 -4.72 down 1.3149E-06 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1607 132 ADK adenosine kinase affy_probe_2_Entrez 1 1 55 2.76 up 1 0 1/0 2.76 1 55 2.76 2.76 204120_s_at 204120_s_at adenosine kinase ADK 2.762 2.76 up 0.002061785 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 13 20 864 133 ADM adrenomedullin clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 78 2.8 up 2 0 2/0 2.8 1 59 2.80 2.80 D14874 D14874 Adrenomedullin ADM up FTC FA 9 10 publication 12738736 18 31 1328 133 ADM adrenomedullin clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 78 2.8 up 2 0 2/0 2.8 1 59 2.80 2.80 D14874 D14874 Adrenomedullin AM 2.8 2.80 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 3 6 124 134 ADORA1 adenosine A1 receptor clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 16 8.1 up 1 0 1/0 8.1 1 16 8.10 8.10 L22214 L22214 Adenosine A1 receptor ADORA1 8.1 8.10 up yes 0.0003 PTC Norm 8 8 suppl. materials 11752453 24 33 1505 143 PARP4 poly (ADP-ribose) polymerase family, member 4 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 32 2.07 up 1 0 1/0 2.07 1 32 2.07 2.07 ADP-ribosyltransferase (NAD+; poly(ADP-ribose) polymerase)-like 1 ADPRTL1 1.05 2.07 up PTC Norm 16 16 publication 15735049 12 19 849 196 AHR aryl hydrocarbon receptor clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 49 3.2 even 1 1 1/1 3.2 1 21 3.20 3.20 L19872 L19872 AHR 3.2 3.20 up PTC Norm 18 3 publication 12538453 4 7 265 196 AHR aryl hydrocarbon receptor affy_probe_2_Entrez 2 2 49 3.2 even 1 1 1/1 3.2 1 21 3.20 3.20 40516_at 40516_at aryl hydrocarbon receptor_AHR AHR down FTC PTC;Norm 9 19 provided by authors 15337802 1 1 9 208 AKT2 v-akt murine thymoma viral oncogene homolog 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 6.02 up 1 0 1/0 6.02 1 2 6.02 6.02 M77198 M77198 Rac protein kinase beta 6.02 6.02 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 18 31 1379 221 ALDH3B1 aldehyde dehydrogenase 3 family, member B1 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 114 7.12 up 2 0 2/0 3.56 2 114 5.02 2.10 U10868 U10868 Aldehyde dehydrogenase 7 ALDH7 2.1 2.10 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1577 221 ALDH3B1 aldehyde dehydrogenase 3 family, member B1 affy_probe_2_Entrez 2 2 114 7.12 up 2 0 2/0 3.56 2 114 5.02 2.10 205640_at 205640_at aldehyde dehydrogenase 3 family, member B1 ALDH3B1 5.022 5.02 up 0.006205547 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 17 29 1288 226 ALDOA aldolase A, fructose-bisphosphate tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 up 1 0 1/0 0 0 0 0 0 GCGACCGTCA GCGACCGTCA up PTC FA 1 1 publication 11076659 25 34 1639 274 BIN1 bridging integrator 1 affy_probe_2_Entrez 1 1 55 -2.05 down 1 0 0/1 -2.05 1 55 -2.05 -2.05 202931_x_at 202931_x_at bridging integrator 1 BIN1 -2.045 -2.05 down 0.000707103 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 18 31 1337 284 ANGPT1 angiopoietin 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -2.7 down 1 0 0/1 -2.7 1 59 -2.70 -2.70 U83508 U83508 Angiopoietin-1 ANG1 2.7 -2.70 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1725 287 ANK2 ankyrin 2, neuronal affy_probe_2_Entrez 1 1 55 -3.91 down 1 0 0/1 -3.91 1 55 -3.91 -3.91 202920_at 202920_at ankyrin 2, neuronal ANK2 -3.907 -3.91 down 0.001598156 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 18 31 1352 301 ANXA1 annexin A1 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 111 -0.7 up 2 1 2/1 -0.35 2 83 2.40 -3.10 X05908 X05908 Lipocortin LPC1 2.4 2.40 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 4 8 340 301 ANXA1 annexin A1 affy_probe_2_Entrez 3 3 111 -0.7 up 2 1 2/1 -0.35 2 83 2.40 -3.10 37403_at 37403_at annexin A1_ANXA1 ANXA1 up PTC FTC;Norm 6 22 provided by authors 15337802 9 14 640 301 ANXA1 annexin A1 affy_probe_2_Entrez 3 3 111 -0.7 up 2 1 2/1 -0.35 2 83 2.40 -3.10 201012_at 201012_at annexin A1 -3.1 -3.10 down 0.000433 FA FTC 12 12 provided by authors 15713710 11 18 779 302 ANXA2 annexin A2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 D00017 D00017 Annexin A2 up ACL;ATC Norm 21 10 publication 15613457 4 7 201 306 ANXA3 annexin A3 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 31792_at 31792_at annexin A3_ANXA3 ANXA3 down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 267 307 ANXA4 annexin A4 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 37374_at 37374_at annexin A4_ANXA4 ANXA4 down FTC PTC;Norm 9 19 provided by authors 15337802 15 23 1132 308 ANXA5 annexin A5 Gene_symbol_2_NCBI_Entrez 2 2 33 3 even 1 1 1/1 3 1 5 3.00 3.00 Annexin A5 ANXA5 3 3.00 up FVPTC PTC 3 2 publication 15475448 4 7 279 308 ANXA5 annexin A5 affy_probe_2_Entrez 2 2 33 3 even 1 1 1/1 3 1 5 3.00 3.00 37747_at 37747_at annexin A5_ANXA5 ANXA5 down FTC PTC;Norm 9 19 provided by authors 15337802 25 34 1710 316 AOX1 aldehyde oxidase 1 affy_probe_2_Entrez 1 1 55 -5.42 down 1 0 0/1 -5.42 1 55 -5.42 -5.42 205082_s_at 205082_s_at aldehyde oxidase 1 AOX1 -3.450 -3.45 down 0.000290156 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1746 316 AOX1 aldehyde oxidase 1 affy_probe_2_Entrez 1 1 55 -5.42 down 1 0 0/1 -5.42 1 55 -5.42 -5.42 205083_at 205083_at aldehyde oxidase 1 AOX1 -5.418 -5.42 down 2.51791E-10 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 22 1059 328 APEX1 APEX nuclease (multifunctional DNA repair enzyme) 1 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 7 -5 down 1 0 0/1 -5 1 7 -5.00 -5.00 Multifunctional DNA repair enzyme APEX 0.2 -5.00 down FTC FA 3 4 publication 15475448 15 23 1187 333 APLP1 amyloid beta (A4) precursor-like protein 1 Gene_symbol_2_NCBI_Entrez 1 1 5 -2 down 1 0 0/1 -2 1 5 -2.00 -2.00 Amyloid beta (A4) precursor-like protein 1 APLP1 0.5 -2.00 down FVPTC PTC 3 2 publication 15475448 9 14 649 334 APLP2 amyloid beta (A4) precursor-like protein 2 affy_probe_2_Entrez 1 1 24 -3.24 down 1 0 0/1 -3.24 1 24 -3.24 -3.24 214875_x_at 214875_x_at amyloid beta (A4) precursor-like protein 2 -3.24 -3.24 down 0.0001 FA FTC 12 12 provided by authors 15713710 4 7 286 341 APOC1 apolipoprotein C-I affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 41764_at 41764_at apolipoprotein C-I_APOC1 APOC1 down FTC PTC;Norm 9 19 provided by authors 15337802 10 15 708 347 APOD apolipoprotein D affy_probe_2_Entrez 2 2 28 -19.1 down 2 0 0/2 -9.55 2 28 -6.10 -13.00 36681_at 36681_at Apolipoprotein D APOD -13 -13.00 down no GT Norm 6 6 publication 15515157 3 6 158 347 APOD apolipoprotein D clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 28 -19.1 down 2 0 0/2 -9.55 2 28 -6.10 -13.00 J02611 J02611 Apolipoprotein D APOD -6.1 -6.10 down no 0.0133 PTC Norm 8 8 suppl. materials 11752453 18 31 1329 348 APOE apolipoprotein E clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 2.8 up 1 0 1/0 2.8 1 59 2.80 2.80 M12529 M12529 Apolipoprotein E precursor APOE 2.8 2.80 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 11 18 792 361 AQP4 aquaporin 4 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 38 -2 down 2 0 0/2 -2 1 7 -2.00 -2.00 D63412 D63412 Aquaporin down ACL;ATC Norm 21 10 publication 15613457 15 22 1038 361 AQP4 aquaporin 4 Gene_symbol_2_NCBI_Entrez 2 2 38 -2 down 2 0 0/2 -2 1 7 -2.00 -2.00 Aquaporin 4 AQP4 0.5 -2.00 down FTC FA 3 4 publication 15475448 15 23 1136 372 ARCN1 archain 1 Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Archain 1 ARCN1 3 3.00 up FVPTC PTC 3 2 publication 15475448 11 18 813 379 ARF4L ADP-ribosylation factor 4-like clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 NM_001661 NM_001661 ADP-ribosylation factor down ACL;ATC Norm 21 10 publication 15613457 5 10 381 384 ARG2 arginase, type II tag_2_refseq_or_mgc_2_Entrez 1 1 3 0 up 1 0 1/0 0 0 0 0 0 TTTCACAACA TTTCACAACA ARG2 up yes FTC FA;Norm 1 2 publication 15085203 15 23 1098 387 RHOA ras homolog gene family, member A Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 4 up 1 0 1/0 4 1 5 4.00 4.00 Ras homolog gene family, member A ARHA 4 4.00 up FVPTC PTC 3 2 publication 15475448 1 1 50 390 RND3 Rho family GTPase 3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -11.11 down 1 0 0/1 -11.11 1 2 -11.11 -11.11 X95282 X95282 Pho8 protein 0.09 -11.11 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 15 22 1048 400 ARL1 ADP-ribosylation factor-like 1 Gene_symbol_2_NCBI_Entrez 1 1 7 -2.5 down 1 0 0/1 -2.5 1 7 -2.50 -2.50 ADP-ribosylation factor-like 1 ARL1 0.4 -2.50 down FTC FA 3 4 publication 15475448 15 23 1102 429 ASCL1 achaete-scute complex-like 1 (Drosophila) Gene_symbol_2_NCBI_Entrez 1 1 5 4 up 1 0 1/0 4 1 5 4.00 4.00 Mammalian achaete-scute homolog-1 ASCL1 4 4.00 up FVPTC PTC 3 2 publication 15475448 13 20 865 440 ASNS asparagine synthetase clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 43 3.09 up 2 0 2/0 3.09 1 24 3.09 3.09 M27396 M27396 Asparagine synthetase ASNS up FTC FA 9 10 publication 12738736 9 14 613 440 ASNS asparagine synthetase affy_probe_2_Entrez 2 2 43 3.09 up 2 0 2/0 3.09 1 24 3.09 3.09 205047_s_at 205047_s_at asparagine synthetase 3.09 3.09 up 0.002073 FA FTC 12 12 provided by authors 15713710 11 18 815 479 ATP12A ATPase, H+/K+ transporting, nongastric, alpha polypeptide clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 U02076 U02076 ATP-driven ion pump (ATP1AL1) down ACL;ATC Norm 21 10 publication 15613457 15 23 1133 491 ATP2B2 ATPase, Ca++ transporting, plasma membrane 2 Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 ATPase Ca ATP2B2 3 3.00 up FVPTC PTC 3 2 publication 15475448 11 18 777 498 ATP5A1 ATP synthase, H+ transporting, mitochondrial F1 complex, alpha subunit, isoform 1, cardiac muscle clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 BT007209 BT007209 ATP5A1 up yes ACL;ATC Norm 21 10 publication 15613457 16 24 1224 501 ALDH7A1 aldehyde dehydrogenase 7 family, member A1 Gene_symbol_2_NCBI_Entrez 1 1 63 -1.68 down 1 0 0/1 -1.68 1 63 -1.68 -1.68 ALDH7A1 0.596273292 -1.68 down 0.04 PTC;FVPTC FA;HN 32 31 publication 15087409 1 1 24 558 AXL AXL receptor tyrosine kinase clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.22 down 1 0 0/1 -2.22 1 2 -2.22 -2.22 M76125 M76125 AXL tyrosine kinase receptor 0.45 -2.22 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 13 20 867 581 BAX BCL2-associated X protein clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 U19599 U19599 Bcl-2-associated X protein BAX up FTC FA 9 10 publication 12738736 14 21 995 595 CCND1 cyclin D1 (PRAD1: parathyroid adenomatosis 1) Gene_symbol_2_NCBI_Entrez 6 6 136 6.42 up 5 1 5/1 1.605 4 94 3.37 -2.44 cyclin D1 CCND1 up PTC Norm 7 7 publication The gene name for this entry was determined manually from the description 15041723 15 23 1104 595 CCND1 cyclin D1 (PRAD1: parathyroid adenomatosis 1) Gene_symbol_2_NCBI_Entrez 6 6 136 6.42 up 5 1 5/1 1.605 4 94 3.37 -2.44 Cyclin D1 CCND1 3 3.00 up FVPTC PTC 3 2 publication 15475448 24 33 1499 595 CCND1 cyclin D1 (PRAD1: parathyroid adenomatosis 1) Gene_symbol_2_NCBI_Entrez 6 6 136 6.42 up 5 1 5/1 1.605 4 94 3.37 -2.44 Cyclin D1 (PRAD1: parathyroid adenomatosis 1) CCND1 1.315 2.49 up PTC Norm 16 16 publication 15735049 25 34 1591 595 CCND1 cyclin D1 (PRAD1: parathyroid adenomatosis 1) affy_probe_2_Entrez 6 6 136 6.42 up 5 1 5/1 1.605 4 94 3.37 -2.44 208712_at 208712_at cyclin D1 (PRAD1: parathyroid adenomatosis 1) CCND1 3.547 3.55 up 9.91401E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1594 595 CCND1 cyclin D1 (PRAD1: parathyroid adenomatosis 1) affy_probe_2_Entrez 6 6 136 6.42 up 5 1 5/1 1.605 4 94 3.37 -2.44 208711_s_at 208711_s_at cyclin D1 (PRAD1: parathyroid adenomatosis 1) CCND1 3.368 3.37 up 0.007940327 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 8 341 595 CCND1 cyclin D1 (PRAD1: parathyroid adenomatosis 1) affy_probe_2_Entrez 6 6 136 6.42 up 5 1 5/1 1.605 4 94 3.37 -2.44 2017_s_at 2017_s_at cyclin D1 (PRAD1: parathyroid adenomatosis 1)_CCND1 CCND1 up PTC FTC;Norm 6 22 provided by authors 15337802 4 8 351 595 CCND1 cyclin D1 (PRAD1: parathyroid adenomatosis 1) affy_probe_2_Entrez 6 6 136 6.42 up 5 1 5/1 1.605 4 94 3.37 -2.44 38418_at 38418_at cyclin D1 (PRAD1: parathyroid adenomatosis 1)_CCND1 CCND1 up PTC FTC;Norm 6 22 provided by authors 15337802 4 8 352 595 CCND1 cyclin D1 (PRAD1: parathyroid adenomatosis 1) affy_probe_2_Entrez 6 6 136 6.42 up 5 1 5/1 1.605 4 94 3.37 -2.44 2020_at 2020_at cyclin D1 (PRAD1: parathyroid adenomatosis 1)_CCND1 CCND1 up PTC FTC;Norm 6 22 provided by authors 15337802 8 13 596 595 CCND1 cyclin D1 (PRAD1: parathyroid adenomatosis 1) clone_accession_2_NCBI_rna_accession_2_Entrez 6 6 136 6.42 up 5 1 5/1 1.605 4 94 3.37 -2.44 X59798 X59798 Cyclin D1 (CCND1); cyclin PRAD1; bcl-1 oncogene 0.41 -2.44 down M-ACL ACL 1 1 publication 15579771 3 6 138 596 BCL2 B-cell CLL/lymphoma 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 16 -2.2 down 1 0 0/1 -2.2 1 16 -2.20 -2.20 M14745 M14745 Bcl-2 BCL2 -2.2 -2.20 down no 0.0005 PTC Norm 8 8 suppl. materials 11752453 18 31 1396 622 BDH 3-hydroxybutyrate dehydrogenase (heart, mitochondrial) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -2 down 1 0 0/1 -2 1 59 -2.00 -2.00 M93107 M93107 Heart (R)-3-hydroxybutyrate dehydrogenase BDH 2 -2.00 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 15 23 1183 632 BGLAP bone gamma-carboxyglutamate (gla) protein (osteocalcin) Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Bone gamma-carboxyglutamate (gla) protein (osteocalcin) BGLAP 2 2.00 up FVPTC PTC 3 2 publication 15475448 1 1 45 633 BGN biglycan clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -9.09 down 1 0 0/1 -9.09 1 2 -9.09 -9.09 J04599 J04599 Byglycan 0.11 -9.09 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 24 33 1509 649 BMP1 bone morphogenetic protein 1 Gene_symbol_2_NCBI_Entrez 2 2 87 4.03 up 2 0 2/0 2.015 2 87 2.08 1.95 Bone morphogenetic protein 1 BMP1 0.965 1.95 up PTC Norm 16 16 publication 15735049 25 34 1633 649 BMP1 bone morphogenetic protein 1 affy_probe_2_Entrez 2 2 87 4.03 up 2 0 2/0 2.015 2 87 2.08 1.95 205574_x_at 205574_x_at bone morphogenetic protein 1 BMP1 2.080 2.08 up 0.015787118 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1697 650 BMP2 bone morphogenetic protein 2 affy_probe_2_Entrez 1 1 55 -3.11 down 1 0 0/1 -3.11 1 55 -3.11 -3.11 205290_s_at 205290_s_at bone morphogenetic protein 2 BMP2 -3.107 -3.11 down 0.001274387 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 14 21 1005 653 BMP5 bone morphogenetic protein 5 Gene_symbol_2_NCBI_Entrez 1 1 14 0 up 1 0 1/0 0 0 0 0 0 BMP5 BMP5 up PTC Norm 7 7 publication The gene name for this entry was determined manually from the description 15041723 11 18 829 658 BMPR1B bone morphogenetic protein receptor, type IB clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 U89326 U89326 Bone morphogenetic protein receptor type I (ALK-6) down ACL;ATC Norm 21 10 publication 15613457 2 4 98 663 BNIP2 BCL2/adenovirus E1B 19kDa interacting protein 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -8.2 down 1 0 0/1 -8.2 1 2 -8.20 -8.20 NM_004330 NM_004330 BCL2/adenovirus E1B 19kd interacting protein 2 BNP2 8.2 -8.20 down PCL Norm 1 1 publication 15785240 15 22 1050 664 BNIP3 BCL2/adenovirus E1B 19kDa interacting protein 3 Gene_symbol_2_NCBI_Entrez 1 1 7 -3.33 down 1 0 0/1 -3.33 1 7 -3.33 -3.33 BCL2 interacting protein 3 BNIP3 0.3 -3.33 down FTC FA 3 4 publication 15475448 18 31 1371 672 BRCA1 breast cancer 1, early onset clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -2.2 down 1 0 0/1 -2.2 1 59 -2.20 -2.20 L78833 L78833 L21 ribosomal protein pseudogene PSCP 2.2 -2.20 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 18 31 1372 678 ZFP36L2 zinc finger protein 36, C3H type-like 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -2.2 down 1 0 0/1 -2.2 1 59 -2.20 -2.20 U07802 U07802 Tis11d early response gene TIS11D 2.2 -2.20 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 1 1 1 682 BSG basigin (OK blood group) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 21 62.75 up 2 0 2/0 62.75 1 2 62.75 62.75 L20471 L20471 Extracellular matrix metalloproteinase inducer emmprin 62.75 62.75 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 13 20 866 682 BSG basigin (OK blood group) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 21 62.75 up 2 0 2/0 62.75 1 2 62.75 62.75 X64364 X64364 Basigin (OK blood group) BSG up yes FTC FA 9 10 publication 12738736 4 7 284 710 SERPING1 serine (or cysteine) proteinase inhibitor, clade G (C1 inhibitor), member 1, (angioedema, hereditary) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 39775_at 39775_at serine (or cysteine) proteinase inhibitor, clade G (C1 inhibitor), member 1, (angioedema, hereditary)_SERPING1 SERPING1 down FTC PTC;Norm 9 19 provided by authors 15337802 16 24 1244 744 C11orf8 chromosome 11 open reading frame 8 Gene_symbol_2_NCBI_Entrez 3 3 134 -21.14 down 3 0 0/3 -7.04666666666667 3 134 -2.25 -12.49 C11orf8 0.444444444 -2.25 down yes 0.02 PTC;FVPTC FA;HN 32 31 publication 15087409 25 34 1751 744 C11orf8 chromosome 11 open reading frame 8 affy_probe_2_Entrez 3 3 134 -21.14 down 3 0 0/3 -7.04666666666667 3 134 -2.25 -12.49 215692_s_at 215692_s_at chromosome 11 open reading frame 8 C11orf8 -5.823 -5.82 down 1.41784E-06 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1778 744 C11orf8 chromosome 11 open reading frame 8 affy_probe_2_Entrez 3 3 134 -21.14 down 3 0 0/3 -7.04666666666667 3 134 -2.25 -12.49 205413_at 205413_at chromosome 11 open reading frame 8 C11orf8 -12.491 -12.49 down 0.001239578 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 3 6 159 744 C11orf8 chromosome 11 open reading frame 8 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 134 -21.14 down 3 0 0/3 -7.04666666666667 3 134 -2.25 -12.49 U57911 U57911 Chromosome 11 open reading frame 8 C11ORF8 -6.4 -6.40 down no 0.003 PTC Norm 8 8 suppl. materials 11752453 13 20 873 753 C18orf1 chromosome 18 open reading frame 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 AF009426 AF009426 Chromosome 18 open-reading frame 1 C18orf1 up FTC FA 9 10 publication 12738736 16 24 1223 757 TMEM50B transmembrane protein 50B Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 63 -1.67 down 1 0 0/1 -1.67 1 63 -1.67 -1.67 C21orf4 0.597402597 -1.67 down yes 0.0001 PTC;FVPTC FA;HN 32 31 publication 15087409 13 20 925 762 CA4 carbonic anhydrase IV clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 157 -10.44 down 4 0 0/4 -3.48 3 138 -2.70 -4.61 M83670 M83670 Carbonic anhydrase IV CA4 down FTC FA 9 10 publication 12738736 18 31 1338 762 CA4 carbonic anhydrase IV clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 157 -10.44 down 4 0 0/4 -3.48 3 138 -2.70 -4.61 M83670 M83670 Carbonic anhydrase IV CAIV 2.7 -2.70 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1733 762 CA4 carbonic anhydrase IV affy_probe_2_Entrez 4 4 157 -10.44 down 4 0 0/4 -3.48 3 138 -2.70 -4.61 206209_s_at 206209_s_at carbonic anhydrase IV CA4 -4.612 -4.61 down 0.002308296 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 9 14 643 762 CA4 carbonic anhydrase IV affy_probe_2_Entrez 4 4 157 -10.44 down 4 0 0/4 -3.48 3 138 -2.70 -4.61 206209_s_at 206209_s_at carbonic anhydrase IV -3.13 -3.13 down 0.002362 FA FTC 12 12 provided by authors 15713710 11 18 808 771 CA12 carbonic anhydrase XII clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 109 3.3 up 2 1 2/1 3.3 1 59 3.30 3.30 AF037335 AF037335 Carbonic anhydrase precursor (CA 12) down ACL;ATC Norm 21 10 publication 15613457 13 20 869 771 CA12 carbonic anhydrase XII clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 109 3.3 up 2 1 2/1 3.3 1 59 3.30 3.30 AF037335 AF037335 Carbonic anhydrase XII CA12 up FTC FA 9 10 publication 12738736 18 31 1319 771 CA12 carbonic anhydrase XII clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 109 3.3 up 2 1 2/1 3.3 1 59 3.30 3.30 AF037335 AF037335 Carbonic anhydrase precursor CA 12 3.3 3.30 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 13 20 908 778 CACNA1F calcium channel, voltage-dependent, alpha 1F subunit clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 U93305 U93305 Proteolipid protein 2 PLP2 up FTC FA 9 10 publication 12738736 4 7 185 800 CALD1 caldesmon 1 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 41739_s_at 41739_s_at caldesmon 1_CALD1 CALD1 down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 252 800 CALD1 caldesmon 1 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 41738_at 41738_at caldesmon 1_CALD1 CALD1 down FTC PTC;Norm 9 19 provided by authors 15337802 11 18 830 811 CALR calreticulin clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 M84739 M84739 Autoantigen calreticulin (CALR) down ACL;ATC Norm 21 10 publication 15613457 1 1 27 834 CASP1 caspase 1, apoptosis-related cysteine protease (interleukin 1, beta, convertase) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.38 down 1 0 0/1 -2.38 1 2 -2.38 -2.38 U13699 U13699 Caspase-1 0.42 -2.38 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 2 2 71 837 CASP4 caspase 4, apoptosis-related cysteine protease clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -7.6 down 1 0 0/1 -7.6 1 2 -7.60 -7.60 NM_001225 NM_001225 Caspase 4, apoptosis-related cysteine protease CASP4 7.6 -7.60 down FCL Norm 1 1 publication 15785240 15 22 1036 846 CASR calcium-sensing receptor (hypocalciuric hypercalcemia 1, severe neonatal hyperparathyroidism) Gene_symbol_2_NCBI_Entrez 1 1 7 -2 down 1 0 0/1 -2 1 7 -2.00 -2.00 Calcium-sensing receptor CASR 0.5 -2.00 down FTC FA 3 4 publication 15475448 4 7 172 857 CAV1 caveolin 1, caveolae protein, 22kDa affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 36119_at 36119_at caveolin 1, caveolae protein, 22kDa_CAV1 CAV1 down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 168 858 CAV2 caveolin 2 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 339_at 339_at caveolin 2_CAV2 CAV2 down FTC PTC;Norm 9 19 provided by authors 15337802 25 34 1665 862 RUNX1T1 runt-related transcription factor 1; translocated to, 1 (cyclin D-related) affy_probe_2_Entrez 1 1 55 -2.49 down 1 0 0/1 -2.49 1 55 -2.49 -2.49 205529_s_at 205529_s_at core-binding factor, runt domain, alpha subunit 2; translocated to, 1; cyclin D-related CBFA2T1 -2.493 -2.49 down 0.000490859 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 13 20 874 875 CBS cystathionine-beta-synthase clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 L00972 L00972 Cystathionine-beta-synthetase CBS up FTC FA 9 10 publication 12738736 1 1 19 890 CCNA2 cyclin A2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2 down 1 0 0/1 -2 1 2 -2.00 -2.00 X51688 X51688 Cyclin A 0.5 -2.00 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 2 2 79 894 CCND2 cyclin D2 clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 86 -15.64 down 3 1 1/3 -5.21333333333333 3 58 2.48 -11.72 NM_001759 NM_001759 Cyclin D2 CCND2 6.4 -6.40 down FCL Norm 1 1 publication 15785240 24 33 1500 894 CCND2 cyclin D2 Gene_symbol_2_NCBI_Entrez 4 4 86 -15.64 down 3 1 1/3 -5.21333333333333 3 58 2.48 -11.72 Cyclin D2 CCND2 1.31 2.48 up PTC Norm 16 16 publication 15735049 4 7 190 894 CCND2 cyclin D2 affy_probe_2_Entrez 4 4 86 -15.64 down 3 1 1/3 -5.21333333333333 3 58 2.48 -11.72 36650_at 36650_at cyclin D2_CCND2 CCND2 down FTC PTC;Norm 9 19 provided by authors 15337802 9 14 677 894 CCND2 cyclin D2 affy_probe_2_Entrez 4 4 86 -15.64 down 3 1 1/3 -5.21333333333333 3 58 2.48 -11.72 200953_s_at 200953_s_at cyclin D2 -3.9 -3.90 down 0.000164 FA FTC 12 12 provided by authors 15713710 9 14 700 894 CCND2 cyclin D2 affy_probe_2_Entrez 4 4 86 -15.64 down 3 1 1/3 -5.21333333333333 3 58 2.48 -11.72 200952_s_at 200952_s_at cyclin D2 -11.72 -11.72 down 0.00255 FA FTC 12 12 provided by authors 15713710 14 21 979 900 CCNG1 cyclin G1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 2.8 up 1 0 1/0 2.8 1 14 2.80 2.80 AA082943 AA082943 Cyclin G1 2.8 2.80 up PTC Norm 7 7 publication 15041723 14 21 994 902 CCNH cyclin H Gene_symbol_2_NCBI_Entrez 1 1 14 0 up 1 0 1/0 0 0 0 0 0 Tetracycline transporter-like protein Cyclin H CCNH up PTC Norm 7 7 publication The gene name for this entry was determined manually from the description 15041723 11 18 834 909 CD1A CD1A antigen, a polypeptide clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 X04450 X04450 CD1a antigen (CD1a gene) down ACL;ATC Norm 21 10 publication 15613457 1 1 17 928 CD9 CD9 antigen (p24) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 32 7.16 up 2 1 2/1 3.58 2 4 4.70 2.46 M38690 M38690 CD9 2.46 2.46 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 4 7 290 928 CD9 CD9 antigen (p24) affy_probe_2_Entrez 3 3 32 7.16 up 2 1 2/1 3.58 2 4 4.70 2.46 39389_at 39389_at CD9 antigen (p24)_CD9 CD9 down FTC PTC;Norm 9 19 provided by authors 15337802 8 13 544 928 CD9 CD9 antigen (p24) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 32 7.16 up 2 1 2/1 3.58 2 4 4.70 2.46 M38690 M38690 CD9 antigen (p24); motility-related protein-1 (MRP-1) 4.7 4.70 up M-ACL ACL 1 1 publication 15579771 11 18 795 947 CD34 CD34 antigen clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 S53911 S53911 CD34 down ACL;ATC Norm 21 10 publication 15613457 9 14 657 948 CD36 CD36 antigen (collagen type I receptor, thrombospondin receptor) affy_probe_2_Entrez 1 1 24 -3.42 down 1 0 0/1 -3.42 1 24 -3.42 -3.42 206488_s_at 206488_s_at CD36 antigen (collagen type I receptor, thrombospondin receptor) -3.42 -3.42 down 0.000077 FA FTC 12 12 provided by authors 15713710 15 23 1142 949 SCARB1 scavenger receptor class B, member 1 Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Scavenger receptor class B, member 1 SCARB1 2 2.00 up FVPTC PTC 3 2 publication 15475448 25 34 1551 953 ENTPD1 ectonucleoside triphosphate diphosphohydrolase 1 affy_probe_2_Entrez 2 2 79 -2.42 even 1 1 1/1 -1.21 2 79 6.40 -8.82 209474_s_at 209474_s_at ectonucleoside triphosphate diphosphohydrolase 1 ENTPD1 14.021 14.02 up 0.000215841 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1558 953 ENTPD1 ectonucleoside triphosphate diphosphohydrolase 1 affy_probe_2_Entrez 2 2 79 -2.42 even 1 1 1/1 -1.21 2 79 6.40 -8.82 207691_x_at 207691_x_at ectonucleoside triphosphate diphosphohydrolase 1 ENTPD1 9.429 9.43 up 0.001074251 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1568 953 ENTPD1 ectonucleoside triphosphate diphosphohydrolase 1 affy_probe_2_Entrez 2 2 79 -2.42 even 1 1 1/1 -1.21 2 79 6.40 -8.82 209473_at 209473_at ectonucleoside triphosphate diphosphohydrolase 1 ENTPD1 6.398 6.40 up 0.005195822 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 9 14 684 953 ENTPD1 ectonucleoside triphosphate diphosphohydrolase 1 affy_probe_2_Entrez 2 2 79 -2.42 even 1 1 1/1 -1.21 2 79 6.40 -8.82 209473_at 209473_at ectonucleoside triphosphate diphosphohydrolase 1 -4.2 -4.20 down 0.005397 FA FTC 12 12 provided by authors 15713710 9 14 693 953 ENTPD1 ectonucleoside triphosphate diphosphohydrolase 1 affy_probe_2_Entrez 2 2 79 -2.42 even 1 1 1/1 -1.21 2 79 6.40 -8.82 207691_x_at 207691_x_at ectonucleoside triphosphate diphosphohydrolase 1 -5.01 -5.01 down 0.007791 FA FTC 12 12 provided by authors 15713710 9 14 699 953 ENTPD1 ectonucleoside triphosphate diphosphohydrolase 1 affy_probe_2_Entrez 2 2 79 -2.42 even 1 1 1/1 -1.21 2 79 6.40 -8.82 209474_s_at 209474_s_at ectonucleoside triphosphate diphosphohydrolase 1 -8.82 -8.82 down 0.007519 FA FTC 12 12 provided by authors 15713710 24 33 1504 960 CD44 CD44 antigen (homing function and Indian blood group system) Gene_symbol_2_NCBI_Entrez 3 3 111 0.36 up 2 1 2/1 0.12 3 111 2.63 -4.51 CD44 antigen (homing function and Indian blood group system) CD44 1.165 2.24 up PTC Norm 16 16 publication 15735049 25 34 1605 960 CD44 CD44 antigen (homing function and Indian blood group system) affy_probe_2_Entrez 3 3 111 0.36 up 2 1 2/1 0.12 3 111 2.63 -4.51 204490_s_at 204490_s_at CD44 antigen (homing function and Indian blood group system) CD44 2.831 2.83 up 0.005179358 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1606 960 CD44 CD44 antigen (homing function and Indian blood group system) affy_probe_2_Entrez 3 3 111 0.36 up 2 1 2/1 0.12 3 111 2.63 -4.51 212014_x_at 212014_x_at CD44 antigen (homing function and Indian blood group system) CD44 2.819 2.82 up 0.009385995 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1610 960 CD44 CD44 antigen (homing function and Indian blood group system) affy_probe_2_Entrez 3 3 111 0.36 up 2 1 2/1 0.12 3 111 2.63 -4.51 209835_x_at 209835_x_at CD44 antigen (homing function and Indian blood group system) CD44 2.628 2.63 up 0.024470493 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 9 14 655 960 CD44 CD44 antigen (homing function and Indian blood group system) affy_probe_2_Entrez 3 3 111 0.36 up 2 1 2/1 0.12 3 111 2.63 -4.51 212014_x_at 212014_x_at CD44 antigen (homing function and Indian blood group system) -3.3 -3.30 down 0.001058 FA FTC 12 12 provided by authors 15713710 9 14 665 960 CD44 CD44 antigen (homing function and Indian blood group system) affy_probe_2_Entrez 3 3 111 0.36 up 2 1 2/1 0.12 3 111 2.63 -4.51 209835_x_at 209835_x_at CD44 antigen (homing function and Indian blood group system) -3.62 -3.62 down 0.000999 FA FTC 12 12 provided by authors 15713710 9 14 666 960 CD44 CD44 antigen (homing function and Indian blood group system) affy_probe_2_Entrez 3 3 111 0.36 up 2 1 2/1 0.12 3 111 2.63 -4.51 212063_at 212063_at CD44 antigen (homing function and Indian blood group system) -3.63 -3.63 down 0.000459 FA FTC 12 12 provided by authors 15713710 9 14 670 960 CD44 CD44 antigen (homing function and Indian blood group system) affy_probe_2_Entrez 3 3 111 0.36 up 2 1 2/1 0.12 3 111 2.63 -4.51 217523_at 217523_at ESTs, Highly similar to CD44_HUMAN CD44 antigen precursor -3.73 -3.73 down 0.000505 FA FTC 12 12 provided by authors 15713710 9 14 676 960 CD44 CD44 antigen (homing function and Indian blood group system) affy_probe_2_Entrez 3 3 111 0.36 up 2 1 2/1 0.12 3 111 2.63 -4.51 204490_s_at 204490_s_at CD44 antigen (homing function and Indian blood group system) -3.9 -3.90 down 0.000901 FA FTC 12 12 provided by authors 15713710 9 14 689 960 CD44 CD44 antigen (homing function and Indian blood group system) affy_probe_2_Entrez 3 3 111 0.36 up 2 1 2/1 0.12 3 111 2.63 -4.51 204489_s_at 204489_s_at CD44 antigen (homing function and Indian blood group system) -4.51 -4.51 down 0.001994 FA FTC 12 12 provided by authors 15713710 15 22 1025 961 CD47 CD47 antigen (Rh-related antigen, integrin-associated signal transducer) Gene_symbol_2_NCBI_Entrez 1 1 7 3 up 1 0 1/0 3 1 7 3.00 3.00 CD47 antigen CD47 3 3.00 up FTC FA 3 4 publication 15475448 8 13 580 966 CD59 CD59 antigen p18-20 (antigen identified by monoclonal antibodies 16.3A5, EJ16, EJ30, EL32 and G344) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.06 up 1 0 1/0 2.06 1 2 2.06 2.06 M34671 M34671 CD59 glycoprotein precursor; MAC inhibitory protein (MACIP) 2.06 2.06 up M-ACL ACL 1 1 publication 15579771 17 25 1252 972 CD74 CD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated) tag_2_refseq_or_mgc_2_Entrez 1 2 4 0 down 2 0 0/2 0 0 0 0 0 GTTCACATTA GTTCACATTA down FTC ATC 1 1 publication 11076659 17 28 1274 972 CD74 CD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated) tag_2_refseq_or_mgc_2_Entrez 1 2 4 0 down 2 0 0/2 0 0 0 0 0 GTTCACATTA GTTCACATTA down PTC ATC 1 1 publication 11076659 8 13 556 983 CDC2 cell division cycle 2, G1 to S and G2 to M clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.75 up 1 0 1/0 2.75 1 2 2.75 2.75 X05360 X05360 CDC2, cyclin-dependent kinase 1 (CDK1) 2.75 2.75 up M-ACL ACL 1 1 publication 15579771 3 6 143 984 CDC2L1 cell division cycle 2-like 1 (PITSLRE proteins) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 16 -2.4 down 1 0 0/1 -2.4 1 16 -2.40 -2.40 M37712 M37712 P58/GTA (galactosyltransferase associated protein kinase) CDC2L1 -2.4 -2.40 down no 0.0035 PTC Norm 8 8 suppl. materials 11752453 1 1 20 989 SEPT7 septin 7 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 6 4.35 up 2 1 2/1 1.45 3 6 3.36 -2.00 S72008 S72008 CDC 10 protein homolog 0.5 -2.00 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 2 2 72 989 SEPT7 septin 7 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 6 4.35 up 2 1 2/1 1.45 3 6 3.36 -2.00 NM_001788 NM_001788 CDC10 cell division cycle 10 homologue CDC10 7.4 -7.40 down FCL Norm 1 1 publication 15785240 2 2 84 989 SEPT7 septin 7 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 6 4.35 up 2 1 2/1 1.45 3 6 3.36 -2.00 NM_001788 NM_001788 Cell division cycle 10 homologue CDC10 3.36 3.36 up FCL Norm 1 1 publication 15785240 8 13 551 989 SEPT7 septin 7 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 6 4.35 up 2 1 2/1 1.45 3 6 3.36 -2.00 S72008 S72008 CDC10 protein homolog 2.99 2.99 up M-ACL ACL 1 1 publication 15579771 14 21 981 999 CDH1 cadherin 1, type 1, E-cadherin (epithelial) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 77 1.06 even 1 1 1/1 0.53 2 77 2.80 -1.74 H97778 H97778 E-cadherin 2.8 2.80 up PTC Norm 7 7 publication 15041723 16 24 1216 999 CDH1 cadherin 1, type 1, E-cadherin (epithelial) Gene_symbol_2_NCBI_Entrez 2 2 77 1.06 even 1 1 1/1 0.53 2 77 2.80 -1.74 CDH1 0.625954198 -1.60 down 0.04 PTC;FVPTC FA;HN 32 31 publication 15087409 16 24 1228 999 CDH1 cadherin 1, type 1, E-cadherin (epithelial) Gene_symbol_2_NCBI_Entrez 2 2 77 1.06 even 1 1 1/1 0.53 2 77 2.80 -1.74 CDH1 0.57615894 -1.74 down yes 0.001 PTC;FVPTC FA;HN 32 31 publication 15087409 24 33 1444 1001 CDH3 cadherin 3, type 1, P-cadherin (placental) Gene_symbol_2_NCBI_Entrez 3 3 89 94.43 up 3 0 3/0 31.4766666666667 3 89 48.84 4.61 Cadherin 3, type 1, P-cadherin (placental) CDH3 5.61 48.84 up PTC Norm 16 16 publication 15735049 25 34 1545 1001 CDH3 cadherin 3, type 1, P-cadherin (placental) affy_probe_2_Entrez 3 3 89 94.43 up 3 0 3/0 31.4766666666667 3 89 48.84 4.61 203256_at 203256_at cadherin 3, type 1, P-cadherin (placental) CDH3 40.978 40.98 up 1.95563E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 8 13 545 1001 CDH3 cadherin 3, type 1, P-cadherin (placental) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 89 94.43 up 3 0 3/0 31.4766666666667 3 89 48.84 4.61 X63629 X63629 Cadherin 3 (CDH3); placental cadherin precursor (P-cadherin; CDHP) 4.61 4.61 up M-ACL ACL 1 1 publication 15579771 2 4 104 1006 CDH8 cadherin 8, type 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -4.2 down 1 0 0/1 -4.2 1 2 -4.20 -4.20 NM_001796 NM_001796 Cadherin 8, type 2 CDH8 4.2 -4.20 down yes PCL Norm 1 1 publication 15785240 25 34 1773 1014 CDH16 cadherin 16, KSP-cadherin affy_probe_2_Entrez 1 1 55 -9.33 down 1 0 0/1 -9.33 1 55 -9.33 -9.33 206517_at 206517_at cadherin 16, KSP-cadherin CDH16 -9.334 -9.33 down 3.20661E-06 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 14 21 993 1015 CDH17 cadherin 17, LI cadherin (liver-intestine) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 2 up 1 0 1/0 2 1 14 2.00 2.00 AA088861 AA088861 LI-cadherin 2 2.00 up PTC Norm 7 7 publication 15041723 1 1 3 1032 CDKN2D cyclin-dependent kinase inhibitor 2D (p19, inhibits CDK4) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 21.95 up 1 0 1/0 21.95 1 2 21.95 21.95 U40343 U40343 CDK inhibitor p19 (INK4d) 21.95 21.95 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 25 34 1635 1039 CDR2 cerebellar degeneration-related protein 2, 62kDa affy_probe_2_Entrez 1 1 55 -2 down 1 0 0/1 -2 1 55 -2.00 -2.00 209501_at 209501_at cerebellar degeneration-related protein 2, 62kDa CDR2 -2.004 -2.00 down 0.000976225 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 7 251 1051 CEBPB CCAAT/enhancer binding protein (C/EBP), beta affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 38354_at 38354_at CCAAT/enhancer binding protein (C/EBP), beta_CEBPB CEBPB down FTC PTC;Norm 9 19 provided by authors 15337802 13 20 870 1054 CEBPG CCAAT/enhancer binding protein (C/EBP), gamma clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 U20240 U20240 CCAAT/enhancer binding protein (C/EBP), CEBPG up FTC FA 9 10 publication 12738736 15 23 1087 1060 CENPC1 centromere protein C 1 Gene_symbol_2_NCBI_Entrez 1 1 5 4 up 1 0 1/0 4 1 5 4.00 4.00 Centromere protein C 1 CENPC1 4 4.00 up FVPTC PTC 3 2 publication 15475448 24 33 1479 1075 CTSC cathepsin C Gene_symbol_2_NCBI_Entrez 2 2 60 4.72 up 2 0 2/0 4.72 1 32 4.72 4.72 Cathepsin C CTSC 2.24 4.72 up PTC Norm 16 16 publication 15735049 4 8 373 1075 CTSC cathepsin C affy_probe_2_Entrez 2 2 60 4.72 up 2 0 2/0 4.72 1 32 4.72 4.72 133_at 133_at cathepsin C_CTSC CTSC up PTC FTC;Norm 6 22 provided by authors 15337802 11 18 786 1087 CEACAM7 carcinoembryonic antigen-related cell adhesion molecule 7 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 33 3.23 even 1 1 1/1 3.23 1 2 3.23 3.23 L31792 L31792 Carcinoembryonic antigen (CGM2) down ACL;ATC Norm 21 10 publication 15613457 2 2 85 1087 CEACAM7 carcinoembryonic antigen-related cell adhesion molecule 7 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 33 3.23 even 1 1 1/1 3.23 1 2 3.23 3.23 NM_006890 NM_006890 Carcinoembryonic antigen-related cell adhesion molecule 7 CEACAM7 3.23 3.23 up FCL Norm 1 1 publication 15785240 14 21 991 1107 CHD3 chromodomain helicase DNA binding protein 3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 2 up 1 0 1/0 2 1 14 2.00 2.00 AA778077 AA778077 Chromodomain helicase DNA binding protein 3 2 2.00 up PTC Norm 7 7 publication 15041723 25 34 1727 1113 CHGA chromogranin A (parathyroid secretory protein 1) affy_probe_2_Entrez 1 1 55 -4.02 down 1 0 0/1 -4.02 1 55 -4.02 -4.02 204697_s_at 204697_s_at chromogranin A (parathyroid secretory protein 1) CHGA -4.017 -4.02 down 0.013328833 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 24 33 1445 1116 CHI3L1 chitinase 3-like 1 (cartilage glycoprotein-39) Gene_symbol_2_NCBI_Entrez 3 3 76 49.56 up 3 0 3/0 24.78 2 48 27.70 21.86 Chitinase 3-like 1 (cartilage glycoprotein-39) CHI3L1 4.45 21.86 up PTC Norm 16 16 publication 15735049 3 6 114 1116 CHI3L1 chitinase 3-like 1 (cartilage glycoprotein-39) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 76 49.56 up 3 0 3/0 24.78 2 48 27.70 21.86 Y08374 Y08374 Cartilage GP-39 CHI3L1 27.7 27.70 up yes 0.002 PTC Norm 8 8 suppl. materials 11752453 4 8 326 1116 CHI3L1 chitinase 3-like 1 (cartilage glycoprotein-39) affy_probe_2_Entrez 3 3 76 49.56 up 3 0 3/0 24.78 2 48 27.70 21.86 36197_at 36197_at chitinase 3-like 1 (cartilage glycoprotein-39)_CHI3L1 CHI3L1 up PTC FTC;Norm 6 22 provided by authors 15337802 18 31 1324 1152 CKB creatine kinase, brain clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -3.1 down 1 0 0/1 -3.1 1 59 -3.10 -3.10 X15334 X15334 Creatine kinase B CKBB 3.1 -3.10 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 15 23 1078 1153 CIRBP cold inducible RNA binding protein Gene_symbol_2_NCBI_Entrez 1 1 5 6 up 1 0 1/0 6 1 5 6.00 6.00 Cold inducible RNA binding protein CIRBP 6 6.00 up FVPTC PTC 3 2 publication 15475448 2 3 95 1191 CLU clusterin (complement lysis inhibitor, SP-40,40, sulfated glycoprotein 2, testosterone-repressed prostate message 2, apolipoprotein J) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 44 -2.5 down 2 1 1/2 -2.5 1 4 -2.50 -2.50 NM_001831 NM_001831 Clusterin CLU 2.5 -2.50 down FCL;PCL;UCL Norm 3 1 publication 15785240 4 8 311 1191 CLU clusterin (complement lysis inhibitor, SP-40,40, sulfated glycoprotein 2, testosterone-repressed prostate message 2, apolipoprotein J) affy_probe_2_Entrez 3 3 44 -2.5 down 2 1 1/2 -2.5 1 4 -2.50 -2.50 36780_at 36780_at clusterin (complement lysis inhibitor, SP-40,40, sulfated glycoprotein 2, testosterone-repressed prostate message 2, apolipoprotein J)_CLU CLU up PTC FTC;Norm 6 22 provided by authors 15337802 6 11 393 1191 CLU clusterin (complement lysis inhibitor, SP-40,40, sulfated glycoprotein 2, testosterone-repressed prostate message 2, apolipoprotein J) Gene_symbol_2_NCBI_Entrez 3 3 44 -2.5 down 2 1 1/2 -2.5 1 4 -2.50 -2.50 Clusterin CLU down yes AFTN;CTN Norm 6 6 publication The gene name for this entry was determined manually from the description 11600550 1 1 13 1196 CLK2 CDC-like kinase 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 3.33 up 1 0 1/0 3.33 1 2 3.33 3.33 L29216 L29216 CLK-2 3.33 3.33 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 8 13 589 1198 CLK3 CDC-like kinase 3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.22 down 1 0 0/1 -2.22 1 2 -2.22 -2.22 L29220 L29220 CDC-like kinase 3 (CLK3) 0.45 -2.22 down M-ACL ACL 1 1 publication 15579771 15 23 1113 1266 CNN3 calponin 3, acidic Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Calponin 3, acidic CNN3 3 3.00 up FVPTC PTC 3 2 publication 15475448 17 26 1266 1277 COL1A1 collagen, type I, alpha 1 tag_2_refseq_or_mgc_2_Entrez 1 2 4 0 even 1 1 1/1 0 0 0 0 0 ACCAAAAACC ACCAAAAACC up FTC FA 1 1 publication 11076659 17 28 1275 1277 COL1A1 collagen, type I, alpha 1 tag_2_refseq_or_mgc_2_Entrez 1 2 4 0 even 1 1 1/1 0 0 0 0 0 TGGAAATGAC TGGAAATGAC down PTC ATC 1 1 publication 11076659 17 28 1277 1277 COL1A1 collagen, type I, alpha 1 tag_2_refseq_or_mgc_2_Entrez 1 2 4 0 even 1 1 1/1 0 0 0 0 0 ACCAAAAACC ACCAAAAACC down PTC ATC 1 1 publication 11076659 1 1 44 1278 COL1A2 collagen, type I, alpha 2 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 30 -8.33 down 2 0 0/2 -8.33 1 2 -8.33 -8.33 X55525 X55525 Collagen type I 0.12 -8.33 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 4 7 248 1278 COL1A2 collagen, type I, alpha 2 affy_probe_2_Entrez 2 2 30 -8.33 down 2 0 0/2 -8.33 1 2 -8.33 -8.33 32307_s_at 32307_s_at collagen, type I, alpha 2_COL1A2 COL1A2 down FTC PTC;Norm 9 19 provided by authors 15337802 1 1 52 1291 COL6A1 collagen, type VI, alpha 1 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 4 -14.29 down 2 0 0/2 -14.29 1 2 -14.29 -14.29 X15879 X15879 Collagen type VI a1 0.07 -14.29 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 17 25 1261 1291 COL6A1 collagen, type VI, alpha 1 tag_2_refseq_or_mgc_2_Entrez 2 2 4 -14.29 down 2 0 0/2 -14.29 1 2 -14.29 -14.29 TTGCTGACTT TTGCTGACTT down FTC ATC 1 1 publication 11076659 1 1 51 1292 COL6A2 collagen, type VI, alpha 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -12.5 down 1 0 0/1 -12.5 1 2 -12.50 -12.50 M34570 M34570 Collagen type VI a2 0.08 -12.50 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 10 16 712 1293 COL6A3 collagen, type VI, alpha 3 affy_probe_2_Entrez 2 2 16 -991.46 even 1 1 1/1 -495.73 2 16 8.54 -1000.00 38077_at 38077_at Collagen, type VI, alpha 3 COL6A3 8.54 8.54 up no PTC GT 8 6 publication 15515157 1 1 57 1293 COL6A3 collagen, type VI, alpha 3 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 16 -991.46 even 1 1 1/1 -495.73 2 16 8.54 -1000.00 X52022 X52022 Collagen type VI a3 0.001 -1000.00 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 1 1 25 1295 COL8A1 collagen, type VIII, alpha 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.27 down 1 0 0/1 -2.27 1 2 -2.27 -2.27 X57527 X57527 Collagen type VIII a1 0.44 -2.27 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 24 33 1482 1296 COL8A2 collagen, type VIII, alpha 2 Gene_symbol_2_NCBI_Entrez 1 1 32 3.97 up 1 0 1/0 3.97 1 32 3.97 3.97 Collagen, type VIII, alpha2 COL8A2 1.99 3.97 up PTC Norm 16 16 publication 15735049 10 16 746 1299 COL9A3 collagen, type IX, alpha 3 affy_probe_2_Entrez 3 3 128 -41.92 down 3 0 0/3 -13.9733333333333 3 128 -4.50 -27.39 36455_at 36455_at Collagen, type IX, alpha 3 COL9A3 -10.03 -10.03 down yes PTC GT 8 6 publication 15515157 18 31 1307 1299 COL9A3 collagen, type IX, alpha 3 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 128 -41.92 down 3 0 0/3 -13.9733333333333 3 128 -4.50 -27.39 L41162 L41162 Collagen alpha 3 type IX (COL9A3) EDM3 4.5 -4.50 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1784 1299 COL9A3 collagen, type IX, alpha 3 affy_probe_2_Entrez 3 3 128 -41.92 down 3 0 0/3 -13.9733333333333 3 128 -4.50 -27.39 204724_s_at 204724_s_at collagen, type IX, alpha 3 COL9A3 -27.386 -27.39 down 0.002882418 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 24 33 1471 1305 COL13A1 collagen, type XIII, alpha 1 Gene_symbol_2_NCBI_Entrez 1 1 32 5.46 up 1 0 1/0 5.46 1 32 5.46 5.46 Collagen, type XIII, alpha 1 COL13A1 2.45 5.46 up PTC Norm 16 16 publication 15735049 13 20 926 1306 COL15A1 collagen, type XV, alpha 1 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 47 0 down 2 0 0/2 0 0 0 0 0 L25286 L25286 Collagen, type XV, 1 COL15A1 down FTC FA 9 10 publication 12738736 4 7 199 1306 COL15A1 collagen, type XV, alpha 1 affy_probe_2_Entrez 2 2 47 0 down 2 0 0/2 0 0 0 0 0 38427_at 38427_at collagen, type XV, alpha 1_COL15A1 COL15A1 down FTC PTC;Norm 9 19 provided by authors 15337802 1 1 47 1307 COL16A1 collagen, type XVI, alpha 1 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 30 -10 down 2 0 0/2 -10 1 2 -10.00 -10.00 M92642 M92642 Collagen type XVI a1 0.1 -10.00 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 4 7 176 1307 COL16A1 collagen, type XVI, alpha 1 affy_probe_2_Entrez 2 2 30 -10 down 2 0 0/2 -10 1 2 -10.00 -10.00 35168_f_at 35168_f_at collagen, type XVI, alpha 1_COL16A1 COL16A1 down FTC PTC;Norm 9 19 provided by authors 15337802 24 33 1454 1311 COMP cartilage oligomeric matrix protein Gene_symbol_2_NCBI_Entrez 1 1 32 14.27 up 1 0 1/0 14.27 1 32 14.27 14.27 Cartilage oligomeric matrix protein COMP 3.835 14.27 up PTC Norm 16 16 publication 15735049 9 14 667 1363 CPE carboxypeptidase E affy_probe_2_Entrez 1 1 24 -3.72 down 1 0 0/1 -3.72 1 24 -3.72 -3.72 201117_s_at 201117_s_at carboxypeptidase E -3.72 -3.72 down 0.000008 FA FTC 12 12 provided by authors 15713710 10 17 754 1381 CRABP1 cellular retinoic acid binding protein 1 affy_probe_2_Entrez 4 4 146 -46.19 down 4 0 0/4 -11.5475 4 146 -2.20 -24.45 542_at 542_at Cellular retinoic acid binding protein 1 CRABP1 -11.84 -11.84 down yes yes PTC Norm 8 8 publication 15515157 18 31 1376 1381 CRABP1 cellular retinoic acid binding protein 1 clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 146 -46.19 down 4 0 0/4 -11.5475 4 146 -2.20 -24.45 S74445 S74445 Cellular retinoic acid-binding protein I CRABPI 2.2 -2.20 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1782 1381 CRABP1 cellular retinoic acid binding protein 1 affy_probe_2_Entrez 4 4 146 -46.19 down 4 0 0/4 -11.5475 4 146 -2.20 -24.45 205350_at 205350_at cellular retinoic acid binding protein 1 CRABP1 -24.447 -24.45 down 0.00016996 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 3 6 160 1381 CRABP1 cellular retinoic acid binding protein 1 clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 146 -46.19 down 4 0 0/4 -11.5475 4 146 -2.20 -24.45 S74445 S74445 Cellular retinoic acid-binding protein CRABP1 -7.7 -7.70 down no 0.01 PTC Norm 8 8 suppl. materials 11752453 2 4 97 1387 CREBBP CREB binding protein (Rubinstein-Taybi syndrome) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -10.2 down 1 0 0/1 -10.2 1 2 -10.20 -10.20 NM_004380 NM_004380 CREB binding protein CREBBP 10.2 -10.20 down PCL Norm 1 1 publication 15785240 13 20 924 1390 CREM cAMP responsive element modulator clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 down 1 0 0/1 0 0 0 0 0 S68271 S68271 cAMP-responsive element modulator CREM down FTC FA 9 10 publication 12738736 6 11 395 1394 CRHR1 corticotropin releasing hormone receptor 1 Gene_symbol_2_NCBI_Entrez 1 1 12 0 down 1 0 0/1 0 0 0 0 0 CRF receptor CRHR1 down yes AFTN;CTN Norm 6 6 publication The gene name for this entry was determined manually from the description 11600550 9 14 606 1410 CRYAB crystallin, alpha B affy_probe_2_Entrez 1 1 24 4.63 up 1 0 1/0 4.63 1 24 4.63 4.63 209283_at 209283_at crystallin, alpha B 4.63 4.63 up 0.006704 FA FTC 12 12 provided by authors 15713710 19 32 1407 1429 CRYZ crystallin, zeta (quinone reductase) tag_2_refseq_or_mgc_2_Entrez 2 2 30 0 even 1 1 1/1 0 0 0 0 0 ACTGTATTGG ACTGTATTGG quinone reductase (crystallin Z) up 0.0245 FVPTC Norm 1 1 publication 14715705 4 7 228 1429 CRYZ crystallin, zeta (quinone reductase) affy_probe_2_Entrez 2 2 30 0 even 1 1 1/1 0 0 0 0 0 37902_at 37902_at crystallin, zeta (quinone reductase)_CRYZ CRYZ down FTC PTC;Norm 9 19 provided by authors 15337802 1 1 6 1432 MAPK14 mitogen-activated protein kinase 14 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 9.44 up 1 0 1/0 9.44 1 2 9.44 9.44 L35253 L35253 P38 mitogen activated protein (MAP) kinase 9.44 9.44 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 15 23 1138 1434 CSE1L CSE1 chromosome segregation 1-like (yeast) Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 CSE1 chromosome segregation 1-like (yeast) CSE1L 2 2.00 up FVPTC PTC 3 2 publication 15475448 15 23 1195 1435 CSF1 colony stimulating factor 1 (macrophage) Gene_symbol_2_NCBI_Entrez 1 1 5 -2.5 down 1 0 0/1 -2.5 1 5 -2.50 -2.50 Colony stimulating factor 1 CSF1 0.4 -2.50 down FVPTC PTC 3 2 publication 15475448 4 7 266 1462 CSPG2 chondroitin sulfate proteoglycan 2 (versican) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 38112_g_at 38112_g_at chondroitin sulfate proteoglycan 2 (versican)_CSPG2 CSPG2 down FTC PTC;Norm 9 19 provided by authors 15337802 14 21 975 1464 CSPG4 chondroitin sulfate proteoglycan 4 (melanoma-associated) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 3.1 up 1 0 1/0 3.1 1 14 3.10 3.10 R53541 R53541 Melanoma-associated chondroitin sulfate proteoglycan 3.1 3.10 up PTC Norm 7 7 publication 15041723 18 31 1384 1466 CSRP2 cysteine and glycine-rich protein 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -2.1 down 1 0 0/1 -2.1 1 59 -2.10 -2.10 U57646 U57646 Cysteine and glycine-rich protein 2 CSRP2 2.1 -2.10 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 3 6 120 1474 CST6 cystatin E/M clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 44 9 up 2 0 2/0 9 1 16 9.00 9.00 W68521 W68521 Cystatin E/M CST6 9 9.00 up no 0.003 PTC Norm 8 8 suppl. materials 11752453 4 8 321 1474 CST6 cystatin E/M affy_probe_2_Entrez 2 2 44 9 up 2 0 2/0 9 1 16 9.00 9.00 33128_s_at 33128_s_at cystatin E/M_CST6 CST6 up PTC FTC;Norm 6 22 provided by authors 15337802 24 33 1536 1491 CTH cystathionase (cystathionine gamma-lyase) Gene_symbol_2_NCBI_Entrez 1 1 32 -2.58 down 1 0 0/1 -2.58 1 32 -2.58 -2.58 Cystathionase (cystathionine gamma-lyase) CTH -1.365 -2.58 down PTC Norm 16 16 publication 15735049 1 1 4 1499 CTNNB1 catenin (cadherin-associated protein), beta 1, 88kDa clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 16.23 up 1 0 1/0 16.23 1 2 16.23 16.23 X87838 X87838 b-catenin 16.23 16.23 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 8 13 595 1509 CTSD cathepsin D (lysosomal aspartyl protease) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.33 down 1 0 0/1 -2.33 1 2 -2.33 -2.33 M11233 M11233 Lysosomal protease cathepsin D (CTSD) 0.43 -2.33 down M-ACL ACL 1 1 publication 15579771 18 31 1345 1512 CTSH cathepsin H clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 87 2.5 up 2 0 2/0 2.5 1 59 2.50 2.50 X16832 X16832 Preprocathepsin H CPSB 2.5 2.50 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 4 8 364 1512 CTSH cathepsin H affy_probe_2_Entrez 2 2 87 2.5 up 2 0 2/0 2.5 1 59 2.50 2.50 37021_at 37021_at cathepsin H_CTSH CTSH up PTC FTC;Norm 6 22 provided by authors 15337802 2 4 101 1514 CTSL cathepsin L clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -6.1 down 1 0 0/1 -6.1 1 2 -6.10 -6.10 NM_001912 NM_001912 Cathepsin L CTSL 6.1 -6.10 down PCL Norm 1 1 publication 15785240 2 2 59 1522 CTSZ cathepsin Z clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -13.6 down 1 0 0/1 -13.6 1 2 -13.60 -13.60 NM_001336 NM_001336 Cathepsin Z CTSZ 13.6 -13.60 down FCL Norm 1 1 publication 15785240 15 23 1167 1523 CUTL1 cut-like 1, CCAAT displacement protein (Drosophila) Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Cut-like 1, CCAAT displacement protein (Drosophila) CUTL1 2 2.00 up FVPTC PTC 3 2 publication 15475448 10 16 734 1525 CXADR coxsackie virus and adenovirus receptor affy_probe_2_Entrez 2 2 42 -3.33 down 2 0 0/2 -3.33 1 14 -3.33 -3.33 37534_at 37534_at Coxsackievirus and adenovirus receptor CXADR -3.33 -3.33 down yes PTC GT 8 6 publication 15515157 4 7 301 1525 CXADR coxsackie virus and adenovirus receptor affy_probe_2_Entrez 2 2 42 -3.33 down 2 0 0/2 -3.33 1 14 -3.33 -3.33 37534_at 37534_at coxsackie virus and adenovirus receptor_CXADR CXADR down FTC PTC;Norm 9 19 provided by authors 15337802 12 19 843 1536 CYBB cytochrome b-245, beta polypeptide (chronic granulomatous disease) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 21 7.7 up 1 0 1/0 7.7 1 21 7.70 7.70 X04011 X04011 CGD 7.7 7.70 up PTC Norm 18 3 publication 12538453 9 14 615 1538 CYLC1 cylicin, basic protein of sperm head cytoskeleton 1 affy_probe_2_Entrez 1 1 24 2.93 up 1 0 1/0 2.93 1 24 2.93 2.93 216778_s_at 216778_s_at cylicin, basic protein of sperm head cytoskeleton 1 2.93 2.93 up 0.000612 FA FTC 12 12 provided by authors 15713710 18 31 1301 1545 CYP1B1 cytochrome P450, family 1, subfamily B, polypeptide 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 6 up 1 0 1/0 6 1 59 6.00 6.00 U03688 U03688 Dioxin-inducible cytochrome P450 GLC3A 6 6.00 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 15 23 1076 1595 CYP51A1 cytochrome P450, family 51, subfamily A, polypeptide 1 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 6 up 1 0 1/0 6 1 5 6.00 6.00 Cytochrome P450, family 51 CYP51 6 6.00 up FVPTC PTC 3 2 publication 15475448 4 8 327 1604 DAF decay accelerating factor for complement (CD55, Cromer blood group system) affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 39695_at 39695_at decay accelerating factor for complement (CD55, Cromer blood group system)_DAF DAF up PTC FTC;Norm 6 22 provided by authors 15337802 15 23 1096 1606 DGKA diacylglycerol kinase, alpha 80kDa Gene_symbol_2_NCBI_Entrez 1 1 5 4 up 1 0 1/0 4 1 5 4.00 4.00 Diacylglycerol kinase, alpha (80kD) DGKA 4 4.00 up FVPTC PTC 3 2 publication 15475448 2 3 92 1634 DCN decorin clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 4 -3 down 1 0 0/1 -3 1 4 -3.00 -3.00 NM_001920 NM_001920 Decorin DCN 3 -3.00 down yes FCL;PCL;UCL Norm 3 1 publication 15785240 8 13 561 1635 DCTD dCMP deaminase clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.48 up 1 0 1/0 2.48 1 2 2.48 2.48 L39874 L39874 Deoxycytidylate deaminase (dCMP deaminase) 2.48 2.48 up M-ACL ACL 1 1 publication 15579771 3 6 152 1645 AKR1C1 aldo-keto reductase family 1, member C1 (dihydrodiol dehydrogenase 1; 20-alpha (3-alpha)-hydroxysteroid dehydrogenase) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 16 -3.5 down 1 0 0/1 -3.5 1 16 -3.50 -3.50 U05861 U05861 Hepatic dihydrodiol dehydrogenase AKR1C2 -3.5 -3.50 down no 0.0015 PTC Norm 8 8 suppl. materials 11752453 4 7 198 1647 GADD45A growth arrest and DNA-damage-inducible, alpha affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 1911_s_at 1911_s_at growth arrest and DNA-damage-inducible, alpha_GADD45A GADD45A down FTC PTC;Norm 9 19 provided by authors 15337802 1 1 10 1649 DDIT3 DNA-damage-inducible transcript 3 clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 45 2.09 up 3 1 3/1 1.045 2 23 5.94 -3.85 S40706 S40706 GADD153 5 growth arrest and DNA-damage-inducible 5.94 5.94 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 12 19 860 1649 DDIT3 DNA-damage-inducible transcript 3 clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 45 2.09 up 3 1 3/1 1.045 2 23 5.94 -3.85 S40706 S40706 Growth arrest and DNA damage-inducible protein GADD153 (DDIT3) 0.26 -3.85 down yes PTC Norm 18 3 publication 12538453 13 20 875 1649 DDIT3 DNA-damage-inducible transcript 3 clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 45 2.09 up 3 1 3/1 1.045 2 23 5.94 -3.85 S62138 S62138 DNA damage-inducible transcript 3 DDIT3 up FTC FA 9 10 publication 12738736 5 10 380 1649 DDIT3 DNA-damage-inducible transcript 3 tag_2_refseq_or_mgc_2_Entrez 4 4 45 2.09 up 3 1 3/1 1.045 2 23 5.94 -3.85 AACAATTGGG AACAATTGGG DDIT3 up yes FTC FA;Norm 1 2 publication 15085203 15 23 1153 1650 DDOST dolichyl-diphosphooligosaccharide-protein glycosyltransferase Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Dolichyl-diphosphooligosaccharide-protein glycosyltransferase DDOST 2 2.00 up FVPTC PTC 3 2 publication 15475448 25 34 1764 1675 DF D component of complement (adipsin) affy_probe_2_Entrez 1 1 55 -7 down 1 0 0/1 -7 1 55 -7.00 -7.00 205382_s_at 205382_s_at D component of complement (adipsin) DF -6.998 -7.00 down 0.000843024 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 23 1165 1716 DGUOK deoxyguanosine kinase Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Deoxyguanosine kinase DGUOK 2 2.00 up FVPTC PTC 3 2 publication 15475448 13 20 923 1733 DIO1 deiodinase, iodothyronine, type I clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 94 -7.5 down 3 0 0/3 -3.75 2 75 -2.30 -5.20 S48220 S48220 5iodothyronine deiodinase down FTC FA 9 10 publication 12738736 18 31 1363 1733 DIO1 deiodinase, iodothyronine, type I clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 94 -7.5 down 3 0 0/3 -3.75 2 75 -2.30 -5.20 S48220 S48220 Type I 5iodothyronine deiodinase TXDI1 2.3 -2.30 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 3 6 155 1733 DIO1 deiodinase, iodothyronine, type I clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 94 -7.5 down 3 0 0/3 -3.75 2 75 -2.30 -5.20 S48220 S48220 Type I 5 iodothyronine deiodinase DIO1 -5.2 -5.20 down no 0.005 PTC Norm 8 8 suppl. materials 11752453 16 24 1246 1734 DIO2 deiodinase, iodothyronine, type II Gene_symbol_2_NCBI_Entrez 2 2 79 -4.99 down 2 0 0/2 -2.495 2 79 -2.20 -2.79 DIO2 0.358974359 -2.79 down 0.02 PTC;FVPTC FA;HN 32 31 publication 15087409 3 6 139 1734 DIO2 deiodinase, iodothyronine, type II clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 79 -4.99 down 2 0 0/2 -2.495 2 79 -2.20 -2.79 AF093774 AF093774 Type 2 iodothyronine deiodinase DIO2 -2.2 -2.20 down no 0.0022 PTC Norm 8 8 suppl. materials 11752453 25 34 1636 1740 DLG2 discs, large homolog 2, chapsyn-110 (Drosophila) affy_probe_2_Entrez 1 1 55 -2.01 down 1 0 0/1 -2.01 1 55 -2.01 -2.01 206253_at 206253_at discs, large homolog 2, chapsyn-110 (Drosophila) DLG2 -2.010 -2.01 down 0.000857183 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 12 19 854 1741 DLG3 discs, large homolog 3 (neuroendocrine-dlg, Drosophila) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 21 -2.08 down 1 0 0/1 -2.08 1 21 -2.08 -2.08 U49089 U49089 Neuroendocrine-DLG, tumor suppressor protein interacting with the adenomatous polyposis coli protein (DLG3) 0.48 -2.08 down PTC Norm 18 3 publication 12538453 4 8 345 1756 DMD dystrophin (muscular dystrophy, Duchenne and Becker types) affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 40488_at 40488_at dystrophin (muscular dystrophy, Duchenne and Becker types)_DMD DMD up PTC FTC;Norm 6 22 provided by authors 15337802 5 10 386 1777 DNASE2 deoxyribonuclease II, lysosomal tag_2_refseq_or_mgc_2_Entrez 1 1 3 0 up 1 0 1/0 0 0 0 0 0 AGCTGAGCTA AGCTGAGCTA DNASE2 up no FTC FA;Norm 1 2 publication 15085203 13 20 876 1796 DOK1 docking protein 1, 62kDa (downstream of tyrosine kinase 1) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 AF035299 AF035299 Docking protein 1 (downstream of tyrosine kinase 1) DOK1 up FTC FA 9 10 publication 12738736 24 33 1443 1803 DPP4 dipeptidylpeptidase 4 (CD26, adenosine deaminase complexing protein 2) Gene_symbol_2_NCBI_Entrez 4 4 131 138.58 up 4 0 4/0 46.1933333333333 3 103 115.76 8.20 Dipeptidylpeptidase 4 (CD26, adenosine deaminase complexing protein 2) DPP4 6.855 115.76 up PTC Norm 16 16 publication 15735049 25 34 1548 1803 DPP4 dipeptidylpeptidase 4 (CD26, adenosine deaminase complexing protein 2) affy_probe_2_Entrez 4 4 131 138.58 up 4 0 4/0 46.1933333333333 3 103 115.76 8.20 203717_at 203717_at dipeptidylpeptidase 4 (CD26, adenosine deaminase complexing protein 2) DPP4 14.840 14.84 up 0.000763244 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1549 1803 DPP4 dipeptidylpeptidase 4 (CD26, adenosine deaminase complexing protein 2) affy_probe_2_Entrez 4 4 131 138.58 up 4 0 4/0 46.1933333333333 3 103 115.76 8.20 211478_s_at 211478_s_at dipeptidylpeptidase 4 (CD26, adenosine deaminase complexing protein 2) DPP4 14.622 14.62 up 0.002319596 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 3 6 123 1803 DPP4 dipeptidylpeptidase 4 (CD26, adenosine deaminase complexing protein 2) clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 131 138.58 up 4 0 4/0 46.1933333333333 3 103 115.76 8.20 X60708 X60708 Liver dipeptidyl peptidase IV DPP4 8.2 8.20 up no 0.0005 PTC Norm 8 8 suppl. materials 11752453 4 8 324 1803 DPP4 dipeptidylpeptidase 4 (CD26, adenosine deaminase complexing protein 2) affy_probe_2_Entrez 4 4 131 138.58 up 4 0 4/0 46.1933333333333 3 103 115.76 8.20 34823_at 34823_at dipeptidylpeptidase 4 (CD26, adenosine deaminase complexing protein 2)_DPP4 DPP4 up PTC FTC;Norm 6 22 provided by authors 15337802 15 23 1144 1804 DPP6 dipeptidylpeptidase 6 Gene_symbol_2_NCBI_Entrez 2 2 60 -4.24 even 1 1 1/1 -2.12 2 60 2.00 -6.24 Dipeptidylpeptidase VI DPP6 2 2.00 up FVPTC PTC 3 2 publication 15475448 25 34 1757 1804 DPP6 dipeptidylpeptidase 6 affy_probe_2_Entrez 2 2 60 -4.24 even 1 1 1/1 -2.12 2 60 2.00 -6.24 207789_s_at 207789_s_at dipeptidylpeptidase 6 DPP6 -6.244 -6.24 down 9.05227E-10 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1772 1805 DPT dermatopontin affy_probe_2_Entrez 2 2 71 -19.84 down 2 0 0/2 -9.92 2 71 -5.50 -14.34 207977_s_at 207977_s_at dermatopontin DPT -8.765 -8.76 down 9.01594E-06 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1774 1805 DPT dermatopontin affy_probe_2_Entrez 2 2 71 -19.84 down 2 0 0/2 -9.92 2 71 -5.50 -14.34 213068_at 213068_at dermatopontin DPT -9.365 -9.36 down 7.87215E-07 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1780 1805 DPT dermatopontin affy_probe_2_Entrez 2 2 71 -19.84 down 2 0 0/2 -9.92 2 71 -5.50 -14.34 213071_at 213071_at dermatopontin DPT -14.338 -14.34 down 1.24888E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 3 6 157 1805 DPT dermatopontin clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 71 -19.84 down 2 0 0/2 -9.92 2 71 -5.50 -14.34 Z22865 Z22865 Dermatopontin DPT -5.5 -5.50 down no 0.0003 PTC Norm 8 8 suppl. materials 11752453 4 7 231 1806 DPYD dihydropyrimidine dehydrogenase affy_probe_2_Entrez 2 2 52 -3.33 down 2 0 0/2 -3.33 1 24 -3.33 -3.33 38220_at 38220_at dihydropyrimidine dehydrogenase_DPYD DPYD down FTC PTC;Norm 9 19 provided by authors 15337802 9 14 656 1806 DPYD dihydropyrimidine dehydrogenase affy_probe_2_Entrez 2 2 52 -3.33 down 2 0 0/2 -3.33 1 24 -3.33 -3.33 204646_at 204646_at dihydropyrimidine dehydrogenase -3.33 -3.33 down 0.000767 FA FTC 12 12 provided by authors 15713710 14 21 972 1819 DRG2 developmentally regulated GTP binding protein 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 4.3 up 1 0 1/0 4.3 1 14 4.30 4.30 AA456291 AA456291 GTP-binding protein 4.3 4.30 up PTC Norm 7 7 publication 15041723 15 23 1089 1832 DSP desmoplakin Gene_symbol_2_NCBI_Entrez 1 1 5 4 up 1 0 1/0 4 1 5 4.00 4.00 Desmoplakin DSP 4 4.00 up FVPTC PTC 3 2 publication 15475448 15 22 1061 1843 DUSP1 dual specificity phosphatase 1 Gene_symbol_2_NCBI_Entrez 2 2 23 -12.4 down 2 0 0/2 -6.2 2 23 -2.40 -10.00 Dual specificity phosphatase 1 DUSP1 0.1 -10.00 down FTC FA 3 4 publication 15475448 3 6 142 1843 DUSP1 dual specificity phosphatase 1 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 23 -12.4 down 2 0 0/2 -6.2 2 23 -2.40 -10.00 X68277 X68277 CL 100 mRNA for protein tyrosine phosphatase DUSP1 -2.4 -2.40 down no 0.0058 PTC Norm 8 8 suppl. materials 11752453 18 31 1308 1846 DUSP4 dual specificity phosphatase 4 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 114 9.06 up 2 0 2/0 4.53 2 114 4.86 4.20 U48807 U48807 MAP kinase phosphatase MKP-2 4.2 4.20 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1570 1846 DUSP4 dual specificity phosphatase 4 affy_probe_2_Entrez 2 2 114 9.06 up 2 0 2/0 4.53 2 114 4.86 4.20 204015_s_at 204015_s_at dual specificity phosphatase 4 DUSP4 5.873 5.87 up 5.22167E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1579 1846 DUSP4 dual specificity phosphatase 4 affy_probe_2_Entrez 2 2 114 9.06 up 2 0 2/0 4.53 2 114 4.86 4.20 204014_at 204014_at dual specificity phosphatase 4 DUSP4 4.861 4.86 up 0.001878589 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 22 1053 1847 DUSP5 dual specificity phosphatase 5 Gene_symbol_2_NCBI_Entrez 4 4 157 4.32 up 3 1 3/1 1.44 3 129 4.05 -3.33 Dual specificity phosphatase 5 DUSP5 0.3 -3.33 down yes FTC FA 3 4 publication 15475448 16 24 1203 1847 DUSP5 dual specificity phosphatase 5 Gene_symbol_2_NCBI_Entrez 4 4 157 4.32 up 3 1 3/1 1.44 3 129 4.05 -3.33 DUSP5 4.051546392 4.05 up 0.01 PTC;FVPTC FA;HN 32 31 publication 15087409 18 31 1312 1847 DUSP5 dual specificity phosphatase 5 clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 157 4.32 up 3 1 3/1 1.44 3 129 4.05 -3.33 U15932 U15932 Dual-specificity protein phosphatase HVH3 3.6 3.60 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 4 8 358 1847 DUSP5 dual specificity phosphatase 5 affy_probe_2_Entrez 4 4 157 4.32 up 3 1 3/1 1.44 3 129 4.05 -3.33 529_at 529_at dual specificity phosphatase 5_DUSP5 DUSP5 up PTC FTC;Norm 6 22 provided by authors 15337802 24 33 1486 1848 DUSP6 dual specificity phosphatase 6 Gene_symbol_2_NCBI_Entrez 4 4 100 3.06 up 3 1 3/1 1.02 3 72 4.60 -5.22 Dual specificity phosphatase 6 DUSP6 1.88 3.68 up PTC Norm 16 16 publication 15735049 3 6 132 1848 DUSP6 dual specificity phosphatase 6 clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 100 3.06 up 3 1 3/1 1.02 3 72 4.60 -5.22 AB013382 AB013382 Dual specificity phosphatase 6 DUSP6 4.6 4.60 up no 0.0001 PTC Norm 8 8 suppl. materials 11752453 4 8 317 1848 DUSP6 dual specificity phosphatase 6 affy_probe_2_Entrez 4 4 100 3.06 up 3 1 3/1 1.02 3 72 4.60 -5.22 41193_at 41193_at dual specificity phosphatase 6_DUSP6 DUSP6 up PTC FTC;Norm 6 22 provided by authors 15337802 9 14 668 1848 DUSP6 dual specificity phosphatase 6 affy_probe_2_Entrez 4 4 100 3.06 up 3 1 3/1 1.02 3 72 4.60 -5.22 208891_at 208891_at dual specificity phosphatase 6 -3.72 -3.72 down 0.000007 FA FTC 12 12 provided by authors 15713710 9 14 694 1848 DUSP6 dual specificity phosphatase 6 affy_probe_2_Entrez 4 4 100 3.06 up 3 1 3/1 1.02 3 72 4.60 -5.22 208892_s_at 208892_s_at dual specificity phosphatase 6 -5.22 -5.22 down 0.000084 FA FTC 12 12 provided by authors 15713710 8 13 574 1869 E2F1 E2F transcription factor 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.2 up 1 0 1/0 2.2 1 2 2.20 2.20 M96577 M96577 E2F transcription factor 1 (E2F1) 2.2 2.20 up M-ACL ACL 1 1 publication 15579771 4 7 242 1871 E2F3 E2F transcription factor 3 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 41632_at 41632_at E2F transcription factor 3_E2F3 E2F3 down FTC PTC;Norm 9 19 provided by authors 15337802 8 13 584 1875 E2F5 E2F transcription factor 5, p130-binding clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2 down 1 0 0/1 -2 1 2 -2.00 -2.00 U15642 U15642 E2F transcription factor 5 (E2F5) 0.5 -2.00 down M-ACL ACL 1 1 publication 15579771 15 23 1128 1877 E4F1 E4F transcription factor 1 Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 E4F transcription factor 1 E4F1 3 3.00 up FVPTC PTC 3 2 publication 15475448 19 32 1404 1893 ECM1 extracellular matrix protein 1 tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 up 1 0 1/0 0 0 0 0 0 ACTGCCCGCT ACTGCCCGCT extracellular matrix protein 1 (ECM1) up 0.0007 FVPTC Norm 1 1 publication 14715705 24 33 1495 1955 EGFL5 EGF-like-domain, multiple 5 Gene_symbol_2_NCBI_Entrez 2 2 60 2.66 up 2 0 2/0 2.66 1 32 2.66 2.66 Epidermal growth factor-like-domain, multiple 5 EGFL5 1.41 2.66 up PTC Norm 16 16 publication 15735049 4 8 337 1955 EGFL5 EGF-like-domain, multiple 5 affy_probe_2_Entrez 2 2 60 2.66 up 2 0 2/0 2.66 1 32 2.66 2.66 36488_at 36488_at EGF-like-domain, multiple 5_EGFL5 EGFL5 up PTC FTC;Norm 6 22 provided by authors 15337802 1 1 33 1956 EGFR epidermal growth factor receptor (erythroblastic leukemia viral (v-erb-b) oncogene homolog, avian) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 30 -3.85 down 2 0 0/2 -3.85 1 2 -3.85 -3.85 X00588 X00588 Epidermal growth factor receptor 0.26 -3.85 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 4 7 226 1956 EGFR epidermal growth factor receptor (erythroblastic leukemia viral (v-erb-b) oncogene homolog, avian) affy_probe_2_Entrez 2 2 30 -3.85 down 2 0 0/2 -3.85 1 2 -3.85 -3.85 1537_at 1537_at epidermal growth factor receptor (erythroblastic leukemia viral (v-erb-b) oncogene homolog, avian)_EGFR EGFR down FTC PTC;Norm 9 19 provided by authors 15337802 17 27 1272 1958 EGR1 early growth response 1 tag_2_refseq_or_mgc_2_Entrez 3 3 59 -8.79 down 2 1 1/2 -4.395 2 57 -3.70 -5.09 GGATATGTGG GGATATGTGG up Norm FA 1 1 publication 11076659 25 34 1744 1958 EGR1 early growth response 1 affy_probe_2_Entrez 3 3 59 -8.79 down 2 1 1/2 -4.395 2 57 -3.70 -5.09 201693_s_at 201693_s_at early growth response 1 EGR1 -5.088 -5.09 down 0.004189334 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 8 13 603 1958 EGR1 early growth response 1 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 59 -8.79 down 2 1 1/2 -4.395 2 57 -3.70 -5.09 X52541 X52541 Early growth response protein 1 (hEGR1) 0.27 -3.70 down M-ACL ACL 1 1 publication 15579771 13 20 928 1959 EGR2 early growth response 2 (Krox-20 homolog, Drosophila) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 47 0 down 2 0 0/2 0 0 0 0 0 J04076 J04076 Early growth response 2 EGR2 down FTC FA 9 10 publication 12738736 4 7 195 1959 EGR2 early growth response 2 (Krox-20 homolog, Drosophila) affy_probe_2_Entrez 2 2 47 0 down 2 0 0/2 0 0 0 0 0 37863_at 37863_at early growth response 2 (Krox-20 homolog, Drosophila)_EGR2 EGR2 down FTC PTC;Norm 9 19 provided by authors 15337802 2 5 106 1965 EIF2S1 eukaryotic translation initiation factor 2, subunit 1 alpha, 35kDa clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -7.8 down 1 0 0/1 -7.8 1 2 -7.80 -7.80 NM_004094 NM_004094 Eukaryotic translation initiation factor 2, subunit 1 EIF2S1 7.8 -7.80 down UCL Norm 1 1 publication 15785240 8 13 575 1969 EPHA2 EPH receptor A2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.13 up 1 0 1/0 2.13 1 2 2.13 2.13 M59371 M59371 Ephrin type-A receptor 2 (EphA2); epithelial cell kinase (ECK) 2.13 2.13 up M-ACL ACL 1 1 publication 15579771 15 23 1115 1973 EIF4A1 eukaryotic translation initiation factor 4A, isoform 1 Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Eukaryotic translation initiation factor 4A, isoform 1 EIF4A1 3 3.00 up FVPTC PTC 3 2 publication 15475448 25 34 1643 1983 EIF5 eukaryotic translation initiation factor 5 affy_probe_2_Entrez 1 1 55 -2.1 down 1 0 0/1 -2.1 1 55 -2.10 -2.10 208707_at 208707_at eukaryotic translation initiation factor 5 EIF5 -2.104 -2.10 down 0.003511325 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 8 13 569 1997 ELF1 E74-like factor 1 (ets domain transcription factor) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.31 up 1 0 1/0 2.31 1 2 2.31 2.31 M82882 M82882 Ets-family transcription factor E74-like factor 1 (ELF1) 2.31 2.31 up M-ACL ACL 1 1 publication 15579771 16 24 1207 1999 ELF3 E74-like factor 3 (ets domain transcription factor, epithelial-specific ) Gene_symbol_2_NCBI_Entrez 1 1 63 1.77 up 1 0 1/0 1.77 1 63 1.77 1.77 ELF3 1.768292683 1.77 up 0.04 PTC;FVPTC FA;HN 32 31 publication 15087409 6 11 405 2042 EPHA3 EPH receptor A3 Gene_symbol_2_NCBI_Entrez 1 1 12 0 down 1 0 0/1 0 0 0 0 0 Tyr-kinase receptor HEK EPHA3 down yes AFTN;CTN Norm 6 6 publication The gene name for this entry was determined manually from the description 11600550 15 23 1081 2047 EPHB1 EPH receptor B1 Gene_symbol_2_NCBI_Entrez 2 2 60 2.05 even 1 1 1/1 1.025 2 60 5.00 -2.95 Receptor for members of the ephrin-b family EPHB1 5 5.00 up FVPTC PTC 3 2 publication 15475448 25 34 1691 2047 EPHB1 EPH receptor B1 affy_probe_2_Entrez 2 2 60 2.05 even 1 1 1/1 1.025 2 60 5.00 -2.95 210753_s_at 210753_s_at --- --- -2.950 -2.95 down 2.50857E-07 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 8 13 571 2051 EPHB6 EPH receptor B6 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.26 up 1 0 1/0 2.26 1 2 2.26 2.26 D83492 D83492 Ephrin type-B receptor 6 (EphB6) 2.26 2.26 up M-ACL ACL 1 1 publication 15579771 18 31 1381 2059 EPS8 epidermal growth factor receptor pathway substrate 8 clone_accession_2_NCBI_rna_accession_2_Entrez 6 6 214 9.69 up 5 1 5/1 1.938 5 186 3.80 -3.02 U12535 U12535 Epidermal growth factor receptor kinase substrate Eps8 2.1 2.10 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1488 2059 EPS8 epidermal growth factor receptor pathway substrate 8 Gene_symbol_2_NCBI_Entrez 6 6 214 9.69 up 5 1 5/1 1.938 5 186 3.80 -3.02 Epidermal growth factor receptor pathway substrate 8 EPS8 1.6 3.03 up PTC Norm 16 16 publication 15735049 25 34 1590 2059 EPS8 epidermal growth factor receptor pathway substrate 8 affy_probe_2_Entrez 6 6 214 9.69 up 5 1 5/1 1.938 5 186 3.80 -3.02 202609_at 202609_at epidermal growth factor receptor pathway substrate 8 EPS8 3.784 3.78 up 8.47516E-06 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 3 6 136 2059 EPS8 epidermal growth factor receptor pathway substrate 8 clone_accession_2_NCBI_rna_accession_2_Entrez 6 6 214 9.69 up 5 1 5/1 1.938 5 186 3.80 -3.02 U12535 U12535 Epidermal growth factor receptor kinase substrate 8 EPS8 3.8 3.80 up no 0.0001 PTC Norm 8 8 suppl. materials 11752453 4 8 356 2059 EPS8 epidermal growth factor receptor pathway substrate 8 affy_probe_2_Entrez 6 6 214 9.69 up 5 1 5/1 1.938 5 186 3.80 -3.02 1467_at 1467_at epidermal growth factor receptor pathway substrate 8_EPS8 EPS8 up PTC FTC;Norm 6 22 provided by authors 15337802 9 14 633 2059 EPS8 epidermal growth factor receptor pathway substrate 8 affy_probe_2_Entrez 6 6 214 9.69 up 5 1 5/1 1.938 5 186 3.80 -3.02 202609_at 202609_at epidermal growth factor receptor pathway substrate 8 -3.02 -3.02 down 0.002265 FA FTC 12 12 provided by authors 15713710 13 20 900 2063 NR2F6 nuclear receptor subfamily 2, group F, member 6 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 X12794 X12794 Nuclear receptor subfamily 2, group F, member 6 NR2F6 up FTC FA 9 10 publication 12738736 18 31 1377 2065 ERBB3 v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 (avian) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 2.1 up 1 0 1/0 2.1 1 59 2.10 2.10 M34309 M34309 HER3 protein precursor HER3 2.1 2.10 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 15 23 1164 2068 ERCC2 excision repair cross-complementing rodent repair deficiency, complementation group 2 (xeroderma pigmentosum D) Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Excision repair complementation group 2 (XPD) ERCC2 2 2.00 up FVPTC PTC 3 2 publication 15475448 14 21 985 2071 ERCC3 excision repair cross-complementing rodent repair deficiency, complementation group 3 (xeroderma pigmentosum group B complementing) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 2.4 up 1 0 1/0 2.4 1 14 2.40 2.40 H20856 H20856 DNA repair helicase ERCC3 2.4 2.40 up PTC Norm 7 7 publication 15041723 25 34 1642 2104 ESRRG estrogen-related receptor gamma affy_probe_2_Entrez 1 1 55 -2.1 down 1 0 0/1 -2.1 1 55 -2.10 -2.10 209966_x_at 209966_x_at estrogen-related receptor gamma ESRRG -2.095 -2.10 down 0.000180269 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 8 331 2115 ETV1 ets variant gene 1 affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 37156_at 37156_at hypothetical protein LOC221810_LOC221810 LOC221810 up PTC FTC;Norm 6 22 provided by authors 15337802 25 34 1585 2118 ETV4 ets variant gene 4 (E1A enhancer binding protein, E1AF) affy_probe_2_Entrez 1 1 55 4.23 up 1 0 1/0 4.23 1 55 4.23 4.23 211603_s_at 211603_s_at ets variant gene 4 (E1A enhancer binding protein, E1AF) /// ets variant gene 4 (E1A enhancer binding protein, E1AF) ETV4 4.226 4.23 up 0.008957754 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 24 33 1489 2119 ETV5 ets variant gene 5 (ets-related molecule) Gene_symbol_2_NCBI_Entrez 3 3 111 3.91 up 2 1 2/1 1.30333333333333 3 111 4.38 -3.45 Ets variant gene 5 (ets-related molecule) ETV5 1.575 2.98 up PTC Norm 16 16 publication 15735049 25 34 1582 2119 ETV5 ets variant gene 5 (ets-related molecule) affy_probe_2_Entrez 3 3 111 3.91 up 2 1 2/1 1.30333333333333 3 111 4.38 -3.45 203349_s_at 203349_s_at ets variant gene 5 (ets-related molecule) ETV5 4.377 4.38 up 8.84969E-06 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 9 14 642 2119 ETV5 ets variant gene 5 (ets-related molecule) affy_probe_2_Entrez 3 3 111 3.91 up 2 1 2/1 1.30333333333333 3 111 4.38 -3.45 203348_s_at 203348_s_at ets variant gene 5 (ets-related molecule) -3.12 -3.12 down 0.001774 FA FTC 12 12 provided by authors 15713710 9 14 659 2119 ETV5 ets variant gene 5 (ets-related molecule) affy_probe_2_Entrez 3 3 111 3.91 up 2 1 2/1 1.30333333333333 3 111 4.38 -3.45 203349_s_at 203349_s_at ets variant gene 5 (ets-related molecule) -3.45 -3.45 down 0.002668 FA FTC 12 12 provided by authors 15713710 15 22 1034 2132 EXT2 exostoses (multiple) 2 Gene_symbol_2_NCBI_Entrez 1 1 7 -2 down 1 0 0/1 -2 1 7 -2.00 -2.00 Exostose 2 EXT2 0.5 -2.00 down FTC FA 3 4 publication 15475448 11 18 807 2134 EXTL1 exostoses (multiple)-like 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 U67191 U67191 Multiple exostosis-like protein (EXTL) down ACL;ATC Norm 21 10 publication 15613457 4 7 183 2152 F3 coagulation factor III (thromboplastin, tissue factor) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 36543_at 36543_at coagulation factor III (thromboplastin, tissue factor)_F3 F3 down FTC PTC;Norm 9 19 provided by authors 15337802 18 31 1305 2167 FABP4 fatty acid binding protein 4, adipocyte clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 130 -25.66 down 3 0 0/3 -8.55333333333333 3 130 -4.90 -15.36 AA128249 AA128249 Fatty acid-binding protein, human FABP4 4.9 -4.90 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1781 2167 FABP4 fatty acid binding protein 4, adipocyte affy_probe_2_Entrez 3 3 130 -25.66 down 3 0 0/3 -8.55333333333333 3 130 -4.90 -15.36 203980_at 203980_at fatty acid binding protein 4, adipocyte FABP4 -15.359 -15.36 down 0.010575236 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 3 6 156 2167 FABP4 fatty acid binding protein 4, adipocyte clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 130 -25.66 down 3 0 0/3 -8.55333333333333 3 130 -4.90 -15.36 AA128249 AA128249 Fatty acid binding protein 4 FABP4 -5.4 -5.40 down no 0.002 PTC Norm 8 8 suppl. materials 11752453 25 34 1743 2192 FBLN1 fibulin 1 affy_probe_2_Entrez 1 1 55 -5.06 down 1 0 0/1 -5.06 1 55 -5.06 -5.06 202995_s_at 202995_s_at fibulin 1 FBLN1 -5.058 -5.06 down 0.014030905 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 23 1137 2196 FAT2 FAT tumor suppressor homolog 2 (Drosophila) Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 FAT tumor suppressor (Drosophila) homolog 2 FAT2 2 2.00 up FVPTC PTC 3 2 publication 15475448 1 1 11 2197 FAU Finkel-Biskis-Reilly murine sarcoma virus (FBR-MuSV) ubiquitously expressed (fox derived); ribosomal protein S30 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 5.34 up 1 0 1/0 5.34 1 2 5.34 5.34 X65923 X65923 FAU 5.34 5.34 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 13 20 933 2200 FBN1 fibrillin 1 (Marfan syndrome) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 47 0 down 2 0 0/2 0 0 0 0 0 X63556 X63556 Fibrillin 1 FBN1 down FTC FA 9 10 publication 12738736 4 7 232 2200 FBN1 fibrillin 1 (Marfan syndrome) affy_probe_2_Entrez 2 2 47 0 down 2 0 0/2 0 0 0 0 0 32535_at 32535_at fibrillin 1 (Marfan syndrome)_FBN1 FBN1 down FTC PTC;Norm 9 19 provided by authors 15337802 12 19 844 2207 FCER1G Fc fragment of IgE, high affinity I, receptor for; gamma polypeptide clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 21 7.1 up 1 0 1/0 7.1 1 21 7.10 7.10 M33195 M33195 FCER1G 7.1 7.10 up PTC Norm 18 3 publication 12538453 15 23 1201 2208 FCER2 Fc fragment of IgE, low affinity II, receptor for (CD23A) Gene_symbol_2_NCBI_Entrez 1 1 5 -5 down 1 0 0/1 -5 1 5 -5.00 -5.00 Fc fragment of IgE, low affinity II, receptor for (CD23A) FCER2 0.2 -5.00 down FVPTC PTC 3 2 publication 15475448 11 18 802 2217 FCGRT Fc fragment of IgG, receptor, transporter, alpha clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 109 -2.8 down 3 0 0/3 -2.8 1 59 -2.80 -2.80 U12255 U12255 IgG Fc receptor hFcRn (FCGRT) down ACL;ATC Norm 21 10 publication 15613457 13 20 932 2217 FCGRT Fc fragment of IgG, receptor, transporter, alpha clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 109 -2.8 down 3 0 0/3 -2.8 1 59 -2.80 -2.80 U12255 U12255 Fc fragment of IgG, receptor, transporter FCGRT down FTC FA 9 10 publication 12738736 18 31 1333 2217 FCGRT Fc fragment of IgG, receptor, transporter, alpha clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 109 -2.8 down 3 0 0/3 -2.8 1 59 -2.80 -2.80 U12255 U12255 Human IgG Fc receptor FCGRT 2.8 -2.80 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1521 2222 FDFT1 farnesyl-diphosphate farnesyltransferase 1 Gene_symbol_2_NCBI_Entrez 1 1 32 -1.44 down 1 0 0/1 -1.44 1 32 -1.44 -1.44 Farnesyl-diphosphate farnesyltransferase 1 FDFT1 -0.525 -1.44 down PTC Norm 16 16 publication 15735049 11 18 824 2242 FES feline sarcoma oncogene clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 X06292 X06292 c-fes/fps proto-oncogene (FES) down yes ACL;ATC Norm 21 10 publication 15613457 1 1 42 2253 FGF8 fibroblast growth factor 8 (androgen-induced) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -5.88 down 1 0 0/1 -5.88 1 2 -5.88 -5.88 U36223 U36223 Fibroblast growth factor-8(FGF-8) 0.17 -5.88 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 9 14 609 2258 FGF13 fibroblast growth factor 13 affy_probe_2_Entrez 1 1 24 3.85 up 1 0 1/0 3.85 1 24 3.85 3.85 205110_s_at 205110_s_at fibroblast growth factor 13 3.85 3.85 up 0.002058 FA FTC 12 12 provided by authors 15713710 1 1 30 2260 FGFR1 fibroblast growth factor receptor 1 (fms-related tyrosine kinase 2, Pfeiffer syndrome) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 21 -5.33 down 2 1 1/2 -2.665 2 7 -2.00 -3.33 M37722 M37722 Basic FGF receptor 1 precursor 0.3 -3.33 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 14 21 1009 2260 FGFR1 fibroblast growth factor receptor 1 (fms-related tyrosine kinase 2, Pfeiffer syndrome) Gene_symbol_2_NCBI_Entrez 3 3 21 -5.33 down 2 1 1/2 -2.665 2 7 -2.00 -3.33 bFGF receptor FGFR1 up PTC Norm 7 7 publication The gene name for this entry was determined manually from the description 15041723 15 23 1189 2260 FGFR1 fibroblast growth factor receptor 1 (fms-related tyrosine kinase 2, Pfeiffer syndrome) Gene_symbol_2_NCBI_Entrez 3 3 21 -5.33 down 2 1 1/2 -2.665 2 7 -2.00 -3.33 Fibroblast growth factor receptor 1 FGFR1 0.5 -2.00 down FVPTC PTC 3 2 publication 15475448 18 31 1346 2263 FGFR2 fibroblast growth factor receptor 2 (bacteria-expressed kinase, keratinocyte growth factor receptor, craniofacial dysostosis 1, Crouzon syndrome, Pfeiffer syndrome, Jackson-Weiss syndrome) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -2.1 down 1 0 0/1 -2.1 1 59 -2.10 -2.10 Z71929 Z71929 Fibroblast growth factor receptor 2 FGFR2 2.5 -2.50 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 18 31 1390 2263 FGFR2 fibroblast growth factor receptor 2 (bacteria-expressed kinase, keratinocyte growth factor receptor, craniofacial dysostosis 1, Crouzon syndrome, Pfeiffer syndrome, Jackson-Weiss syndrome) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -2.1 down 1 0 0/1 -2.1 1 59 -2.10 -2.10 M87770 M87770 Fibroblast growth factor receptor K-sam-I 2.1 -2.10 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 14 21 1010 2264 FGFR4 fibroblast growth factor receptor 4 Gene_symbol_2_NCBI_Entrez 1 1 14 0 up 1 0 1/0 0 0 0 0 0 FGF 4 receptor FGFR4 up PTC Norm 7 7 publication The gene name for this entry was determined manually from the description 15041723 1 1 29 2268 FGR Gardner-Rasheed feline sarcoma viral (v-fgr) oncogene homolog clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.7 down 1 0 0/1 -2.7 1 2 -2.70 -2.70 M19722 M19722 Fgr proto-oncogene 0.37 -2.70 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 18 31 1388 2273 FHL1 four and a half LIM domains 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -2.1 down 1 0 0/1 -2.1 1 59 -2.10 -2.10 AF063002 AF063002 Skeletal and cardiac muscle SLIM isoform SLIM1 2.1 -2.10 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 4 7 203 2304 FOXE1 forkhead box E1 (thyroid transcription factor 2) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 36370_at 36370_at forkhead box E1 (thyroid transcription factor 2)_FOXE1 FOXE1 down FTC PTC;Norm 9 19 provided by authors 15337802 24 33 1516 2314 FLII flightless I homolog (Drosophila) Gene_symbol_2_NCBI_Entrez 1 1 32 1.45 up 1 0 1/0 1.45 1 32 1.45 1.45 Flightless I homologue (Drosophila) FLII 0.54 1.45 up PTC Norm 16 16 publication 15735049 4 7 245 2316 FLNA filamin A, alpha (actin binding protein 280) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 32749_s_at 32749_s_at filamin A, alpha (actin binding protein 280)_FLNA FLNA down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 238 2317 FLNB filamin B, beta (actin binding protein 278) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 38078_at 38078_at filamin B, beta (actin binding protein 278)_FLNB FLNB down FTC PTC;Norm 9 19 provided by authors 15337802 25 34 1645 2326 FMO1 flavin containing monooxygenase 1 affy_probe_2_Entrez 1 1 55 -2.12 down 1 0 0/1 -2.12 1 55 -2.12 -2.12 205666_at 205666_at flavin containing monooxygenase 1 FMO1 -2.121 -2.12 down 0.004172401 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1738 2331 FMOD fibromodulin affy_probe_2_Entrez 1 1 55 -4.82 down 1 0 0/1 -4.82 1 55 -4.82 -4.82 202709_at 202709_at fibromodulin FMOD -4.817 -4.82 down 1.09927E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 1 1 46 2335 FN1 fibronectin 1 clone_accession_2_NCBI_rna_accession_2_Entrez 6 6 158 21.6 up 5 1 5/1 4.32 5 130 10.30 -9.09 X02761 X02761 Fibronectin 0.11 -9.09 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 12 19 847 2335 FN1 fibronectin 1 clone_accession_2_NCBI_rna_accession_2_Entrez 6 6 158 21.6 up 5 1 5/1 4.32 5 130 10.30 -9.09 X02761 X02761 FN 6 6.00 up yes yes PTC Norm 18 3 publication 12538453 18 31 1302 2335 FN1 fibronectin 1 clone_accession_2_NCBI_rna_accession_2_Entrez 6 6 158 21.6 up 5 1 5/1 4.32 5 130 10.30 -9.09 M10905 M10905 Fibronectin FN1 5.2 5.20 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1462 2335 FN1 fibronectin 1 Gene_symbol_2_NCBI_Entrez 6 6 158 21.6 up 5 1 5/1 4.32 5 130 10.30 -9.09 Fibronectin 1 FN1 3.2 9.19 up PTC Norm 16 16 publication 15735049 3 6 119 2335 FN1 fibronectin 1 clone_accession_2_NCBI_rna_accession_2_Entrez 6 6 158 21.6 up 5 1 5/1 4.32 5 130 10.30 -9.09 X02761 X02761 Fibronectin 1 FN1 10.3 10.30 up yes 0.0002 PTC Norm 8 8 suppl. materials 11752453 4 8 310 2335 FN1 fibronectin 1 affy_probe_2_Entrez 6 6 158 21.6 up 5 1 5/1 4.32 5 130 10.30 -9.09 31720_s_at 31720_s_at fibronectin 1_FN1 FN1 up PTC FTC;Norm 6 22 provided by authors 15337802 4 8 338 2335 FN1 fibronectin 1 affy_probe_2_Entrez 6 6 158 21.6 up 5 1 5/1 4.32 5 130 10.30 -9.09 31719_at 31719_at fibronectin 1_FN1 FN1 up PTC FTC;Norm 6 22 provided by authors 15337802 1 1 5 2353 FOS v-fos FBJ murine osteosarcoma viral oncogene homolog clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 11.14 up 1 0 1/0 11.14 1 2 11.14 11.14 K00650 K00650 c-fos 11.14 11.14 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 3 6 153 2354 FOSB FBJ murine osteosarcoma viral oncogene homolog B clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 16 -4 down 1 0 0/1 -4 1 16 -4.00 -4.00 L49169 L49169 FOSB FOSB -4 -4.00 down yes 0.0047 PTC Norm 8 8 suppl. materials 11752453 13 20 880 2358 FPRL1 formyl peptide receptor-like 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 M84562 M84562 Formyl peptide receptor-like 1 FPRL1 up FTC FA 9 10 publication 12738736 11 18 767 2526 FUT4 fucosyltransferase 4 (alpha (1,3) fucosyltransferase, myeloid-specific) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 M58596 M58596 ELAM-1 ligand fucosyltransferase (ELFT) up ACL;ATC Norm 21 10 publication 15613457 25 34 1566 2582 GALE UDP-galactose-4-epimerase affy_probe_2_Entrez 1 1 55 7.01 up 1 0 1/0 7.01 1 55 7.01 7.01 202528_at 202528_at galactose-4-epimerase, UDP- GALE 7.006 7.01 up 2.90326E-07 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 17 25 1255 2597 GAPDH glyceraldehyde-3-phosphate dehydrogenase tag_2_refseq_or_mgc_2_Entrez 1 2 4 0 down 2 0 0/2 0 0 0 0 0 TACCATCAAT TACCATCAAT down FTC ATC 1 1 publication 11076659 17 28 1280 2597 GAPDH glyceraldehyde-3-phosphate dehydrogenase tag_2_refseq_or_mgc_2_Entrez 1 2 4 0 down 2 0 0/2 0 0 0 0 0 TACCATCAAT TACCATCAAT down PTC ATC 1 1 publication 11076659 12 19 851 2617 GARS glycyl-tRNA synthetase clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 21 2.4 up 1 0 1/0 2.4 1 21 2.40 2.40 D30658 D30658 GARS 2.4 2.40 up PTC Norm 18 3 publication 12538453 3 6 147 2619 GAS1 growth arrest-specific 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 16 -2.9 down 1 0 0/1 -2.9 1 16 -2.90 -2.90 L13698 L13698 Gas1 GAS1 -2.9 -2.90 down yes 0.0185 PTC Norm 8 8 suppl. materials 11752453 4 7 278 2621 GAS6 growth arrest-specific 6 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 1597_at 1597_at growth arrest-specific 6_GAS6 GAS6 down FTC PTC;Norm 9 19 provided by authors 15337802 24 33 1538 2628 GATM glycine amidinotransferase (L-arginine:glycine amidinotransferase) Gene_symbol_2_NCBI_Entrez 1 1 32 -3.33 down 1 0 0/1 -3.33 1 32 -3.33 -3.33 Glycine amidinotransferase (L-arginine:glycine amidinotransferase) GATM -1.735 -3.33 down PTC Norm 16 16 publication 15735049 11 18 756 2665 GDI2 GDP dissociation inhibitor 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 NM_001494 NM_001494 GD12 GDP dissociation inhibitor 2 up yes ACL;ATC Norm 21 10 publication 15613457 25 34 1717 2690 GHR growth hormone receptor affy_probe_2_Entrez 1 1 55 -3.6 down 1 0 0/1 -3.6 1 55 -3.60 -3.60 205498_at 205498_at growth hormone receptor GHR -3.605 -3.60 down 1.27617E-12 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 13 20 936 2697 GJA1 gap junction protein, alpha 1, 43kDa (connexin 43) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 106 -2.4 down 3 0 0/3 -2.4 1 59 -2.40 -2.40 X52947 X52947 Gap junction protein, 1, 43 kDa (connexin 43) GJA1 down FTC FA 9 10 publication 12738736 18 31 1357 2697 GJA1 gap junction protein, alpha 1, 43kDa (connexin 43) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 106 -2.4 down 3 0 0/3 -2.4 1 59 -2.40 -2.40 X52947 X52947 Connexin 43, cardiac gap junction protein CX43 2.4 -2.40 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 4 7 264 2697 GJA1 gap junction protein, alpha 1, 43kDa (connexin 43) affy_probe_2_Entrez 3 3 106 -2.4 down 3 0 0/3 -2.4 1 59 -2.40 -2.40 32531_at 32531_at gap junction protein, alpha 1, 43kDa (connexin 43)_GJA1 GJA1 down FTC PTC;Norm 9 19 provided by authors 15337802 15 23 1088 2703 GJA8 gap junction protein, alpha 8, 50kDa (connexin 50) Gene_symbol_2_NCBI_Entrez 1 1 5 4 up 1 0 1/0 4 1 5 4.00 4.00 Gap junction protein, alpha8, 50kD GJA8 4 4.00 up FVPTC PTC 3 2 publication 15475448 24 33 1464 2707 GJB3 gap junction protein, beta 3, 31kDa (connexin 31) Gene_symbol_2_NCBI_Entrez 1 1 32 7.94 up 1 0 1/0 7.94 1 32 7.94 7.94 Gap junction protein, beta-3, 31 kDa (connexin 31) GJB3 2.99 7.94 up PTC Norm 16 16 publication 15735049 25 34 1700 2719 GPC3 glypican 3 affy_probe_2_Entrez 2 2 71 -6.65 down 2 0 0/2 -3.325 2 71 -3.15 -3.50 209220_at 209220_at glypican 3 GPC3 -3.145 -3.15 down 9.19624E-09 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 3 6 151 2719 GPC3 glypican 3 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 71 -6.65 down 2 0 0/2 -3.325 2 71 -3.15 -3.50 U50410 U50410 Heparan sulphate proteoglycan (OCI5) GPC3 -3.5 -3.50 down no 0.0053 PTC Norm 8 8 suppl. materials 11752453 15 23 1192 2739 GLO1 glyoxalase I Gene_symbol_2_NCBI_Entrez 1 1 5 -2 down 1 0 0/1 -2 1 5 -2.00 -2.00 Glyoxalase I GLO1 0.5 -2.00 down FVPTC PTC 3 2 publication 15475448 4 7 268 2744 GLS glutaminase affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 34719_at 34719_at glutaminase_GLS GLS down FTC PTC;Norm 9 19 provided by authors 15337802 11 18 806 2766 GMPR guanosine monophosphate reductase clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 M24470 M24470 Glucose-6-phosphate dehydrogenase down ACL;ATC Norm 21 10 publication 15613457 8 13 548 2773 GNAI3 guanine nucleotide binding protein (G protein), alpha inhibiting activity polypeptide 3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 3.17 up 1 0 1/0 3.17 1 2 3.17 3.17 M27543 M27543 Guanine nucleotide-binding protein G(K) alpha 3 subunit (GNA3) 3.17 3.17 up M-ACL ACL 1 1 publication 15579771 15 23 1097 2774 GNAL guanine nucleotide binding protein (G protein), alpha activating activity polypeptide, olfactory type Gene_symbol_2_NCBI_Entrez 1 1 5 4 up 1 0 1/0 4 1 5 4.00 4.00 Guanine nucleotide binding protein GNAL 4 4.00 up FVPTC PTC 3 2 publication 15475448 9 14 620 2776 GNAQ guanine nucleotide binding protein (G protein), q polypeptide affy_probe_2_Entrez 1 1 24 -2.73 down 1 0 0/1 -2.73 1 24 -2.73 -2.73 202615_at 202615_at Homo sapiens mRNA; cDNA DKFZp686D0521 (from clone DKFZp686D0521) -2.73 -2.73 down 0.000003 FA FTC 12 12 provided by authors 15713710 15 23 1120 2781 GNAZ guanine nucleotide binding protein (G protein), alpha z polypeptide Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Guanine nucleotide binding protein, alpha z polypeptide GNAZ 3 3.00 up FVPTC PTC 3 2 publication 15475448 8 13 546 2790 GNG10 guanine nucleotide binding protein (G protein), gamma 10 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 3.55 up 1 0 1/0 3.55 1 2 3.55 3.55 U31383 U31383 Guanine nucleotide-binding protein gamma-10 subunit 3.55 3.55 up M-ACL ACL 1 1 publication 15579771 15 22 1039 2804 GOLGB1 golgi autoantigen, golgin subfamily b, macrogolgin (with transmembrane signal), 1 Gene_symbol_2_NCBI_Entrez 1 1 7 -2 down 1 0 0/1 -2 1 7 -2.00 -2.00 Golgi autoantigen GOLGB1 0.5 -2.00 down FTC FA 3 4 publication 15475448 9 14 612 2805 GOT1 glutamic-oxaloacetic transaminase 1, soluble (aspartate aminotransferase 1) affy_probe_2_Entrez 1 1 24 3.31 up 1 0 1/0 3.31 1 24 3.31 3.31 208813_at 208813_at glutamic-oxaloacetic transaminase 1, soluble (aspartate aminotransferase 1) 3.31 3.31 up 0.000833 FA FTC 12 12 provided by authors 15713710 24 33 1487 2810 SFN stratifin Gene_symbol_2_NCBI_Entrez 1 1 32 3.15 up 1 0 1/0 3.15 1 32 3.15 3.15 Stratifin SFN 1.655 3.15 up PTC Norm 16 16 publication 15735049 13 20 882 2817 GPC1 glypican 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 X54232 X54232 Glypican 1 CGPC1 up FTC FA 9 10 publication 12738736 25 34 1740 2823 GPM6A glycoprotein M6A affy_probe_2_Entrez 1 1 55 -7.34 down 1 0 0/1 -7.34 1 55 -7.34 -7.34 209470_s_at 209470_s_at glycoprotein M6A GPM6A -4.897 -4.90 down 4.17246E-07 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1767 2823 GPM6A glycoprotein M6A affy_probe_2_Entrez 1 1 55 -7.34 down 1 0 0/1 -7.34 1 55 -7.34 -7.34 209469_at 209469_at glycoprotein M6A GPM6A -7.337 -7.34 down 3.32241E-06 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 17 25 1259 2878 GPX3 glutathione peroxidase 3 (plasma) tag_2_refseq_or_mgc_2_Entrez 2 2 30 0 even 1 1 1/1 0 0 0 0 0 AGGGAGGGGC AGGGAGGGGC up FTC ATC 1 1 publication 11076659 4 7 281 2878 GPX3 glutathione peroxidase 3 (plasma) affy_probe_2_Entrez 2 2 30 0 even 1 1 1/1 0 0 0 0 0 770_at 770_at glutathione peroxidase 3 (plasma)_GPX3 GPX3 down FTC PTC;Norm 9 19 provided by authors 15337802 1 1 31 2885 GRB2 growth factor receptor-bound protein 2 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 7 -1.57 even 1 1 1/1 -0.785 2 7 2.00 -3.57 L29511 L29511 GRB2 isoform 0.28 -3.57 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 15 23 1156 2885 GRB2 growth factor receptor-bound protein 2 Gene_symbol_2_NCBI_Entrez 2 2 7 -1.57 even 1 1 1/1 -0.785 2 7 2.00 -3.57 Growth factor receptor-bound protein 2 GRB2 2 2.00 up FVPTC PTC 3 2 publication 15475448 15 22 1029 2896 GRN granulin Gene_symbol_2_NCBI_Entrez 1 1 7 2 up 1 0 1/0 2 1 7 2.00 2.00 Granulin GRN 2 2.00 up FTC FA 3 4 publication 15475448 13 20 937 2934 GSN gelsolin (amyloidosis, Finnish type) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 47 0 down 2 0 0/2 0 0 0 0 0 X04412 X04412 Gelsolin GSN down FTC FA 9 10 publication 12738736 4 7 171 2934 GSN gelsolin (amyloidosis, Finnish type) affy_probe_2_Entrez 2 2 47 0 down 2 0 0/2 0 0 0 0 0 32612_at 32612_at gelsolin (amyloidosis, Finnish type)_GSN GSN down FTC PTC;Norm 9 19 provided by authors 15337802 2 3 90 2962 GTF2F1 general transcription factor IIF, polypeptide 1, 74kDa clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 4 4.1 up 1 0 1/0 4.1 1 4 4.10 4.10 NM_002096 NM_002096 General transcription factor IIF, polypeptide 1, 74 kd GTF2F1 4.1 4.10 up FCL;PCL;UCL Norm 3 1 publication 15785240 16 24 1208 2966 GTF2H2 general transcription factor IIH, polypeptide 2, 44kDa Gene_symbol_2_NCBI_Entrez 1 1 63 -1.46 down 1 0 0/1 -1.46 1 63 -1.46 -1.46 GTF2H2 0.683333333 -1.46 down 0.04 PTC;FVPTC FA;HN 32 31 publication 15087409 16 24 1206 2987 GUK1 guanylate kinase 1 Gene_symbol_2_NCBI_Entrez 1 1 63 1.79 up 1 0 1/0 1.79 1 63 1.79 1.79 GUK1 1.793103448 1.79 up 0.02 PTC;FVPTC FA;HN 32 31 publication 15087409 14 21 989 3014 H2AFX H2A histone family, member X clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 2.2 up 1 0 1/0 2.2 1 14 2.20 2.20 H95392 H95392 Histone H2A.X 2.2 2.20 up PTC Norm 7 7 publication 15041723 14 21 987 3021 H3F3B H3 histone, family 3B (H3.3B) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 16 -5.3 even 1 1 1/1 -2.65 2 16 2.30 -7.60 AA608514 AA608514 Histone H3.3 2.3 2.30 up PTC Norm 7 7 publication 15041723 2 5 107 3021 H3F3B H3 histone, family 3B (H3.3B) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 16 -5.3 even 1 1 1/1 -2.65 2 16 2.30 -7.60 NM_002107 NM_002107 H3 histone, family 3A H3F3A 7.6 -7.60 down UCL Norm 1 1 publication 15785240 12 19 856 3040 HBA2 hemoglobin, alpha 2 clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 71 -10.5 down 3 1 1/3 -3.5 3 69 -2.38 -4.72 V00491 V00491 Hemoglobin, alpha-chain (HBA1) 0.42 -2.38 down PTC Norm 18 3 publication 12538453 17 27 1270 3040 HBA2 hemoglobin, alpha 2 tag_2_refseq_or_mgc_2_Entrez 4 4 71 -10.5 down 3 1 1/3 -3.5 3 69 -2.38 -4.72 CCCAACGCGC CCCAACGCGC up Norm FA 1 1 publication 11076659 24 33 1542 3040 HBA2 hemoglobin, alpha 2 Gene_symbol_2_NCBI_Entrez 4 4 71 -10.5 down 3 1 1/3 -3.5 3 69 -2.38 -4.72 Hemoglobin, alpha2 HBA2 -2.24 -4.72 down PTC Norm 16 16 publication 15735049 3 6 150 3040 HBA2 hemoglobin, alpha 2 clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 71 -10.5 down 3 1 1/3 -3.5 3 69 -2.38 -4.72 J00153 J00153 Alpha globin HBA -3.4 -3.40 down no 0.0076 PTC Norm 8 8 suppl. materials 11752453 11 18 822 3043 HBB hemoglobin, beta clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 118 -15.16 down 3 0 0/3 -7.58 2 87 -3.77 -11.39 AF117710 AF117710 HBB hemoglobin, b down ACL;ATC Norm 21 10 publication 15613457 24 33 1539 3043 HBB hemoglobin, beta Gene_symbol_2_NCBI_Entrez 3 3 118 -15.16 down 3 0 0/3 -7.58 2 87 -3.77 -11.39 Hemoglobin, beta HBB -1.915 -3.77 down PTC Norm 16 16 publication 15735049 25 34 1768 3043 HBB hemoglobin, beta affy_probe_2_Entrez 3 3 118 -15.16 down 3 0 0/3 -7.58 2 87 -3.77 -11.39 211696_x_at 211696_x_at hemoglobin, beta /// hemoglobin, beta HBB -7.645 -7.64 down 0.039837845 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1775 3043 HBB hemoglobin, beta affy_probe_2_Entrez 3 3 118 -15.16 down 3 0 0/3 -7.58 2 87 -3.77 -11.39 217232_x_at 217232_x_at --- --- -9.853 -9.85 down 0.033878047 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1777 3043 HBB hemoglobin, beta affy_probe_2_Entrez 3 3 118 -15.16 down 3 0 0/3 -7.58 2 87 -3.77 -11.39 209116_x_at 209116_x_at hemoglobin, beta HBB -11.392 -11.39 down 0.039581121 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1708 3045 HBD hemoglobin, delta affy_probe_2_Entrez 1 1 55 -3.37 down 1 0 0/1 -3.37 1 55 -3.37 -3.37 206834_at 206834_at hemoglobin, delta HBD -3.371 -3.37 down 0.001258285 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 8 13 565 3065 HDAC1 histone deacetylase 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.39 up 1 0 1/0 2.39 1 2 2.39 2.39 D50405 D50405 RPD3 transcription factor protein; histone deacetylase 1 (HD1) 2.39 2.39 up M-ACL ACL 1 1 publication 15579771 2 2 63 3066 HDAC2 histone deacetylase 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -10 down 1 0 0/1 -10 1 2 -10.00 -10.00 NM_001527 NM_001527 Histone deacetylase 2 HDAC2 10 -10.00 down FCL Norm 1 1 publication 15785240 8 13 590 3068 HDGF hepatoma-derived growth factor (high-mobility group protein 1-like) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.22 down 1 0 0/1 -2.22 1 2 -2.22 -2.22 D16431 D16431 Hepatoma-derived growth factor (HDGF) 0.45 -2.22 down M-ACL ACL 1 1 publication 15579771 18 31 1339 3081 HGD homogentisate 1,2-dioxygenase (homogentisate oxidase) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 75 -7.3 down 2 0 0/2 -3.65 2 75 -2.70 -4.60 AF000573 AF000573 Homogentisate 1,2-dioxygenase HGO 2.7 -2.70 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 3 6 154 3081 HGD homogentisate 1,2-dioxygenase (homogentisate oxidase) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 75 -7.3 down 2 0 0/2 -3.65 2 75 -2.70 -4.60 AF000573 AF000573 Homogentisate 1,2-dioxygenase HGD -4.6 -4.60 down no 0.003 PTC Norm 8 8 suppl. materials 11752453 12 19 845 3091 HIF1A hypoxia-inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 21 6.6 up 1 0 1/0 6.6 1 21 6.60 6.60 U22431 U22431 HIF-1 6.6 6.60 up PTC Norm 18 3 publication 12538453 2 5 108 3094 HINT1 histidine triad nucleotide binding protein 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -6.8 down 1 0 0/1 -6.8 1 2 -6.80 -6.80 NM_005340 NM_005340 HIstidine triad nucleotide binding protein 1 HINT1 6.8 -6.80 down UCL Norm 1 1 publication 15785240 25 34 1632 3096 HIVEP1 human immunodeficiency virus type I enhancer binding protein 1 affy_probe_2_Entrez 1 1 55 2.12 up 1 0 1/0 2.12 1 55 2.12 2.12 204512_at 204512_at human immunodeficiency virus type I enhancer binding protein 1 HIVEP1 2.117 2.12 up 0.001786449 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 2 2 74 3098 HK1 hexokinase 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -7 down 1 0 0/1 -7 1 2 -7.00 -7.00 NM_000188 NM_000188 Hexokinase 1 HK1 7 -7.00 down FCL Norm 1 1 publication 15785240 17 29 1292 3106 HLA-B major histocompatibility complex, class I, B tag_2_refseq_or_mgc_2_Entrez 1 2 4 0 up 2 0 2/0 0 0 0 0 0 CTGACCTGTG CTGACCTGTG up PTC FA 1 1 publication 11076659 17 30 1295 3106 HLA-B major histocompatibility complex, class I, B tag_2_refseq_or_mgc_2_Entrez 1 2 4 0 up 2 0 2/0 0 0 0 0 0 CTGACCTGTG CTGACCTGTG up PTC FTC 1 1 publication 11076659 12 19 848 3115 HLA-DPB1 major histocompatibility complex, class II, DP beta 1 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 80 8.2 up 2 0 2/0 4.1 2 80 6.00 2.20 M83664 M83664 Major histocompatibility complex, class II, DP 1 (HLA-DPB1) 6 6.00 up PTC Norm 18 3 publication 12538453 18 31 1367 3115 HLA-DPB1 major histocompatibility complex, class II, DP beta 1 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 80 8.2 up 2 0 2/0 4.1 2 80 6.00 2.20 M83664 M83664 MHC class II lymphocyte antigen HLA-DP1B 2.2 2.20 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 15 23 1073 3117 HLA-DQA1 major histocompatibility complex, class II, DQ alpha 1 Gene_symbol_2_NCBI_Entrez 1 1 5 6 up 1 0 1/0 6 1 5 6.00 6.00 Major histocompatibility complex, class II, DQ alpha1 HLA-DQA1 6 6.00 up FVPTC PTC 3 2 publication 15475448 18 31 1361 3119 HLA-DQB1 major histocompatibility complex, class II, DQ beta 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 2.3 up 1 0 1/0 2.3 1 59 2.30 2.30 M81141 M81141 MHC class II HLA-DQ-beta HLA-DQ-beta 2.3 2.30 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 17 28 1283 3122 HLA-DRA major histocompatibility complex, class II, DR alpha tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 down 1 0 0/1 0 0 0 0 0 GGGCATCTCT GGGCATCTCT down PTC ATC 1 1 publication 11076659 10 16 713 3134 HLA-F major histocompatibility complex, class I, F affy_probe_2_Entrez 1 1 14 7.99 up 1 0 1/0 7.99 1 14 7.99 7.99 37420_i_at 37420_i_at Human leukocyte antigen F HLA-F 7.99 7.99 up yes PTC GT 8 6 publication 15515157 14 21 997 3162 HMOX1 heme oxygenase (decycling) 1 Gene_symbol_2_NCBI_Entrez 1 1 14 0 up 1 0 1/0 0 0 0 0 0 Heme oxygenase (decycling) 1 HMOX1 up PTC Norm 7 7 publication The gene name for this entry was determined manually from the description 15041723 14 21 984 3178 HNRPA1 heterogeneous nuclear ribonucleoprotein A1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 2.4 up 1 0 1/0 2.4 1 14 2.40 2.40 AA126911 AA126911 Heterogeneous nuclear ribonucleoprotein A1 2.4 2.40 up PTC Norm 7 7 publication 15041723 25 34 1634 3182 HNRPAB heterogeneous nuclear ribonucleoprotein A/B affy_probe_2_Entrez 1 1 55 2.03 up 1 0 1/0 2.03 1 55 2.03 2.03 201277_s_at 201277_s_at heterogeneous nuclear ribonucleoprotein A/B HNRPAB 2.026 2.03 up 0.000184196 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 11 18 771 3190 HNRPK heterogeneous nuclear ribonucleoprotein K clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 S74678 S74678 Heterogeneous nuclear ribonucleoprotein complex K up ACL;ATC Norm 21 10 publication 15613457 11 18 762 3192 HNRPU heterogeneous nuclear ribonucleoprotein U (scaffold attachment factor A) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 AF068846 AF068846 Scaffold attachment factor A (SAF-A) up ACL;ATC Norm 21 10 publication 15613457 15 23 1202 3223 HOXC6 homeo box C6 Gene_symbol_2_NCBI_Entrez 1 1 5 -10 down 1 0 0/1 -10 1 5 -10.00 -10.00 Homeo box C6 HOXC6 0.1 -10.00 down FVPTC PTC 3 2 publication 15475448 4 8 372 3249 HPN hepsin (transmembrane protease, serine 1) affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 37639_at 37639_at hepsin (transmembrane protease, serine 1)_HPN HPN up PTC FTC;Norm 6 22 provided by authors 15337802 24 33 1519 3281 HSBP1 heat shock factor binding protein 1 Gene_symbol_2_NCBI_Entrez 1 1 32 -1.43 down 1 0 0/1 -1.43 1 32 -1.43 -1.43 Heat shock factor binding protein 1 HSBP1 -0.52 -1.43 down PTC Norm 16 16 publication 15735049 18 31 1353 3293 HSD17B3 hydroxysteroid (17-beta) dehydrogenase 3 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 114 -4.44 down 2 0 0/2 -2.22 2 114 -2.04 -2.40 U05659 U05659 17-beta-hydroxysteroid dehydrogenase type 3 EDH17B3 2.4 -2.40 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1638 3293 HSD17B3 hydroxysteroid (17-beta) dehydrogenase 3 affy_probe_2_Entrez 2 2 114 -4.44 down 2 0 0/2 -2.22 2 114 -2.04 -2.40 206985_at 206985_at hydroxysteroid (17-beta) dehydrogenase 3 HSD17B3 -2.037 -2.04 down 0.001096937 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 16 24 1222 3295 HSD17B4 hydroxysteroid (17-beta) dehydrogenase 4 Gene_symbol_2_NCBI_Entrez 1 1 63 -1.65 down 1 0 0/1 -1.65 1 63 -1.65 -1.65 HSD17B4 0.606896552 -1.65 down 0.03 PTC;FVPTC FA;HN 32 31 publication 15087409 11 18 760 3303 HSPA1A heat shock 70kDa protein 1A clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 AA706503 AA706503 IMAGE:1141693 50 similar to gb:X 16869 elongation factor 1-a 1 (eef1a1) up ACL;ATC Norm 21 10 publication 15613457 8 13 563 3309 HSPA5 heat shock 70kDa protein 5 (glucose-regulated protein, 78kDa) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 26 -0.53 even 1 1 1/1 -0.265 2 26 2.43 -2.96 M19645 M19645 78K glucose-regulated protein/Ig-binding protein 2.43 2.43 up M-ACL ACL 1 1 publication 15579771 9 14 630 3309 HSPA5 heat shock 70kDa protein 5 (glucose-regulated protein, 78kDa) affy_probe_2_Entrez 2 2 26 -0.53 even 1 1 1/1 -0.265 2 26 2.43 -2.96 211936_at 211936_at heat shock 70kDa protein 5 (glucose-regulated protein, 78kDa) -2.96 -2.96 down 0.000005 FA FTC 12 12 provided by authors 15713710 11 18 765 3312 HSPA8 heat shock 70kDa protein 8 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 BC016660 BC016660 HSP A8 heat shock 70 kDa protein 8 up yes ACL;ATC Norm 21 10 publication 15613457 15 22 1043 3337 DNAJB1 DnaJ (Hsp40) homolog, subfamily B, member 1 Gene_symbol_2_NCBI_Entrez 1 1 7 -2.5 down 1 0 0/1 -2.5 1 7 -2.50 -2.50 DNAJ (Hsp40) homolog, subfamily B, member 1 DNAJB1 0.4 -2.50 down FTC FA 3 4 publication 15475448 1 1 43 3371 TNC tenascin C (hexabrachion) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 80 -1.09 up 2 1 2/1 -0.545 2 61 6.60 -7.69 X78565 X78565 Tenascin-C 0.13 -7.69 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 13 20 884 3371 TNC tenascin C (hexabrachion) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 80 -1.09 up 2 1 2/1 -0.545 2 61 6.60 -7.69 X78565 X78565 Hexabrachion (tenascin-C) HXB up FTC FA 9 10 publication 12738736 18 31 1299 3371 TNC tenascin C (hexabrachion) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 80 -1.09 up 2 1 2/1 -0.545 2 61 6.60 -7.69 X78565 X78565 Tenascin-C TNC 6.6 6.60 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 10 16 724 3397 ID1 inhibitor of DNA binding 1, dominant negative helix-loop-helix protein affy_probe_2_Entrez 2 2 73 -5.61 down 2 0 0/2 -2.805 2 73 -2.40 -3.21 36617_at 36617_at Inhibitor of DNA binding 1, ID1 -2.51 -2.51 down yes PTC GT 8 6 publication 15515157 10 16 732 3397 ID1 inhibitor of DNA binding 1, dominant negative helix-loop-helix protein affy_probe_2_Entrez 2 2 73 -5.61 down 2 0 0/2 -2.805 2 73 -2.40 -3.21 36618_g_at 36618_g_at Inhibitor of DNA binding 1, ID1 -3.21 -3.21 down yes PTC GT 8 6 publication 15515157 18 31 1355 3397 ID1 inhibitor of DNA binding 1, dominant negative helix-loop-helix protein clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 73 -5.61 down 2 0 0/2 -2.805 2 73 -2.40 -3.21 X77956 X77956 Human helix-loop-helix Id1protein Id-1 2.4 -2.40 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 13 20 944 3400 ID4 inhibitor of DNA binding 4, dominant negative helix-loop-helix protein clone_accession_2_NCBI_rna_accession_2_Entrez 3 4 94 -9.79 down 4 0 0/4 -3.26333333333333 3 75 -2.29 -5.00 AL022726 AL022726 Inhibitor of DNA binding 4 ID4 down FTC FA 9 10 publication 12738736 15 22 1060 3400 ID4 inhibitor of DNA binding 4, dominant negative helix-loop-helix protein Gene_symbol_2_NCBI_Entrez 3 4 94 -9.79 down 4 0 0/4 -3.26333333333333 3 75 -2.29 -5.00 Inhibitor of DNA binding 4 ID4 0.2 -5.00 down FTC FA 3 4 publication 15475448 15 23 1196 3400 ID4 inhibitor of DNA binding 4, dominant negative helix-loop-helix protein Gene_symbol_2_NCBI_Entrez 3 4 94 -9.79 down 4 0 0/4 -3.26333333333333 3 75 -2.29 -5.00 Inhibitor of DNA binding 4 ID4 0.4 -2.50 down FVPTC PTC 3 2 publication 15475448 16 24 1245 3400 ID4 inhibitor of DNA binding 4, dominant negative helix-loop-helix protein Gene_symbol_2_NCBI_Entrez 3 4 94 -9.79 down 4 0 0/4 -3.26333333333333 3 75 -2.29 -5.00 ID4 0.436363636 -2.29 down 0.01 PTC;FVPTC FA;HN 32 31 publication 15087409 11 18 775 3420 IDH3B isocitrate dehydrogenase 3 (NAD+) beta clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 U49283 U49283 NAD+-specific isocitrate dehydrogenase b subunit precursor (IDH3B) up ACL;ATC Norm 21 10 publication 15613457 11 18 799 3421 IDH3G isocitrate dehydrogenase 3 (NAD+) gamma clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 U69268 U69268 NAD (H)-specific isocitrate dehydrogenase g subunit (IDH3G) down ACL;ATC Norm 21 10 publication 15613457 16 24 1232 3422 IDI1 isopentenyl-diphosphate delta isomerase 1 Gene_symbol_2_NCBI_Entrez 1 1 63 -1.85 down 1 0 0/1 -1.85 1 63 -1.85 -1.85 IDI1 0.540145985 -1.85 down 0.01 PTC;FVPTC FA;HN 32 31 publication 15087409 19 32 1406 3423 IDS iduronate 2-sulfatase (Hunter syndrome) tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 up 1 0 1/0 0 0 0 0 0 AGGACAAATA AGGACAAATA iduronate 2-sulfatase up 0.0245 FVPTC Norm 1 1 publication 14715705 4 7 303 3426 IF I factor (complement) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 35698_at 35698_at I factor (complement)_IF IF down FTC PTC;Norm 9 19 provided by authors 15337802 8 13 542 3429 IFI27 interferon, alpha-inducible protein 27 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 6.6 up 1 0 1/0 6.6 1 2 6.60 6.60 X67325 X67325 Interferon alpha-induced 11.5-kDa protein 6.6 6.60 up M-ACL ACL 1 1 publication 15579771 14 21 1011 3480 IGF1R insulin-like growth factor 1 receptor Gene_symbol_2_NCBI_Entrez 1 1 14 0 up 1 0 1/0 0 0 0 0 0 Insulin-like growth factor 1 receptor IGF1R up PTC Norm 7 7 publication The gene name for this entry was determined manually from the description 15041723 6 11 400 3481 IGF2 insulin-like growth factor 2 (somatomedin A) Gene_symbol_2_NCBI_Entrez 1 1 12 0 down 1 0 0/1 0 0 0 0 0 IGF-II IGF2 down yes AFTN;CTN Norm 6 6 publication The gene name for this entry was determined manually from the description 11600550 25 34 1615 3482 IGF2R insulin-like growth factor 2 receptor affy_probe_2_Entrez 1 1 55 2.5 up 1 0 1/0 2.5 1 55 2.50 2.50 201393_s_at 201393_s_at insulin-like growth factor 2 receptor IGF2R 2.500 2.50 up 0.020340043 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 1 1 15 3486 IGFBP3 insulin-like growth factor binding protein 3 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 80 5.73 up 3 0 3/0 2.865 2 61 2.93 2.80 M31159 M31159 Growth hormone-dependent insulin-like growth factor-binding protein 2.93 2.93 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 13 20 888 3486 IGFBP3 insulin-like growth factor binding protein 3 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 80 5.73 up 3 0 3/0 2.865 2 61 2.93 2.80 M35878 M35878 Insulin-like growth factor binding protein 3 IGFBP3 up FTC FA 9 10 publication 12738736 13 20 889 3486 IGFBP3 insulin-like growth factor binding protein 3 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 80 5.73 up 3 0 3/0 2.865 2 61 2.93 2.80 M35878 M35878 Insulin-like growth factor binding protein 3 IGFBP3 up FTC FA 9 10 publication 12738736 18 31 1330 3486 IGFBP3 insulin-like growth factor binding protein 3 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 80 5.73 up 3 0 3/0 2.865 2 61 2.93 2.80 M35878 M35878 Insulin-like growth factor-binding protein-3 precursor IGFBP3 2.8 2.80 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 10 15 705 3488 IGFBP5 insulin-like growth factor binding protein 5 affy_probe_2_Entrez 2 3 54 1.86 up 2 1 2/1 0.93 2 26 5.96 -4.10 38650_at 38650_at IGFBP IGFBP5 -4.1 -4.10 down yes GT Norm 6 6 publication 15515157 10 16 715 3488 IGFBP5 insulin-like growth factor binding protein 5 affy_probe_2_Entrez 2 3 54 1.86 up 2 1 2/1 0.93 2 26 5.96 -4.10 38650_at 38650_at Insulin-like growth factor binding protein 5 IGFBP5 5.96 5.96 up no PTC GT 8 6 publication 15515157 4 8 315 3488 IGFBP5 insulin-like growth factor binding protein 5 affy_probe_2_Entrez 2 3 54 1.86 up 2 1 2/1 0.93 2 26 5.96 -4.10 1396_at 1396_at insulin-like growth factor binding protein 5_IGFBP5 IGFBP5 up PTC FTC;Norm 6 22 provided by authors 15337802 4 8 319 3488 IGFBP5 insulin-like growth factor binding protein 5 affy_probe_2_Entrez 2 3 54 1.86 up 2 1 2/1 0.93 2 26 5.96 -4.10 38650_at 38650_at insulin-like growth factor binding protein 5_IGFBP5 IGFBP5 up PTC FTC;Norm 6 22 provided by authors 15337802 4 8 320 3488 IGFBP5 insulin-like growth factor binding protein 5 affy_probe_2_Entrez 2 3 54 1.86 up 2 1 2/1 0.93 2 26 5.96 -4.10 1678_g_at 1678_g_at insulin-like growth factor binding protein 5_IGFBP5 IGFBP5 up PTC FTC;Norm 6 22 provided by authors 15337802 4 8 308 3489 IGFBP6 insulin-like growth factor binding protein 6 affy_probe_2_Entrez 2 2 30 -3.03 even 1 1 1/1 -3.03 1 2 -3.03 -3.03 1736_at 1736_at insulin-like growth factor binding protein 6_IGFBP6 IGFBP6 up PTC FTC;Norm 6 22 provided by authors 15337802 8 13 602 3489 IGFBP6 insulin-like growth factor binding protein 6 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 30 -3.03 even 1 1 1/1 -3.03 1 2 -3.03 -3.03 M62402 M62402 IGF-binding protein 6 0.33 -3.03 down M-ACL ACL 1 1 publication 15579771 13 20 947 3490 IGFBP7 insulin-like growth factor binding protein 7 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 47 0 down 2 0 0/2 0 0 0 0 0 L19182 L19182 Insulin-like growth factor binding protein 7 IGFBP7 down FTC FA 9 10 publication 12738736 4 7 280 3490 IGFBP7 insulin-like growth factor binding protein 7 affy_probe_2_Entrez 2 2 47 0 down 2 0 0/2 0 0 0 0 0 2062_at 2062_at polymerase (RNA) II (DNA directed) polypeptide B, 140kDa_POLR2B POLR2B down FTC PTC;Norm 9 19 provided by authors 15337802 12 19 858 3491 CYR61 cysteine-rich, angiogenic inducer, 61 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 28 -23.23 down 2 0 0/2 -11.615 2 28 -3.23 -20.00 AF031385 AF031385 Cystein-rich protein 61 (CYR61) 0.31 -3.23 down PTC Norm 18 3 publication 12538453 15 22 1063 3491 CYR61 cysteine-rich, angiogenic inducer, 61 Gene_symbol_2_NCBI_Entrez 2 2 28 -23.23 down 2 0 0/2 -11.615 2 28 -3.23 -20.00 Cysteine-rich, angiogenic inducer, 61 CYR61 0.05 -20.00 down yes FTC FA 3 4 publication 15475448 13 20 943 3500 IGHG1 immunoglobulin heavy constant gamma 1 (G1m marker) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 down 1 0 0/1 0 0 0 0 0 Y14737 Y14737 Immunoglobulin heavy constant 3 marker IGHG3 down FTC FA 9 10 publication 12738736 4 7 165 3512 IGJ immunoglobulin J polypeptide, linker protein for immunoglobulin alpha and mu polypeptides affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 37006_at 37006_at immunoglobulin J polypeptide, linker protein for immunoglobulin alpha and mu polypeptides_IGJ IGJ down FTC PTC;Norm 9 19 provided by authors 15337802 24 33 1450 3547 IGSF1 immunoglobulin superfamily, member 1 Gene_symbol_2_NCBI_Entrez 2 2 60 19.03 up 2 0 2/0 19.03 1 32 19.03 19.03 Immunoglobulin superfamily, member 1 IGSF1 4.25 19.03 up PTC Norm 16 16 publication 15735049 4 8 314 3547 IGSF1 immunoglobulin superfamily, member 1 affy_probe_2_Entrez 2 2 60 19.03 up 2 0 2/0 19.03 1 32 19.03 19.03 34238_at 34238_at immunoglobulin superfamily, member 1_IGSF1 IGSF1 up PTC FTC;Norm 6 22 provided by authors 15337802 4 8 360 3556 IL1RAP interleukin 1 receptor accessory protein affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 38546_at 38546_at interleukin 1 receptor accessory protein_IL1RAP IL1RAP up PTC FTC;Norm 6 22 provided by authors 15337802 13 20 948 3590 IL11RA interleukin 11 receptor, alpha clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 down 1 0 0/1 0 0 0 0 0 U32324 U32324 Interleukin 11 receptor, IL11RA down FTC FA 9 10 publication 12738736 24 33 1515 3597 IL13RA1 interleukin 13 receptor, alpha 1 Gene_symbol_2_NCBI_Entrez 2 2 87 3.8 up 2 0 2/0 1.9 2 87 2.32 1.48 Interleukin 13 receptor, alpha1 IL13RA1 0.565 1.48 up PTC Norm 16 16 publication 15735049 25 34 1621 3597 IL13RA1 interleukin 13 receptor, alpha 1 affy_probe_2_Entrez 2 2 87 3.8 up 2 0 2/0 1.9 2 87 2.32 1.48 201888_s_at 201888_s_at interleukin 13 receptor, alpha 1 IL13RA1 2.318 2.32 up 0.02057311 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 8 13 591 3611 ILK integrin-linked kinase clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.22 down 1 0 0/1 -2.22 1 2 -2.22 -2.22 U40282 U40282 Integrin-linked kinase (ILK) 0.45 -2.22 down M-ACL ACL 1 1 publication 15579771 18 31 1399 3613 IMPA2 inositol(myo)-1(or 4)-monophosphatase 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -2 down 1 0 0/1 -2 1 59 -2.00 -2.00 AF014398 AF014398 Myo-inositol monophosphatase 2 IMPA2 2 -2.00 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 4 8 343 3625 INHBB inhibin, beta B (activin AB beta polypeptide) affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 38545_at 38545_at inhibin, beta B (activin AB beta polypeptide)_INHBB INHBB up PTC FTC;Norm 6 22 provided by authors 15337802 14 21 1017 3631 INPP4A inositol polyphosphate-4-phosphatase, type I, 107kDa Gene_symbol_2_NCBI_Synonym_2_Entrez 2 2 69 2.14 up 2 0 2/0 2.14 1 55 2.14 2.14 Inositol polyphosphate 4-phosphatase INPP4 up PTC Norm 7 7 publication The gene name for this entry was determined manually from the description 15041723 25 34 1629 3631 INPP4A inositol polyphosphate-4-phosphatase, type I, 107kDa affy_probe_2_Entrez 2 2 69 2.14 up 2 0 2/0 2.14 1 55 2.14 2.14 204552_at 204552_at inositol polyphosphate-4-phosphatase, type I, 107kDa INPP4A 2.142 2.14 up 0.001980641 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 14 21 1013 3636 INPPL1 inositol polyphosphate phosphatase-like 1 Gene_symbol_2_NCBI_Entrez 1 1 14 0 up 1 0 1/0 0 0 0 0 0 Inositol polyphosphate phosphatase-like protein 1 INPPL1 up PTC Norm 7 7 publication The gene name for this entry was determined manually from the description 15041723 8 13 554 3655 ITGA6 integrin, alpha 6 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.82 up 1 0 1/0 2.82 1 2 2.82 2.82 X53586 X53586 Integrin alpha 6 2.82 2.82 up M-ACL ACL 1 1 publication 15579771 18 31 1323 3662 IRF4 interferon regulatory factor 4 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 3.2 up 1 0 1/0 3.2 1 59 3.20 3.20 U52682 U52682 Human lymphocyte specific interferon regulatory factor LSIRF 3.2 3.20 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 18 31 1395 3667 IRS1 insulin receptor substrate 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -2 down 1 0 0/1 -2 1 59 -2.00 -2.00 S62539 S62539 Insulin receptor substrate-1 IRS-1 2 -2.00 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 8 13 588 3679 ITGA7 integrin, alpha 7 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.13 down 1 0 0/1 -2.13 1 2 -2.13 -2.13 X74295 X74295 Integrin alpha 7 0.47 -2.13 down M-ACL ACL 1 1 publication 15579771 4 7 194 3685 ITGAV integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 39071_at 39071_at integrin, alpha V (vitronectin receptor, alpha polypeptide, antigen CD51)_ITGAV ITGAV down FTC PTC;Norm 9 19 provided by authors 15337802 8 13 587 3691 ITGB4 integrin, beta 4 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.04 down 1 0 0/1 -2.04 1 2 -2.04 -2.04 X53587 X53587 Integrin beta 4 0.49 -2.04 down M-ACL ACL 1 1 publication 15579771 5 10 388 3703 ITM1 integral membrane protein 1 tag_2_refseq_or_mgc_2_Entrez 1 1 3 0 up 1 0 1/0 0 0 0 0 0 GCTTTACTTT GCTTTACTTT ITM1 up yes FTC FA;Norm 1 2 publication 15085203 15 23 1158 3705 ITPK1 inositol 1,3,4-triphosphate 5/6 kinase Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Inositol 1,3,4-triphosphate 5/6 kinase ITPK1 2 2.00 up FVPTC PTC 3 2 publication 15475448 13 20 945 3708 ITPR1 inositol 1,4,5-triphosphate receptor, type 1 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 94 -5.2 down 3 0 0/3 -2.6 2 75 -2.50 -2.70 D26070 D26070 Inositol 1, 4, 5-triphosphate receptor, type 1 ITPR1 down FTC FA 9 10 publication 12738736 13 20 946 3708 ITPR1 inositol 1,4,5-triphosphate receptor, type 1 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 94 -5.2 down 3 0 0/3 -2.6 2 75 -2.50 -2.70 D26070 D26070 Inositol 1, 4, 5-triphosphate receptor, type 1 ITPR1 down FTC FA 9 10 publication 12738736 18 31 1347 3708 ITPR1 inositol 1,4,5-triphosphate receptor, type 1 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 94 -5.2 down 3 0 0/3 -2.6 2 75 -2.50 -2.70 D26070 D26070 Type 1 inositol 1,4,5-trisphosphate receptor InsP3R1 2.5 -2.50 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 3 6 145 3708 ITPR1 inositol 1,4,5-triphosphate receptor, type 1 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 94 -5.2 down 3 0 0/3 -2.6 2 75 -2.50 -2.70 D26070 D26070 Type 1 inositol 1,4,5-trisphosphate receptor ITPR1 -2.7 -2.70 down yes 0.0013 PTC Norm 8 8 suppl. materials 11752453 4 7 288 3710 ITPR3 inositol 1,4,5-triphosphate receptor, type 3 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 37343_at 37343_at inositol 1,4,5-triphosphate receptor, type 3_ITPR3 ITPR3 down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 294 3710 ITPR3 inositol 1,4,5-triphosphate receptor, type 3 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 182_at 182_at inositol 1,4,5-triphosphate receptor, type 3_ITPR3 ITPR3 down FTC PTC;Norm 9 19 provided by authors 15337802 13 20 966 3725 JUN v-jun sarcoma virus 17 oncogene homolog (avian) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 down 1 0 0/1 0 0 0 0 0 J04111 J04111 v-Jun avian sarcoma virus 17 oncogene homolog JUN down FTC FA 9 10 publication 12738736 15 23 1101 3726 JUNB jun B proto-oncogene Gene_symbol_2_NCBI_Entrez 2 2 33 4 even 1 1 1/1 4 1 5 4.00 4.00 Jun B proto-oncogene JUNB 4 4.00 up FVPTC PTC 3 2 publication 15475448 4 7 237 3726 JUNB jun B proto-oncogene affy_probe_2_Entrez 2 2 33 4 even 1 1 1/1 4 1 5 4.00 4.00 2049_s_at 2049_s_at jun B proto-oncogene_JUNB JUNB down FTC PTC;Norm 9 19 provided by authors 15337802 1 1 8 3728 JUP junction plakoglobin clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 7.41 up 1 0 1/0 7.41 1 2 7.41 7.41 M23410 M23410 Desmoplakin III 7.41 7.41 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 15 23 1197 3754 KCNF1 potassium voltage-gated channel, subfamily F, member 1 Gene_symbol_2_NCBI_Entrez 1 1 5 -2.5 down 1 0 0/1 -2.5 1 5 -2.50 -2.50 Potassium voltage-gated channel, subfamily F, member 1 KCNF1 0.4 -2.50 down FVPTC PTC 3 2 publication 15475448 25 34 1559 3759 KCNJ2 potassium inwardly-rectifying channel, subfamily J, member 2 affy_probe_2_Entrez 1 1 55 9.17 up 1 0 1/0 9.17 1 55 9.17 9.17 206765_at 206765_at potassium inwardly-rectifying channel, subfamily J, member 2 KCNJ2 9.173 9.17 up 0.018440032 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1659 3769 KCNJ13 potassium inwardly-rectifying channel, subfamily J, member 13 affy_probe_2_Entrez 1 1 55 -2.41 down 1 0 0/1 -2.41 1 55 -2.41 -2.41 210179_at 210179_at potassium inwardly-rectifying channel, subfamily J, member 13 KCNJ13 -2.408 -2.41 down 0.000155458 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 18 31 1304 3783 KCNN4 potassium intermediate/small conductance calcium-activated channel, subfamily N, member 4 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 4.9 up 1 0 1/0 4.9 1 59 4.90 4.90 AF022797 AF022797 Intermediate conductance calcium-activated potassium channel hSK4 4.9 4.90 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 16 24 1248 3815 KIT v-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homolog Gene_symbol_2_NCBI_Entrez 2 2 118 -15.7 down 2 0 0/2 -7.85 2 118 -3.16 -12.54 KIT 0.316666667 -3.16 down yes 0.0001 PTC;FVPTC FA;HN 32 31 publication 15087409 25 34 1779 3815 KIT v-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homolog affy_probe_2_Entrez 2 2 118 -15.7 down 2 0 0/2 -7.85 2 118 -3.16 -12.54 205051_s_at 205051_s_at v-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homolog KIT -12.543 -12.54 down 0.000130559 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1625 3838 KPNA2 karyopherin alpha 2 (RAG cohort 1, importin alpha 1) affy_probe_2_Entrez 1 1 55 2.27 up 1 0 1/0 2.27 1 55 2.27 2.27 211762_s_at 211762_s_at karyopherin alpha 2 (RAG cohort 1, importin alpha 1) /// karyopherin alpha 2 (RAG cohort 1, importin alpha 1) KPNA2 2.267 2.27 up 0.02115598 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 23 1169 3840 KPNA4 karyopherin alpha 4 (importin alpha 3) Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Karyopherin alpha 4 (importin alpha 3) KPNA4 2 2.00 up FVPTC PTC 3 2 publication 15475448 1 1 12 3855 KRT7 keratin 7 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 5.22 up 1 0 1/0 5.22 1 2 5.22 5.22 X03212 X03212 Cytokeratin 7 5.22 5.22 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 15 22 1057 3856 KRT8 keratin 8 Gene_symbol_2_NCBI_Entrez 1 1 7 -5 down 1 0 0/1 -5 1 7 -5.00 -5.00 Keratin 8 KRT8 0.2 -5.00 down FTC FA 3 4 publication 15475448 1 1 18 3861 KRT14 keratin 14 (epidermolysis bullosa simplex, Dowling-Meara, Koebner) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.39 up 1 0 1/0 2.39 1 2 2.39 2.39 J00124 J00124 Cytokeratin 14 2.39 2.39 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 10 15 707 3880 KRT19 keratin 19 affy_probe_2_Entrez 5 5 124 15.35 up 4 1 4/1 3.07 5 124 9.35 -7.30 40899_at 40899_at Keratin 19 KRT19 -7.3 -7.30 down yes GT Norm 6 6 publication 15515157 15 23 1111 3880 KRT19 keratin 19 Gene_symbol_2_NCBI_Entrez 5 5 124 15.35 up 4 1 4/1 3.07 5 124 9.35 -7.30 Keratin 19 KRT19 3 3.00 up FVPTC PTC 3 2 publication 15475448 18 31 1310 3880 KRT19 keratin 19 clone_accession_2_NCBI_rna_accession_2_Entrez 5 5 124 15.35 up 4 1 4/1 3.07 5 124 9.35 -7.30 Y00503 Y00503 Keratin 19 KRT19 4 4.00 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1461 3880 KRT19 keratin 19 Gene_symbol_2_NCBI_Entrez 5 5 124 15.35 up 4 1 4/1 3.07 5 124 9.35 -7.30 Keratin 19 KRT19 3.225 9.35 up PTC Norm 16 16 publication 15735049 3 6 129 3880 KRT19 keratin 19 clone_accession_2_NCBI_rna_accession_2_Entrez 5 5 124 15.35 up 4 1 4/1 3.07 5 124 9.35 -7.30 Y00503 Y00503 Keratin 19 KRT19 6.3 6.30 up no 0.01 PTC Norm 8 8 suppl. materials 11752453 15 23 1110 3898 LAD1 ladinin 1 Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Ladinin 1 LAD1 3 3.00 up FVPTC PTC 3 2 publication 15475448 25 34 1669 3908 LAMA2 laminin, alpha 2 (merosin, congenital muscular dystrophy) affy_probe_2_Entrez 1 1 55 -2.56 down 1 0 0/1 -2.56 1 55 -2.56 -2.56 216840_s_at 216840_s_at laminin, alpha 2 (merosin, congenital muscular dystrophy) LAMA2 -2.558 -2.56 down 0.040376953 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 7 241 3911 LAMA5 laminin, alpha 5 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 41610_at 41610_at laminin, alpha 5_LAMA5 LAMA5 down FTC PTC;Norm 9 19 provided by authors 15337802 18 31 1383 3912 LAMB1 laminin, beta 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -2.1 down 1 0 0/1 -2.1 1 59 -2.10 -2.10 M61916 M61916 Human laminin B1 chain LAMB1 2.1 -2.10 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1457 3914 LAMB3 laminin, beta 3 Gene_symbol_2_NCBI_Entrez 2 2 60 12.95 up 2 0 2/0 12.95 1 32 12.95 12.95 Laminin, beta3 LAMB3 3.695 12.95 up PTC Norm 16 16 publication 15735049 4 8 367 3914 LAMB3 laminin, beta 3 affy_probe_2_Entrez 2 2 60 12.95 up 2 0 2/0 12.95 1 32 12.95 12.95 36929_at 36929_at laminin, beta 3_LAMB3 LAMB3 up PTC FTC;Norm 6 22 provided by authors 15337802 11 18 793 3915 LAMC1 laminin, gamma 1 (formerly LAMB2) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 J03202 J03202 Laminin B2 chain down ACL;ATC Norm 21 10 publication 15613457 1 1 40 3921 RPSA ribosomal protein SA clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -5.56 down 1 0 0/1 -5.56 1 2 -5.56 -5.56 U43901 U43901 Laminin 3-kd receptor 0.18 -5.56 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 11 18 766 3925 STMN1 stathmin 1/oncoprotein 18 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 X53305 X53305 Stathmin up yes yes ACL;ATC Norm 21 10 publication 15613457 24 33 1467 3934 LCN2 lipocalin 2 (oncogene 24p3) Gene_symbol_2_NCBI_Entrez 2 2 34 4.18 even 1 1 1/1 2.09 2 34 6.96 -2.78 Lipocalin 2 (oncogene 24p3) LCN2 2.8 6.96 up PTC Norm 16 16 publication 15735049 8 13 601 3934 LCN2 lipocalin 2 (oncogene 24p3) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 34 4.18 even 1 1 1/1 2.09 2 34 6.96 -2.78 X99133 X99133 Neutrophil gelatinase-associated lipocalin precursor (NGAL) 0.36 -2.78 down M-ACL ACL 1 1 publication 15579771 11 18 769 3939 LDHA lactate dehydrogenase A clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 54 3.86 up 2 1 2/1 1.93 2 23 6.30 -2.44 NM_005566 NM_005566 Lactate dehydrogenase-A (LDH-A, EC 1.1.1.27) up yes ACL;ATC Norm 21 10 publication 15613457 12 19 846 3939 LDHA lactate dehydrogenase A clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 54 3.86 up 2 1 2/1 1.93 2 23 6.30 -2.44 X02152 X02152 LDH-A 6.3 6.30 up PTC Norm 18 3 publication 12538453 8 13 597 3939 LDHA lactate dehydrogenase A clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 54 3.86 up 2 1 2/1 1.93 2 23 6.30 -2.44 X02152 X02152 L-Lactate dehydrogenase A (LDHA) 0.41 -2.44 down M-ACL ACL 1 1 publication 15579771 11 18 784 3945 LDHB lactate dehydrogenase B clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 Y00711 Y00711 Lactate dehydrogenase B (LDH-B) up yes ACL;ATC Norm 21 10 publication 15613457 4 7 263 3953 LEPR leptin receptor affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 33830_at 33830_at leptin receptor_LEPR LEPR down FTC PTC;Norm 9 19 provided by authors 15337802 4 8 348 3956 LGALS1 lectin, galactoside-binding, soluble, 1 (galectin 1) affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 33412_at 33412_at lectin, galactoside-binding, soluble, 1 (galectin 1)_LGALS1 LGALS1 up PTC FTC;Norm 6 22 provided by authors 15337802 18 31 1313 3958 LGALS3 lectin, galactoside-binding, soluble, 3 (galectin 3) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 107 11.1 up 3 0 3/0 3.7 3 107 3.80 3.50 AB006780 AB006780 Galectin-3 GALBP 3.5 3.50 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1484 3958 LGALS3 lectin, galactoside-binding, soluble, 3 (galectin 3) Gene_symbol_2_NCBI_Entrez 3 3 107 11.1 up 3 0 3/0 3.7 3 107 3.80 3.50 Lectin, galactoside-binding, soluble, 3 (galectin 3) LGALS3 1.925 3.80 up PTC Norm 16 16 publication 15735049 3 6 135 3958 LGALS3 lectin, galactoside-binding, soluble, 3 (galectin 3) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 107 11.1 up 3 0 3/0 3.7 3 107 3.80 3.50 AB006780 AB006780 Galectin-3 LGALS3 3.8 3.80 up no 0.0001 PTC Norm 8 8 suppl. materials 11752453 2 5 113 3960 LGALS4 lectin, galactoside-binding, soluble, 4 (galectin 4) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.73 up 1 0 1/0 2.73 1 2 2.73 2.73 NM_006149 NM_006149 Lectin, galactoside-binding, soluble, 4 (galectin 4) LGALS4 2.73 2.73 up UCL Norm 1 1 publication 15785240 13 20 895 4015 LOX lysyl oxidase clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 78 2.2 up 2 0 2/0 2.2 1 59 2.20 2.20 L16895 L16895 Lysyl oxidase LOX up FTC FA 9 10 publication 12738736 18 31 1366 4015 LOX lysyl oxidase clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 78 2.2 up 2 0 2/0 2.2 1 59 2.20 2.20 L16895 L16895 Lysyl oxidase LOX 2.2 2.20 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 18 31 1300 4038 LRP4 low density lipoprotein receptor-related protein 4 clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 174 43.42 up 4 0 4/0 14.4733333333333 3 146 19.43 6.40 AB011540 AB011540 Similar to LDL receptor-like protein; tSXV motif MEGF7 6.4 6.40 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1449 4038 LRP4 low density lipoprotein receptor-related protein 4 Gene_symbol_2_NCBI_Entrez 4 4 174 43.42 up 4 0 4/0 14.4733333333333 3 146 19.43 6.40 Low density lipoprotein receptor-related protein 4 LRP4 4.28 19.43 up PTC Norm 16 16 publication 15735049 25 34 1547 4038 LRP4 low density lipoprotein receptor-related protein 4 affy_probe_2_Entrez 4 4 174 43.42 up 4 0 4/0 14.4733333333333 3 146 19.43 6.40 212850_s_at 212850_s_at low density lipoprotein receptor-related protein 4 LRP4 17.590 17.59 up 4.36232E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 8 307 4038 LRP4 low density lipoprotein receptor-related protein 4 affy_probe_2_Entrez 4 4 174 43.42 up 4 0 4/0 14.4733333333333 3 146 19.43 6.40 36059_at 36059_at low density lipoprotein receptor-related protein 4_LRP4 LRP4 up PTC FTC;Norm 6 22 provided by authors 15337802 4 7 206 4053 LTBP2 latent transforming growth factor beta binding protein 2 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 37906_at 37906_at latent transforming growth factor beta binding protein 2_LTBP2 LTBP2 down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 216 4060 LUM lumican affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 38038_at 38038_at lumican_LUM LUM down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 179 4065 LY75 lymphocyte antigen 75 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 38160_at 38160_at lymphocyte antigen 75_LY75 LY75 down FTC PTC;Norm 9 19 provided by authors 15337802 14 21 967 4067 LYN v-yes-1 Yamaguchi sarcoma viral related oncogene homolog clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 62 up 1 0 1/0 62 1 14 62.00 62.00 R83837 R83837 V-yes-1 Yamaguchi sarcoma viral related oncogene 62 62.00 up PTC Norm 7 7 publication 15041723 3 6 121 4068 SH2D1A SH2 domain protein 1A, Duncan's disease (lymphoproliferative syndrome) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 16 8.7 up 1 0 1/0 8.7 1 16 8.70 8.70 AL022718 AL022718 Odz (odd Oz/ten-m, Drosophila ) 1 ODZ1 8.7 8.70 up yes 0.0001 PTC Norm 8 8 suppl. materials 11752453 18 31 1296 4070 TACSTD2 tumor-associated calcium signal transducer 2 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 87 9.6 up 2 0 2/0 9.6 1 59 9.60 9.60 J04152 J04152 GA733-1 protein precursor TROP2 9.6 9.60 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 4 8 312 4070 TACSTD2 tumor-associated calcium signal transducer 2 affy_probe_2_Entrez 2 2 87 9.6 up 2 0 2/0 9.6 1 59 9.60 9.60 41286_at 41286_at tumor-associated calcium signal transducer 2_TACSTD2 TACSTD2 up PTC FTC;Norm 6 22 provided by authors 15337802 4 8 323 4070 TACSTD2 tumor-associated calcium signal transducer 2 affy_probe_2_Entrez 2 2 87 9.6 up 2 0 2/0 9.6 1 59 9.60 9.60 291_s_at 291_s_at tumor-associated calcium signal transducer 2_TACSTD2 TACSTD2 up PTC FTC;Norm 6 22 provided by authors 15337802 4 8 336 4071 TM4SF1 transmembrane 4 L six family member 1 affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 41531_at 41531_at transmembrane 4 superfamily member 1_TM4SF1 TM4SF1 up PTC FTC;Norm 6 22 provided by authors 15337802 4 8 354 4071 TM4SF1 transmembrane 4 L six family member 1 affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 892_at 892_at transmembrane 4 superfamily member 1_TM4SF1 TM4SF1 up PTC FTC;Norm 6 22 provided by authors 15337802 4 7 254 4072 TACSTD1 tumor-associated calcium signal transducer 1 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 575_s_at 575_s_at ---_--- --- down FTC PTC;Norm 9 19 provided by authors 15337802 8 13 576 4085 MAD2L1 MAD2 mitotic arrest deficient-like 1 (yeast) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.12 up 1 0 1/0 2.12 1 2 2.12 2.12 U65410 U65410 Mitotic feedback control protein MAD2 (MAD2L1) 2.12 2.12 up M-ACL ACL 1 1 publication 15579771 25 34 1656 4086 SMAD1 SMAD, mothers against DPP homolog 1 (Drosophila) affy_probe_2_Entrez 1 1 55 -2.24 down 1 0 0/1 -2.24 1 55 -2.24 -2.24 210993_s_at 210993_s_at SMAD, mothers against DPP homolog 1 (Drosophila) SMAD1 -2.242 -2.24 down 0.002998803 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 12 19 857 4089 SMAD4 SMAD, mothers against DPP homolog 4 (Drosophila) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 21 -3.03 down 1 0 0/1 -3.03 1 21 -3.03 -3.03 U44378 U44378 Homozygous deletion target in pancreatic carcinoma (DPC4/SMAD4) 0.33 -3.03 down PTC Norm 18 3 publication 12538453 2 4 100 4090 SMAD5 SMAD, mothers against DPP homolog 5 (Drosophila) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -7 down 1 0 0/1 -7 1 2 -7.00 -7.00 NM_005903 NM_005903 MAD, mothers against decapentaplegic homologue 5 MADH5 7 -7.00 down PCL Norm 1 1 publication 15785240 13 20 899 4099 MAG myelin associated glycoprotein clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 M29273 M29273 Myelin-associated glycoprotein MAG up FTC FA 9 10 publication 12738736 13 20 896 4118 MAL mal, T-cell differentiation protein clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 X76220 X76220 Mal, T-cell differentiation protein MAL up FTC FA 9 10 publication 12738736 19 32 1412 4123 MAN2C1 mannosidase, alpha, class 2C, member 1 tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 up 1 0 1/0 0 0 0 0 0 AGGCCCACAA AGGCCCACAA mannosidase, alpha2C up 0.0029 FVPTC Norm 1 1 publication 14715705 15 23 1091 4134 MAP4 microtubule-associated protein 4 Gene_symbol_2_NCBI_Entrez 1 1 5 4 up 1 0 1/0 4 1 5 4.00 4.00 Microtubule-associated protein 4 MAP4 4 4.00 up FVPTC PTC 3 2 publication 15475448 18 31 1343 4147 MATN2 matrilin 2 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 114 -9.66 down 2 0 0/2 -4.83 2 114 -2.60 -7.06 U69263 U69263 Matrilin-2 precursor MATN2 2.6 -2.60 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1765 4147 MATN2 matrilin 2 affy_probe_2_Entrez 2 2 114 -9.66 down 2 0 0/2 -4.83 2 114 -2.60 -7.06 202350_s_at 202350_s_at matrilin 2 MATN2 -7.062 -7.06 down 0.002361334 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 9 14 621 4154 MBNL1 muscleblind-like (Drosophila) affy_probe_2_Entrez 1 1 24 -2.74 down 1 0 0/1 -2.74 1 24 -2.74 -2.74 201151_s_at 201151_s_at muscleblind-like (Drosophila) -2.74 -2.74 down 0.000005 FA FTC 12 12 provided by authors 15713710 1 1 21 4170 MCL1 myeloid cell leukemia sequence 1 (BCL2-related) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2 down 1 0 0/1 -2 1 2 -2.00 -2.00 L08246 L08246 Induced myeloid leukemia cell differentiation protein MCL-1 0.5 -2.00 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 15 22 1024 4176 MCM7 MCM7 minichromosome maintenance deficient 7 (S. cerevisiae) Gene_symbol_2_NCBI_Entrez 1 1 7 3 up 1 0 1/0 3 1 7 3.00 3.00 Minichromosome maintenance deficient (S. cerevisiae)7 MCM7 3 3.00 up FTC FA 3 4 publication 15475448 15 22 1032 4212 MEIS2 Meis1, myeloid ecotropic viral integration site 1 homolog 2 (mouse) Gene_symbol_2_NCBI_Entrez 1 1 7 2 up 1 0 1/0 2 1 7 2.00 2.00 Meis (mouse) homolog 2 MEIS2 2 2.00 up FTC FA 3 4 publication 15475448 4 7 261 4217 MAP3K5 mitogen-activated protein kinase kinase kinase 5 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 1327_s_at 1327_s_at mitogen-activated protein kinase kinase kinase 5_MAP3K5 MAP3K5 down FTC PTC;Norm 9 19 provided by authors 15337802 3 6 141 4223 MEOX2 mesenchyme homeo box 2 (growth arrest-specific homeo box) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 16 -2.4 down 1 0 0/1 -2.4 1 16 -2.40 -2.40 AI743406 AI743406 Growth arrest-specific homeo box MEOX2 -2.4 -2.40 down no 0.0082 PTC Norm 8 8 suppl. materials 11752453 12 19 861 4233 MET met proto-oncogene (hepatocyte growth factor receptor) clone_accession_2_NCBI_rna_accession_2_Entrez 7 7 204 20.5 up 7 0 7/0 4.1 5 164 6.60 2.32 J02958 J02958 Hepatocyte growth factor receptor (c-MET) up yes PTC Norm 18 3 publication 12538453 13 20 897 4233 MET met proto-oncogene (hepatocyte growth factor receptor) clone_accession_2_NCBI_rna_accession_2_Entrez 7 7 204 20.5 up 7 0 7/0 4.1 5 164 6.60 2.32 J02958 J02958 Met proto-oncogene (hepatocyte growth factor receptor) MET up yes FTC FA 9 10 publication 12738736 18 31 1341 4233 MET met proto-oncogene (hepatocyte growth factor receptor) clone_accession_2_NCBI_rna_accession_2_Entrez 7 7 204 20.5 up 7 0 7/0 4.1 5 164 6.60 2.32 J02958 J02958 MET proto-oncogene protein HGFR 2.6 2.60 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1493 4233 MET met proto-oncogene (hepatocyte growth factor receptor) Gene_symbol_2_NCBI_Entrez 7 7 204 20.5 up 7 0 7/0 4.1 5 164 6.60 2.32 Met proto-oncogene (hepatocyte growth factor receptor) MET 1.47 2.77 up PTC Norm 16 16 publication 15735049 25 34 1569 4233 MET met proto-oncogene (hepatocyte growth factor receptor) affy_probe_2_Entrez 7 7 204 20.5 up 7 0 7/0 4.1 5 164 6.60 2.32 203510_at 203510_at met proto-oncogene (hepatocyte growth factor receptor) MET 6.213 6.21 up 0.011209368 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 3 6 127 4233 MET met proto-oncogene (hepatocyte growth factor receptor) Gene_symbol_2_NCBI_Entrez 7 7 204 20.5 up 7 0 7/0 4.1 5 164 6.60 2.32 Met protooncogene MET 6.6 6.60 up no 0.0001 PTC Norm 8 8 suppl. materials 11752453 8 13 568 4233 MET met proto-oncogene (hepatocyte growth factor receptor) clone_accession_2_NCBI_rna_accession_2_Entrez 7 7 204 20.5 up 7 0 7/0 4.1 5 164 6.60 2.32 J02958 J02958 Met protooncogene; hepatocyte growth factor receptor 2.32 2.32 up M-ACL ACL 1 1 publication 15579771 18 31 1342 4240 MFGE8 milk fat globule-EGF factor 8 protein clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 87 2.6 up 2 0 2/0 2.6 1 59 2.60 2.60 U58516 U58516 Breast epithelial antigen 46 BA46 2.6 2.60 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 4 8 346 4240 MFGE8 milk fat globule-EGF factor 8 protein affy_probe_2_Entrez 2 2 87 2.6 up 2 0 2/0 2.6 1 59 2.60 2.60 34403_at 34403_at milk fat globule-EGF factor 8 protein_MFGE8 MFGE8 up PTC FTC;Norm 6 22 provided by authors 15337802 1 1 26 4282 MIF macrophage migration inhibitory factor (glycosylation-inhibiting factor) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.27 down 1 0 0/1 -2.27 1 2 -2.27 -2.27 M25639 M25639 MIF 0.44 -2.27 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 24 33 1531 4291 MLF1 myeloid leukemia factor 1 Gene_symbol_2_NCBI_Entrez 2 2 87 -4.99 down 2 0 0/2 -2.495 2 87 -2.20 -2.79 Myeloid leukemia factor 1 MLF1 -1.135 -2.20 down PTC Norm 16 16 publication 15735049 25 34 1679 4291 MLF1 myeloid leukemia factor 1 affy_probe_2_Entrez 2 2 87 -4.99 down 2 0 0/2 -2.495 2 87 -2.20 -2.79 204783_at 204783_at myeloid leukemia factor 1 MLF1 -2.748 -2.75 down 0.018119122 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1681 4291 MLF1 myeloid leukemia factor 1 affy_probe_2_Entrez 2 2 87 -4.99 down 2 0 0/2 -2.495 2 87 -2.20 -2.79 204784_s_at 204784_s_at myeloid leukemia factor 1 MLF1 -2.787 -2.79 down 0.008676001 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 1 1 49 4292 MLH1 mutL homolog 1, colon cancer, nonpolyposis type 2 (E. coli) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -11.11 down 1 0 0/1 -11.11 1 2 -11.11 -11.11 U07418 U07418 DNA mismatch repair protein hmlh 1 0.09 -11.11 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 25 34 1666 4300 MLLT3 myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 3 affy_probe_2_Entrez 1 1 55 -2.51 down 1 0 0/1 -2.51 1 55 -2.51 -2.51 204917_s_at 204917_s_at myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 3 MLLT3 -2.510 -2.51 down 0.043508956 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 1 1 55 4312 MMP1 matrix metalloproteinase 1 (interstitial collagenase) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -50 down 1 0 0/1 -50 1 2 -50.00 -50.00 X05231 X05231 Collagenase-1 0.02 -50.00 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 1 1 38 4313 MMP2 matrix metalloproteinase 2 (gelatinase A, 72kDa gelatinase, 72kDa type IV collagenase) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -5.26 down 1 0 0/1 -5.26 1 2 -5.26 -5.26 J03210 J03210 Gelatinase A 0.19 -5.26 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 8 13 604 4316 MMP7 matrix metalloproteinase 7 (matrilysin, uterine) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -3.7 down 1 0 0/1 -3.7 1 2 -3.70 -3.70 X07819 X07819 MMP7; matrilysin 0.27 -3.70 down M-ACL ACL 1 1 publication 15579771 12 19 862 4320 MMP11 matrix metalloproteinase 11 (stromelysin 3) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 21 0 up 1 0 1/0 0 0 0 0 0 X57766 X57766 MMP-11 up yes PTC Norm 18 3 publication 12538453 1 1 32 4323 MMP14 matrix metalloproteinase 14 (membrane-inserted) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -3.7 down 1 0 0/1 -3.7 1 2 -3.70 -3.70 D26512 D26512 MMP-14 0.27 -3.70 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 2 2 77 4324 MMP15 matrix metalloproteinase 15 (membrane-inserted) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 6.5 up 1 0 1/0 6.5 1 2 6.50 6.50 NM_002428 NM_002428 Matrix metalloproteinase 15 MMP15 6.5 6.50 up FCL Norm 1 1 publication 15785240 11 18 798 4329 ALDH6A1 aldehyde dehydrogenase 6 family, member A1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 M93405 M93405 Methylmalonate semialdehyde dehydrogenase (M M SDH) down ACL;ATC Norm 21 10 publication 15613457 18 31 1297 4435 CITED1 Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 1 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 107 56.21 up 3 0 3/0 18.7366666666667 3 107 26.90 7.90 U65092 U65092 Melanocyte-specific gene MSG1 7.9 7.90 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1446 4435 CITED1 Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 1 Gene_symbol_2_NCBI_Entrez 3 3 107 56.21 up 3 0 3/0 18.7366666666667 3 107 26.90 7.90 Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxyl-terminal domain, 1 CITED1 4.42 21.41 up PTC Norm 16 16 publication 15735049 3 6 115 4435 CITED1 Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 1 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 107 56.21 up 3 0 3/0 18.7366666666667 3 107 26.90 7.90 U65092 U65092 Cbp/p300-interacting transactivator 1 CITED1 26.9 26.90 up yes 0.0005 PTC Norm 8 8 suppl. materials 11752453 8 13 581 4436 MSH2 mutS homolog 2, colon cancer, nonpolyposis type 1 (E. coli) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.05 up 1 0 1/0 2.05 1 2 2.05 2.05 U04045 U04045 DNA mismatch repair protein MSH2 2.05 2.05 up M-ACL ACL 1 1 publication 15579771 15 23 1090 4478 MSN moesin Gene_symbol_2_NCBI_Entrez 1 1 5 4 up 1 0 1/0 4 1 5 4.00 4.00 Moesin MSN 4 4.00 up FVPTC PTC 3 2 publication 15475448 10 16 723 4489 MT1A metallothionein 1A (functional) affy_probe_2_Entrez 2 2 73 -4.59 down 2 0 0/2 -2.295 2 73 -2.20 -2.39 31623_f_at 31623_f_at Metallothionein A MT1A -2.39 -2.39 down yes PTC GT 8 6 publication 15515157 18 31 1349 4489 MT1A metallothionein 1A (functional) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 73 -4.59 down 2 0 0/2 -2.295 2 73 -2.20 -2.39 K01383 K01383 Human metallothionein-I-A MT1A 2.5 -2.50 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 18 31 1374 4489 MT1A metallothionein 1A (functional) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 73 -4.59 down 2 0 0/2 -2.295 2 73 -2.20 -2.39 M13485 M13485 Metallothionein I-B MT1B 2.2 -2.20 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 10 16 722 4493 MT1E metallothionein 1E (functional) affy_probe_2_Entrez 2 2 73 -4.29 down 2 0 0/2 -2.145 2 73 -2.00 -2.29 36130_f_at 36130_f_at Similar to RNA helicase-related protein MT1E -2.29 -2.29 down yes PTC GT 8 6 publication 15515157 18 31 1394 4493 MT1E metallothionein 1E (functional) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 73 -4.29 down 2 0 0/2 -2.145 2 73 -2.00 -2.29 R92331 R92331 Human metallothionein-le gene MT1E 2 -2.00 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 10 16 730 4494 MT1F metallothionein 1F (functional) affy_probe_2_Entrez 3 3 92 -5.71 down 3 0 0/3 -2.855 2 73 -2.80 -2.91 31622_f_at 31622_f_at Metallothionein 1F MT1F -2.91 -2.91 down yes PTC GT 8 6 publication 15515157 13 20 953 4494 MT1F metallothionein 1F (functional) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 92 -5.71 down 3 0 0/3 -2.855 2 73 -2.80 -2.91 M10943 M10943 Metallothionein 1 F (functional) MT1F down FTC FA 9 10 publication 12738736 18 31 1332 4494 MT1F metallothionein 1F (functional) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 92 -5.71 down 3 0 0/3 -2.855 2 73 -2.80 -2.91 M10943 M10943 Human metallothionein-lf MT1F 2.8 -2.80 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 10 16 742 4495 MT1G metallothionein 1G affy_probe_2_Entrez 3 3 89 -16.65 down 3 0 0/3 -5.55 3 89 -2.30 -8.60 926_at 926_at Metallothionein IG MT-IG -5.75 -5.75 down yes PTC GT 8 6 publication 15515157 18 31 1364 4495 MT1G metallothionein 1G clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 89 -16.65 down 3 0 0/3 -5.55 3 89 -2.30 -8.60 J03910 J03910 Metallothionein-IG MT1G 2.3 -2.30 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 3 6 162 4495 MT1G metallothionein 1G clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 89 -16.65 down 3 0 0/3 -5.55 3 89 -2.30 -8.60 J03910 J03910 Metallothionein-IG MT1G -8.6 -8.60 down no 0.0023 PTC Norm 8 8 suppl. materials 11752453 10 16 726 4496 MT1H metallothionein 1H affy_probe_2_Entrez 1 1 14 -2.57 down 1 0 0/1 -2.57 1 14 -2.57 -2.57 39594_f_at 39594_f_at Metallothionein 1H MT1H -2.57 -2.57 down yes PTC GT 8 6 publication 15515157 18 31 1317 4501 MT1X metallothionein 1X clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -3.4 down 1 0 0/1 -3.4 1 59 -3.40 -3.40 AA224832 AA224832 Human metallothionein-1L MT1L 3.4 -3.40 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 8 13 555 4504 MT3 metallothionein 3 (growth inhibitory factor (neurotrophic)) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.81 up 1 0 1/0 2.81 1 2 2.81 2.81 D13365 D13365 Growth inhibitory factor; metallothionein-III 2.81 2.81 up M-ACL ACL 1 1 publication 15579771 8 13 582 4522 MTHFD1 methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1, methenyltetrahydrofolate cyclohydrolase, formyltetrahydrofolate synthetase clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.05 up 1 0 1/0 2.05 1 2 2.05 2.05 J04031 J04031 Methylenetetrahydrofolatedehydrogenasemethylenetetrahydrofolatecyclohydrolase-formyltetrahydrofolate synthetase9 (a trifunctional enzyme) 2.05 2.05 up M-ACL ACL 1 1 publication 15579771 11 18 819 4580 MTX1 metaxin 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 NM_002455 NM_002455 Metaxin 1 (MTX1) down ACL;ATC Norm 21 10 publication 15613457 6 11 394 4609 MYC v-myc myelocytomatosis viral oncogene homolog (avian) Gene_symbol_2_NCBI_Entrez 1 1 12 0 down 1 0 0/1 0 0 0 0 0 c-myc MYC down yes AFTN;CTN Norm 6 6 publication The gene name for this entry was determined manually from the description 11600550 24 33 1494 4628 MYH10 myosin, heavy polypeptide 10, non-muscle Gene_symbol_2_NCBI_Entrez 2 2 60 2.72 up 2 0 2/0 2.72 1 32 2.72 2.72 Myosin, heavy polypeptide 10, nonmuscle MYH10 1.445 2.72 up PTC Norm 16 16 publication 15735049 4 8 359 4628 MYH10 myosin, heavy polypeptide 10, non-muscle affy_probe_2_Entrez 2 2 60 2.72 up 2 0 2/0 2.72 1 32 2.72 2.72 32838_at 32838_at myosin, heavy polypeptide 10, non-muscle_MYH10 MYH10 up PTC FTC;Norm 6 22 provided by authors 15337802 25 34 1563 4646 MYO6 myosin VI affy_probe_2_Entrez 1 1 55 7.87 up 1 0 1/0 7.87 1 55 7.87 7.87 210480_s_at 210480_s_at myosin VI MYO6 7.867 7.87 up 0.005460828 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1683 4653 MYOC myocilin, trabecular meshwork inducible glucocorticoid response affy_probe_2_Entrez 1 1 55 -2.86 down 1 0 0/1 -2.86 1 55 -2.86 -2.86 210155_at 210155_at myocilin, trabecular meshwork inducible glucocorticoid response MYOC -2.863 -2.86 down 0.000503961 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 7 262 4673 NAP1L1 nucleosome assembly protein 1-like 1 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 34099_f_at 34099_f_at nucleosome assembly protein 1-like 1_NAP1L1 NAP1L1 down FTC PTC;Norm 9 19 provided by authors 15337802 25 34 1749 4684 NCAM1 neural cell adhesion molecule 1 affy_probe_2_Entrez 1 1 55 -5.61 down 1 0 0/1 -5.61 1 55 -5.61 -5.61 212843_at 212843_at neural cell adhesion molecule 1 NCAM1 -5.608 -5.61 down 0.027099522 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 23 1131 4724 NDUFS4 NADH dehydrogenase (ubiquinone) Fe-S protein 4, 18kDa (NADH-coenzyme Q reductase) Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 NADH dehydrogenase (ubiquinone) Fe-S protein 4 (18kD) NDUFS4 3 3.00 up FVPTC PTC 3 2 publication 15475448 11 18 773 4735 SEPT2 septin 2 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 33 2.22 up 2 0 2/0 2.22 1 2 2.22 2.22 NM_004404 NM_004404 NEDD5: neural precursor cell expressed, developmentally down regulated 5 up ACL;ATC Norm 21 10 publication 15613457 8 13 573 4735 SEPT2 septin 2 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 33 2.22 up 2 0 2/0 2.22 1 2 2.22 2.22 D63878 D63878 NEDD5 protein; DIFF6 2.22 2.22 up M-ACL ACL 1 1 publication 15579771 8 13 557 4751 NEK2 NIMA (never in mitosis gene a)-related kinase 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.73 up 1 0 1/0 2.73 1 2 2.73 2.73 U11050 U11050 Serine/threonine-protein kinase NEK2; NIMA-related protein kinase 2 2.73 2.73 up M-ACL ACL 1 1 publication 15579771 18 31 1309 4753 NELL2 NEL-like 2 (chicken) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 87 4 up 2 0 2/0 4 1 59 4.00 4.00 D83018 D83018 Neuropilin 2 NRP2 4 4.00 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 4 8 313 4753 NELL2 NEL-like 2 (chicken) affy_probe_2_Entrez 2 2 87 4 up 2 0 2/0 4 1 59 4.00 4.00 32598_at 32598_at NEL-like 2 (chicken)_NELL2 NELL2 up PTC FTC;Norm 6 22 provided by authors 15337802 15 22 1026 4771 NF2 neurofibromin 2 (bilateral acoustic neuroma) Gene_symbol_2_NCBI_Entrez 1 1 7 3 up 1 0 1/0 3 1 7 3.00 3.00 Neurofibromin 2 NF2 3 3.00 up FTC FA 3 4 publication 15475448 9 14 653 4781 NFIB nuclear factor I/B affy_probe_2_Entrez 1 1 24 -3.29 down 1 0 0/1 -3.29 1 24 -3.29 -3.29 213032_at 213032_at Homo sapiens mRNA; cDNA DKFZp564H1916 (from clone DKFZp564H1916) -3.29 -3.29 down 0.000205 FA FTC 12 12 provided by authors 15713710 1 1 2 4814 NINJ1 ninjurin 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 27.9 up 1 0 1/0 27.9 1 2 27.90 27.90 U72661 U72661 Ninjurin 27.9 27.90 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 15 23 1066 4831 NME2 non-metastatic cells 2, protein (NM23B) expressed in Gene_symbol_2_NCBI_Entrez 1 1 5 13 up 1 0 1/0 13 1 5 13.00 13.00 Nonmetastatic cells 2, protein (NM23B) expressed in NME2 13 13.00 up FVPTC PTC 3 2 publication 15475448 11 18 788 4839 NOL1 nucleolar protein 1, 120kDa clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 M32110 M32110 Proliferating-cell nucleolar protein P120 down ACL;ATC Norm 21 10 publication 15613457 11 18 817 4842 NOS1 nitric oxide synthase 1 (neuronal) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 U17327 U17327 Neuronal nitric oxide synthase (NOS1) down ACL;ATC Norm 21 10 publication 15613457 15 23 1160 4853 NOTCH2 Notch homolog 2 (Drosophila) Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Notch homolog 2 NOTCH2 2 2.00 up FVPTC PTC 3 2 publication 15475448 25 34 1701 4856 NOV nephroblastoma overexpressed gene affy_probe_2_Entrez 1 1 55 -3.15 down 1 0 0/1 -3.15 1 55 -3.15 -3.15 214321_at 214321_at nephroblastoma overexpressed gene NOV -3.152 -3.15 down 0.026812738 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 8 13 572 4860 NP nucleoside phosphorylase clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.23 up 1 0 1/0 2.23 1 2 2.23 2.23 X00737 X00737 Purine nucleoside phosphorylase (PNP); inosine phosphorylase 2.23 2.23 up M-ACL ACL 1 1 publication 15579771 24 33 1483 4897 NRCAM neuronal cell adhesion molecule Gene_symbol_2_NCBI_Entrez 2 2 87 8.65 up 2 0 2/0 4.325 2 87 4.79 3.86 Neuronal cell adhesion molecule NRCAM 1.95 3.86 up PTC Norm 16 16 publication 15735049 25 34 1580 4897 NRCAM neuronal cell adhesion molecule affy_probe_2_Entrez 2 2 87 8.65 up 2 0 2/0 4.325 2 87 4.79 3.86 204105_s_at 204105_s_at neuronal cell adhesion molecule NRCAM 4.795 4.79 up 4.95381E-08 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 19 32 1402 4907 NT5E 5'-nucleotidase, ecto (CD73) tag_2_refseq_or_mgc_2_Entrez 2 2 30 0 up 2 0 2/0 0 0 0 0 0 AGCCTGCTCA AGCCTGCTCA CD73 (5'nucleotidase) up 0.0245 FVPTC Norm 1 1 publication 14715705 4 8 332 4907 NT5E 5'-nucleotidase, ecto (CD73) affy_probe_2_Entrez 2 2 30 0 up 2 0 2/0 0 0 0 0 0 31886_at 31886_at 5'-nucleotidase, ecto (CD73)_NT5E NT5E up PTC FTC;Norm 6 22 provided by authors 15337802 10 15 703 4915 NTRK2 neurotrophic tyrosine kinase, receptor, type 2 affy_probe_2_Entrez 4 4 57 -8.7 down 4 0 0/4 -4.35 2 17 -3.70 -5.00 33182_at 33182_at Neurotrophic tyrosine kinase, receptor, type 2 NTRK2 -3.7 -3.70 down yes yes GT Norm 6 6 publication 15515157 15 23 1200 4915 NTRK2 neurotrophic tyrosine kinase, receptor, type 2 Gene_symbol_2_NCBI_Entrez 4 4 57 -8.7 down 4 0 0/4 -4.35 2 17 -3.70 -5.00 Neurotrophic tyrosine kinase, receptor, type 2 NTRK2 0.2 -5.00 down FVPTC PTC 3 2 publication 15475448 4 7 169 4915 NTRK2 neurotrophic tyrosine kinase, receptor, type 2 affy_probe_2_Entrez 4 4 57 -8.7 down 4 0 0/4 -4.35 2 17 -3.70 -5.00 38280_s_at 38280_s_at Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 1630957_--- --- down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 173 4915 NTRK2 neurotrophic tyrosine kinase, receptor, type 2 affy_probe_2_Entrez 4 4 57 -8.7 down 4 0 0/4 -4.35 2 17 -3.70 -5.00 36042_at 36042_at neurotrophic tyrosine kinase, receptor, type 2_NTRK2 NTRK2 down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 177 4915 NTRK2 neurotrophic tyrosine kinase, receptor, type 2 affy_probe_2_Entrez 4 4 57 -8.7 down 4 0 0/4 -4.35 2 17 -3.70 -5.00 33182_at 33182_at Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 1630957_--- --- down FTC PTC;Norm 9 19 provided by authors 15337802 6 11 406 4915 NTRK2 neurotrophic tyrosine kinase, receptor, type 2 Gene_symbol_2_NCBI_Entrez 4 4 57 -8.7 down 4 0 0/4 -4.35 2 17 -3.70 -5.00 Tyr-kinase TRK-B receptor NTRK2 down yes AFTN;CTN Norm 6 6 publication The gene name for this entry was determined manually from the description 11600550 15 23 1071 4916 NTRK3 neurotrophic tyrosine kinase, receptor, type 3 Gene_symbol_2_NCBI_Entrez 1 1 5 7 up 1 0 1/0 7 1 5 7.00 7.00 Neurotrophic tyrosine kinase, receptor, type 3 NTRK3 7 7.00 up FVPTC PTC 3 2 publication 15475448 8 13 598 4926 NUMA1 nuclear mitotic apparatus protein 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.5 down 1 0 0/1 -2.5 1 2 -2.50 -2.50 Z11583 Z11583 NuMA (nuclear mitotic apparatus protein) 0.4 -2.50 down M-ACL ACL 1 1 publication 15579771 14 21 973 4929 NR4A2 nuclear receptor subfamily 4, group A, member 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 3.6 up 1 0 1/0 3.6 1 14 3.60 3.60 AA598611 AA598611 Immediate-early response protein 3.6 3.60 up PTC Norm 7 7 publication 15041723 8 13 567 4938 OAS1 2',5'-oligoadenylate synthetase 1, 40/46kDa clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.33 up 1 0 1/0 2.33 1 2 2.33 2.33 M11810 M11810 (2'-5') Oligoadenylate synthase gene 2.33 2.33 up M-ACL ACL 1 1 publication 15579771 4 7 291 4942 OAT ornithine aminotransferase (gyrate atrophy) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 36636_at 36636_at ornithine aminotransferase (gyrate atrophy)_OAT OAT down FTC PTC;Norm 9 19 provided by authors 15337802 25 34 1741 4948 OCA2 oculocutaneous albinism II (pink-eye dilution homolog, mouse) affy_probe_2_Entrez 1 1 55 -4.99 down 1 0 0/1 -4.99 1 55 -4.99 -4.99 206498_at 206498_at oculocutaneous albinism II (pink-eye dilution homolog, mouse) OCA2 -4.995 -4.99 down 0.014316043 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 11 18 785 4953 ODC1 ornithine decarboxylase 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 M16650 M16650 Ornithine decarboxylase (ODC1) up ACL;ATC Norm 21 10 publication 15613457 25 34 1675 4969 OGN osteoglycin (osteoinductive factor, mimecan) affy_probe_2_Entrez 1 1 55 -2.68 down 1 0 0/1 -2.68 1 55 -2.68 -2.68 218730_s_at 218730_s_at osteoglycin (osteoinductive factor, mimecan) OGN -2.683 -2.68 down 0.023495586 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 13 20 956 4982 TNFRSF11B tumor necrosis factor receptor superfamily, member 11b (osteoprotegerin) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 106 -2.4 down 3 0 0/3 -2.4 1 59 -2.40 -2.40 AB008822 AB008822 Tumor necrosis factor receptor superfamily, member 11b (osteoprotegerin) TNFRSF11B down FTC FA 9 10 publication 12738736 18 31 1356 4982 TNFRSF11B tumor necrosis factor receptor superfamily, member 11b (osteoprotegerin) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 106 -2.4 down 3 0 0/3 -2.4 1 59 -2.40 -2.40 AB008822 AB008822 Osteoclastogenesis inhibitory factor OCIF 2.4 -2.40 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 4 7 187 4982 TNFRSF11B tumor necrosis factor receptor superfamily, member 11b (osteoprotegerin) affy_probe_2_Entrez 3 3 106 -2.4 down 3 0 0/3 -2.4 1 59 -2.40 -2.40 37611_at 37611_at tumor necrosis factor receptor superfamily, member 11b (osteoprotegerin)_TNFRSF11B TNFRSF11B down FTC PTC;Norm 9 19 provided by authors 15337802 14 21 986 5036 PA2G4 proliferation-associated 2G4, 38kDa clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 2.4 up 1 0 1/0 2.4 1 14 2.40 2.40 AA488332 AA488332 Cell cycle protein p38-2G4 2.4 2.40 up PTC Norm 7 7 publication 15041723 11 18 805 5037 PBP prostatic binding protein clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 X75252 X75252 Phosphatidylethanolamine-binding protein (PBP) down yes ACL;ATC Norm 21 10 publication 15613457 15 23 1149 5045 FURIN furin (paired basic amino acid cleaving enzyme) Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Furin (paired basic amino acid cleaving enzyme) FURIN 2 2.00 up FVPTC PTC 3 2 publication 15475448 15 22 1045 5046 PCSK6 proprotein convertase subtilisin/kexin type 6 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 7 -2.5 down 1 0 0/1 -2.5 1 7 -2.50 -2.50 Paired basic amino acid cleaving system 4 PACE4 0.4 -2.50 down FTC FA 3 4 publication 15475448 16 24 1220 5052 PRDX1 peroxiredoxin 1 Gene_symbol_2_NCBI_Entrez 1 1 63 -1.62 down 1 0 0/1 -1.62 1 63 -1.62 -1.62 PRDX1 0.617647059 -1.62 down 0.02 PTC;FVPTC FA;HN 32 31 publication 15087409 1 1 41 5054 SERPINE1 serine (or cysteine) proteinase inhibitor, clade E (nexin, plasminogen activator inhibitor type 1), member 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -5.88 down 1 0 0/1 -5.88 1 2 -5.88 -5.88 X04429 X04429 Endothelial plasminogen activator inhibitor-1 precursor(PAI-1) 0.17 -5.88 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 2 2 80 5058 PAK1 p21/Cdc42/Rac1-activated kinase 1 (STE20 homolog, yeast) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 4.71 up 1 0 1/0 4.71 1 2 4.71 4.71 NM_002576 NM_002576 P21/Cdc42/Rac1-activated kinase 1 PAK1 4.71 4.71 up FCL Norm 1 1 publication 15785240 24 33 1512 5066 PAM peptidylglycine alpha-amidating monooxygenase Gene_symbol_2_NCBI_Entrez 2 2 60 1.69 even 1 1 1/1 1.69 1 32 1.69 1.69 Peptidylglycine alpha-amidating monooxygenase PAM 0.755 1.69 up PTC Norm 16 16 publication 15735049 4 7 209 5066 PAM peptidylglycine alpha-amidating monooxygenase affy_probe_2_Entrez 2 2 60 1.69 even 1 1 1/1 1.69 1 32 1.69 1.69 38465_at 38465_at peptidylglycine alpha-amidating monooxygenase_PAM PAM down FTC PTC;Norm 9 19 provided by authors 15337802 9 14 698 5090 PBX3 pre-B-cell leukemia transcription factor 3 affy_probe_2_Entrez 1 1 24 -7.88 down 1 0 0/1 -7.88 1 24 -7.88 -7.88 204082_at 204082_at pre-B-cell leukemia transcription factor 3 -7.88 -7.88 down 0.0097 FA FTC 12 12 provided by authors 15713710 15 23 1177 5091 PC pyruvate carboxylase Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Pyruvate carboxylase PC 2 2.00 up FVPTC PTC 3 2 publication 15475448 1 1 37 5111 PCNA proliferating cell nuclear antigen clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -5.26 down 1 0 0/1 -5.26 1 2 -5.26 -5.26 M15796 M15796 PCNA; cyclin 0.19 -5.26 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 10 15 702 5121 PCP4 Purkinje cell protein 4 affy_probe_2_Entrez 1 1 12 -3.6 down 1 0 0/1 -3.6 1 12 -3.60 -3.60 37576_at 37576_at Purkinje cell protein 4 PCP4 -3.6 -3.60 down yes GT Norm 6 6 publication 15515157 5 10 383 5126 PCSK2 proprotein convertase subtilisin/kexin type 2 tag_2_refseq_or_mgc_2_Entrez 1 1 3 0 up 1 0 1/0 0 0 0 0 0 TTGTAAATTA TTGTAAATTA PCSK2 up no FTC FA;Norm 1 2 publication 15085203 1 1 14 5127 PCTK1 PCTAIRE protein kinase 1 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 23 0.63 up 2 1 2/1 0.315 2 4 2.96 -2.33 X66363 X66363 Serine/threonine-protein kinase PCTAIRE-1 2.96 2.96 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 13 20 902 5127 PCTK1 PCTAIRE protein kinase 1 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 23 0.63 up 2 1 2/1 0.315 2 4 2.96 -2.33 X66363 X66363 PCTAIRE protein kinase 1 PCTK1 up FTC FA 9 10 publication 12738736 13 20 903 5127 PCTK1 PCTAIRE protein kinase 1 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 23 0.63 up 2 1 2/1 0.315 2 4 2.96 -2.33 X66363 X66363 PCTAIRE protein kinase 1 PTCK1 up FTC FA 9 10 publication 12738736 8 13 594 5127 PCTK1 PCTAIRE protein kinase 1 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 23 0.63 up 2 1 2/1 0.315 2 4 2.96 -2.33 X66363 X66363 Serine/threonine-protein kinase PCTAIRE 1 (PCTK1) 0.43 -2.33 down M-ACL ACL 1 1 publication 15579771 15 23 1143 5134 PDCD2 programmed cell death 2 Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Programmed cell death 2 PDCD2 2 2.00 up FVPTC PTC 3 2 publication 15475448 1 1 36 5154 PDGFA platelet-derived growth factor alpha polypeptide clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 16 -2.55 even 1 1 1/1 -1.275 2 16 2.00 -4.55 X06374 X06374 Platelet-derived growth factor A chain 0.22 -4.55 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 14 21 992 5154 PDGFA platelet-derived growth factor alpha polypeptide clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 16 -2.55 even 1 1 1/1 -1.275 2 16 2.00 -4.55 AA701502 AA701502 Platelet-derived growth factor PDGF-A 2 2.00 up PTC Norm 7 7 publication 15041723 1 1 54 5156 PDGFRA platelet-derived growth factor receptor, alpha polypeptide clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -25 down 1 0 0/1 -25 1 2 -25.00 -25.00 M21574 M21574 PDGF-a receptor 0.04 -25.00 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 4 7 276 5157 PDGFRL platelet-derived growth factor receptor-like affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 1761_at 1761_at platelet-derived growth factor receptor-like_PDGFRL PDGFRL down FTC PTC;Norm 9 19 provided by authors 15337802 1 1 34 5159 PDGFRB platelet-derived growth factor receptor, beta polypeptide clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -3.85 down 1 0 0/1 -3.85 1 2 -3.85 -3.85 M21616 M21616 PDGF-b receptor 0.26 -3.85 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 13 20 879 5167 ENPP1 ectonucleotide pyrophosphatase/phosphodiesterase 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 D12485 D12485 Ectonucleotide pyrophosphatase/phosphodiesterase 1 ENPP1 up FTC FA 9 10 publication 12738736 13 20 877 5168 ENPP2 ectonucleotide pyrophosphatase/phosphodiesterase 2 (autotaxin) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 L35594 L35594 Ectonucleotide pyrophosphatase/phosphodiesterase 2 (autotaxin) ENPP2 up yes FTC FA 9 10 publication 12738736 13 20 878 5168 ENPP2 ectonucleotide pyrophosphatase/phosphodiesterase 2 (autotaxin) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 L35594 L35594 Ectonucleotide pyrophosphatase/phosphodiesterase 2 (autotaxin) ENPP2 up yes FTC FA 9 10 publication 12738736 18 31 1365 5172 SLC26A4 solute carrier family 26, member 4 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -2.3 down 1 0 0/1 -2.3 1 59 -2.30 -2.30 AF030880 AF030880 Pedrin PDS 2.3 -2.30 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 15 23 1148 5184 PEPD peptidase D Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Peptidase D PEPD 2 2.00 up FVPTC PTC 3 2 publication 15475448 18 31 1386 5222 PGA5 pepsinogen 5, group I (pepsinogen A) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -2.1 down 1 0 0/1 -2.1 1 59 -2.10 -2.10 J00287 J00287 Pepsinogen PEP 2.1 -2.10 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 14 21 1004 5228 PGF placental growth factor, vascular endothelial growth factor-related protein Gene_symbol_2_NCBI_Entrez 1 1 14 0 up 1 0 1/0 0 0 0 0 0 placental growth factor PGF up PTC Norm 7 7 publication The gene name for this entry was determined manually from the description 15041723 10 16 709 5265 SERPINA1 serine (or cysteine) proteinase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 1 affy_probe_2_Entrez 6 7 220 95.04 up 7 0 7/0 15.84 6 192 27.64 5.00 36781_at 36781_at Serine (or cysteine) proteinase inhibitor SERPIN-A1 16.51 16.51 up yes PTC GT 8 6 publication 15515157 10 17 747 5265 SERPINA1 serine (or cysteine) proteinase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 1 affy_probe_2_Entrez 6 7 220 95.04 up 7 0 7/0 15.84 6 192 27.64 5.00 36781_at 36781_at Serine (or cysteine) proteinase inhibitor, clade A SERPIN-A1 11.35 11.35 up yes yes PTC Norm 8 8 publication 15515157 18 31 1303 5265 SERPINA1 serine (or cysteine) proteinase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 1 clone_accession_2_NCBI_rna_accession_2_Entrez 6 7 220 95.04 up 7 0 7/0 15.84 6 192 27.64 5.00 X01683 X01683 Alpha 1-antitrypsin AAT 5 5.00 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1447 5265 SERPINA1 serine (or cysteine) proteinase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 1 Gene_symbol_2_NCBI_Entrez 6 7 220 95.04 up 7 0 7/0 15.84 6 192 27.64 5.00 Serine (or cysteine) proteinase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 1 SERPINA1 4.395 21.04 up PTC Norm 16 16 publication 15735049 25 34 1546 5265 SERPINA1 serine (or cysteine) proteinase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 1 affy_probe_2_Entrez 6 7 220 95.04 up 7 0 7/0 15.84 6 192 27.64 5.00 202833_s_at 202833_s_at serine (or cysteine) proteinase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 1 SERPINA1 27.636 27.64 up 0.009800013 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 3 6 117 5265 SERPINA1 serine (or cysteine) proteinase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 1 clone_accession_2_NCBI_rna_accession_2_Entrez 6 7 220 95.04 up 7 0 7/0 15.84 6 192 27.64 5.00 X01683 X01683 Alpha 1-antitrypsin SERPINA1 13.5 13.50 up no 0.002 PTC Norm 8 8 suppl. materials 11752453 4 8 334 5265 SERPINA1 serine (or cysteine) proteinase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 1 affy_probe_2_Entrez 6 7 220 95.04 up 7 0 7/0 15.84 6 192 27.64 5.00 36781_at 36781_at serine (or cysteine) proteinase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 1_SERPINA1 SERPINA1 up PTC FTC;Norm 6 22 provided by authors 15337802 18 31 1359 5270 SERPINE2 serine (or cysteine) proteinase inhibitor, clade E (nexin, plasminogen activator inhibitor type 1), member 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 2.3 up 1 0 1/0 2.3 1 59 2.30 2.30 AI743134 AI743134 Glial-derived nexin precursor PN-1 2.3 2.30 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 12 19 859 5310 PKD1 polycystic kidney disease 1 (autosomal dominant) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 21 -3.57 down 1 0 0/1 -3.57 1 21 -3.57 -3.57 U24497 U24497 Autosomal dominant PKD1 0.28 -3.57 down PTC Norm 18 3 publication 12538453 13 20 909 5315 PKM2 pyruvate kinase, muscle clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 M26252 M26252 Pyruvate kinase, muscle PKM2 up FTC FA 9 10 publication 12738736 18 31 1393 5328 PLAU plasminogen activator, urokinase clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 119 7.9 up 3 0 3/0 3.95 2 91 5.90 2.00 X02419 X02419 Urokinase-type plasminogen activator uPA 2 2.00 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1469 5328 PLAU plasminogen activator, urokinase Gene_symbol_2_NCBI_Entrez 3 3 119 7.9 up 3 0 3/0 3.95 2 91 5.90 2.00 Plasminogen activator, urokinase PLAU 2.56 5.90 up PTC Norm 16 16 publication 15735049 4 8 335 5328 PLAU plasminogen activator, urokinase affy_probe_2_Entrez 3 3 119 7.9 up 3 0 3/0 3.95 2 91 5.90 2.00 37310_at 37310_at plasminogen activator, urokinase_PLAU PLAU up PTC FTC;Norm 6 22 provided by authors 15337802 13 20 904 5332 PLCB4 phospholipase C, beta 4 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 L41349 L41349 Phospholipase C, 4 PLCB4 up FTC FA 9 10 publication 12738736 25 34 1668 5348 FXYD1 FXYD domain containing ion transport regulator 1 (phospholemman) affy_probe_2_Entrez 1 1 55 -2.55 down 1 0 0/1 -2.55 1 55 -2.55 -2.55 205384_at 205384_at FXYD domain containing ion transport regulator 1 (phospholemman) FXYD1 -2.546 -2.55 down 6.07053E-07 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 23 1185 5354 PLP1 proteolipid protein 1 (Pelizaeus-Merzbacher disease, spastic paraplegia 2, uncomplicated) Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Proteolipid protein 1 (Pelizaeus-Merzbacher disease) PLP1 2 2.00 up FVPTC PTC 3 2 publication 15475448 4 7 234 5358 PLS3 plastin 3 (T isoform) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 34793_s_at 34793_s_at plastin 3 (T isoform)_PLS3 PLS3 down FTC PTC;Norm 9 19 provided by authors 15337802 9 14 695 5376 PMP22 peripheral myelin protein 22 affy_probe_2_Entrez 1 1 24 -5.37 down 1 0 0/1 -5.37 1 24 -5.37 -5.37 210139_s_at 210139_s_at peripheral myelin protein 22 -5.37 -5.37 down 0.001508 FA FTC 12 12 provided by authors 15713710 15 23 1124 5428 POLG polymerase (DNA directed), gamma Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Polymerase (DNA directed), gamma POLG 3 3.00 up FVPTC PTC 3 2 publication 15475448 13 20 905 5442 POLRMT polymerase (RNA) mitochondrial (DNA directed) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 U75370 U75370 Polymerase (RNA) mitochondrial (DNA directed) POLRMT up FTC FA 9 10 publication 12738736 2 5 112 5479 PPIB peptidylprolyl isomerase B (cyclophilin B) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -6.6 down 1 0 0/1 -6.6 1 2 -6.60 -6.60 NM_000942 NM_000942 Peptidylprolyl isomerase B (cyclophilin B) PPIB 6.6 -6.60 down UCL Norm 1 1 publication 15785240 19 32 1403 5480 PPIC peptidylprolyl isomerase C (cyclophilin C) tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 up 1 0 1/0 0 0 0 0 0 ACCGTCCACT ACCGTCCACT cyclophilin C up 0.0245 FVPTC Norm 1 1 publication 14715705 4 8 342 5493 PPL periplakin affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 36890_at 36890_at periplakin_PPL PPL up PTC FTC;Norm 6 22 provided by authors 15337802 15 23 1180 5511 PPP1R8 protein phosphatase 1, regulatory (inhibitor) subunit 8 Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Protein phosphatase 1, regulatory (inhibitor) subunit 8 PPP1R8 2 2.00 up FVPTC PTC 3 2 publication 15475448 2 5 109 5524 PPP2R4 protein phosphatase 2A, regulatory subunit B' (PR 53) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -6.8 down 1 0 0/1 -6.8 1 2 -6.80 -6.80 NM_021131 NM_021131 Protein phosphatase 2, regulatory subunit “B” 53 PPP2R4 6.8 -6.80 down UCL Norm 1 1 publication 15785240 14 21 990 5529 PPP2R5E protein phosphatase 2, regulatory subunit B (B56), epsilon isoform clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 2.1 up 1 0 1/0 2.1 1 14 2.10 2.10 R53787 R53787 Protein phosphatase 2A B56-epsilon (PP2A) 2.1 2.10 up PTC Norm 7 7 publication 15041723 11 18 825 5536 PPP5C protein phosphatase 5, catalytic subunit clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 U25174 U25174 Serine-threonine phosphatase (PP5) down ACL;ATC Norm 21 10 publication 15613457 15 22 1052 5567 PRKACB protein kinase, cAMP-dependent, catalytic, beta Gene_symbol_2_NCBI_Entrez 1 1 7 -3.33 down 1 0 0/1 -3.33 1 7 -3.33 -3.33 Protein kinase-cyclic AMP-dependent catalytic PRKACB 0.3 -3.33 down FTC FA 3 4 publication 15475448 15 22 1044 5569 PKIA protein kinase (cAMP-dependent, catalytic) inhibitor alpha Gene_symbol_2_NCBI_Entrez 1 1 7 -2.5 down 1 0 0/1 -2.5 1 7 -2.50 -2.50 Protein kinase (cyclic amp-dependent, catalytic) inhibitor PKIA 0.4 -2.50 down FTC FA 3 4 publication 15475448 9 14 631 5583 PRKCH protein kinase C, eta affy_probe_2_Entrez 1 1 24 -2.98 down 1 0 0/1 -2.98 1 24 -2.98 -2.98 218764_at 218764_at hypothetical protein MGC5363 -2.98 -2.98 down 0.000271 FA FTC 12 12 provided by authors 15713710 4 7 207 5584 PRKCI protein kinase C, iota affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 1602_at 1602_at protein kinase C, iota_PRKCI PRKCI down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 218 5584 PRKCI protein kinase C, iota affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 41579_s_at 41579_s_at protein kinase C, iota_PRKCI PRKCI down FTC PTC;Norm 9 19 provided by authors 15337802 8 13 600 5585 PKN1 protein kinase N1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.7 down 1 0 0/1 -2.7 1 2 -2.70 -2.70 U33053 U33053 Lipid-activated protein kinase PRK1 0.37 -2.70 down M-ACL ACL 1 1 publication 15579771 25 34 1658 5588 PRKCQ protein kinase C, theta affy_probe_2_Entrez 1 1 55 -2.96 down 1 0 0/1 -2.96 1 55 -2.96 -2.96 210039_s_at 210039_s_at protein kinase C, theta PRKCQ -2.367 -2.37 down 0.000919797 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1692 5588 PRKCQ protein kinase C, theta affy_probe_2_Entrez 1 1 55 -2.96 down 1 0 0/1 -2.96 1 55 -2.96 -2.96 210038_at 210038_at protein kinase C, theta PRKCQ -2.956 -2.96 down 0.000320748 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 16 24 1242 5596 MAPK4 mitogen-activated protein kinase 4 Gene_symbol_2_NCBI_Entrez 1 1 63 -2.2 down 1 0 0/1 -2.2 1 63 -2.20 -2.20 MAPK4 0.454545455 -2.20 down 0.01 PTC;FVPTC FA;HN 32 31 publication 15087409 6 11 397 5597 MAPK6 mitogen-activated protein kinase 6 Gene_symbol_2_NCBI_Entrez 1 1 12 0 down 1 0 0/1 0 0 0 0 0 ERK-3, P97-MAPK MAPK6 down yes AFTN;CTN Norm 6 6 publication The gene name for this entry was determined manually from the description 11600550 9 14 634 5606 MAP2K3 mitogen-activated protein kinase kinase 3 affy_probe_2_Entrez 1 1 24 -3.02 down 1 0 0/1 -3.02 1 24 -3.02 -3.02 207667_s_at 207667_s_at mitogen-activated protein kinase kinase 3 -3.02 -3.02 down 0.000008 FA FTC 12 12 provided by authors 15713710 10 16 737 5610 EIF2AK2 eukaryotic translation initiation factor 2-alpha kinase 2 affy_probe_2_Entrez 1 1 14 -4.24 down 1 0 0/1 -4.24 1 14 -4.24 -4.24 1008_f_at 1008_f_at Human interferon-inducible kinase PRKR -4.24 -4.24 down yes PTC GT 8 6 publication 15515157 4 7 260 5616 PRKY protein kinase, Y-linked affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 40030_at 40030_at protein kinase, Y-linked_PRKY PRKY down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 217 5621 PRNP prion protein (p27-30) (Creutzfeld-Jakob disease, Gerstmann-Strausler-Scheinker syndrome, fatal familial insomnia) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 36159_s_at 36159_s_at prion protein (p27-30) (Creutzfeld-Jakob disease, Gerstmann-Strausler-Scheinker syndrome, fatal familial insomnia)_PRNP PRNP down FTC PTC;Norm 9 19 provided by authors 15337802 13 20 907 5627 PROS1 protein S (alpha) clone_accession_2_NCBI_rna_accession_2_Entrez 5 5 177 17.29 up 5 0 5/0 5.76333333333333 3 130 7.39 3.40 M15036 M15036 Protein S (alpha) PROS1 up FTC FA 9 10 publication 12738736 18 31 1315 5627 PROS1 protein S (alpha) clone_accession_2_NCBI_rna_accession_2_Entrez 5 5 177 17.29 up 5 0 5/0 5.76333333333333 3 130 7.39 3.40 M15036 M15036 S plasma protein PROS 3.4 3.40 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1564 5627 PROS1 protein S (alpha) affy_probe_2_Entrez 5 5 177 17.29 up 5 0 5/0 5.76333333333333 3 130 7.39 3.40 207808_s_at 207808_s_at --- --- 7.388 7.39 up 3.67179E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 3 6 128 5627 PROS1 protein S (alpha) clone_accession_2_NCBI_rna_accession_2_Entrez 5 5 177 17.29 up 5 0 5/0 5.76333333333333 3 130 7.39 3.40 M15036 M15036 Vitamin K-dependent plasma protein S PROS1 6.5 6.50 up no 0.001 PTC Norm 8 8 suppl. materials 11752453 4 8 330 5627 PROS1 protein S (alpha) affy_probe_2_Entrez 5 5 177 17.29 up 5 0 5/0 5.76333333333333 3 130 7.39 3.40 35752_s_at 35752_s_at protein S (alpha)_PROS1 PROS1 up PTC FTC;Norm 6 22 provided by authors 15337802 25 34 1637 5629 PROX1 prospero-related homeobox 1 affy_probe_2_Entrez 1 1 55 -2.02 down 1 0 0/1 -2.02 1 55 -2.02 -2.02 207401_at 207401_at prospero-related homeobox 1 PROX1 -2.024 -2.02 down 0.000209821 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1735 5649 RELN reelin affy_probe_2_Entrez 1 1 55 -4.65 down 1 0 0/1 -4.65 1 55 -4.65 -4.65 205923_at 205923_at reelin RELN -4.649 -4.65 down 1.89052E-10 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 2 2 67 5655 KLK10 kallikrein 10 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -8.8 down 1 0 0/1 -8.8 1 2 -8.80 -8.80 NM_002776 NM_002776 Kallikrein 10 KLK10 8.8 -8.80 down FCL Norm 1 1 publication 15785240 15 22 1027 5676 PSG7 pregnancy specific beta-1-glycoprotein 7 Gene_symbol_2_NCBI_Entrez 1 1 7 3 up 1 0 1/0 3 1 7 3.00 3.00 Pregnancy specific beta-1-glycoprotein 7 PSG7 3 3.00 up FTC FA 3 4 publication 15475448 15 23 1145 5686 PSMA5 proteasome (prosome, macropain) subunit, alpha type, 5 Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Proteasome subunit, alpha type, 5 PSMA5 2 2.00 up FVPTC PTC 3 2 publication 15475448 11 18 778 5694 PSMB6 proteasome (prosome, macropain) subunit, beta type, 6 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 D29012 D29012 PSMB6, proteasome subunit Y up yes ACL;ATC Norm 21 10 publication 15613457 11 18 826 5700 PSMC1 proteasome (prosome, macropain) 26S subunit, ATPase, 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 NM_002802 NM_002802 PSMC1 proteasome 26S subunit, ATPase, 1 down ACL;ATC Norm 21 10 publication 15613457 15 23 1146 5707 PSMD1 proteasome (prosome, macropain) 26S subunit, non-ATPase, 1 Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Proteasome 26S subunit, non-ATPase, 1 PSMD1 2 2.00 up FVPTC PTC 3 2 publication 15475448 11 18 827 5708 PSMD2 proteasome (prosome, macropain) 26S subunit, non-ATPase, 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 D78151 D78151 26S proteasome subunit p97 down ACL;ATC Norm 21 10 publication 15613457 14 21 1020 5723 PSPH phosphoserine phosphatase Gene_symbol_2_NCBI_Entrez 1 1 14 0 up 1 0 1/0 0 0 0 0 0 L-3-Phosphoserine-phosphatase PSPH up PTC Norm 7 7 publication The gene name for this entry was determined manually from the description 15041723 15 23 1152 5756 PTK9 PTK9 protein tyrosine kinase 9 Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Protein tyrosine kinase 9 PTK9 2 2.00 up FVPTC PTC 3 2 publication 15475448 11 18 821 5763 PTMS parathymosin clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 M24398 M24398 Parathymosin down ACL;ATC Norm 21 10 publication 15613457 1 1 35 5764 PTN pleiotrophin (heparin binding growth factor 8, neurite growth-promoting factor 1) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 14 -4.17 down 2 0 0/2 -4.17 1 2 -4.17 -4.17 M57399 M57399 Nerve growth factor HBNF-1 0.24 -4.17 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 6 11 399 5764 PTN pleiotrophin (heparin binding growth factor 8, neurite growth-promoting factor 1) Gene_symbol_2_NCBI_Entrez 2 2 14 -4.17 down 2 0 0/2 -4.17 1 2 -4.17 -4.17 HBNF-1 PTN down yes AFTN;CTN Norm 6 6 publication The gene name for this entry was determined manually from the description 11600550 2 4 105 5774 PTPN3 protein tyrosine phosphatase, non-receptor type 3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 3.19 up 1 0 1/0 3.19 1 2 3.19 3.19 NM_002829 NM_002829 Protein tyrosine phosphatase nonreceptor 3 PTPN3 3.19 3.19 up PCL Norm 1 1 publication 15785240 4 7 219 5783 PTPN13 protein tyrosine phosphatase, non-receptor type 13 (APO-1/CD95 (Fas)-associated phosphatase) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 34198_at 34198_at protein tyrosine phosphatase, non-receptor type 13 (APO-1/CD95 (Fas)-associated phosphatase)_PTPN13 PTPN13 down FTC PTC;Norm 9 19 provided by authors 15337802 15 23 1118 5791 PTPRE protein tyrosine phosphatase, receptor type, E Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Protein tyrosine phosphatase, receptor type, E PTPRE 3 3.00 up FVPTC PTC 3 2 publication 15475448 12 19 852 5802 PTPRS protein tyrosine phosphatase, receptor type, S clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 21 -2.04 down 1 0 0/1 -2.04 1 21 -2.04 -2.04 U35234 U35234 Protein tyrosine phosphatase (PTPRS) 0.49 -2.04 down PTC Norm 18 3 publication 12538453 15 23 1178 5830 PEX5 peroxisomal biogenesis factor 5 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Peroxisome receptor 1 PXR1 2 2.00 up FVPTC PTC 3 2 publication 15475448 25 34 1574 5873 RAB27A RAB27A, member RAS oncogene family affy_probe_2_Entrez 2 2 79 0.0499999999999998 even 1 1 1/1 0.0249999999999999 2 79 3.98 -3.93 210951_x_at 210951_x_at RAB27A, member RAS oncogene family RAB27A 5.588 5.59 up 3.30059E-06 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1584 5873 RAB27A RAB27A, member RAS oncogene family affy_probe_2_Entrez 2 2 79 0.0499999999999998 even 1 1 1/1 0.0249999999999999 2 79 3.98 -3.93 209514_s_at 209514_s_at RAB27A, member RAS oncogene family RAB27A 4.243 4.24 up 8.57809E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1587 5873 RAB27A RAB27A, member RAS oncogene family affy_probe_2_Entrez 2 2 79 0.0499999999999998 even 1 1 1/1 0.0249999999999999 2 79 3.98 -3.93 209515_s_at 209515_s_at RAB27A, member RAS oncogene family RAB27A 3.984 3.98 up 0.00340633 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 9 14 679 5873 RAB27A RAB27A, member RAS oncogene family affy_probe_2_Entrez 2 2 79 0.0499999999999998 even 1 1 1/1 0.0249999999999999 2 79 3.98 -3.93 209515_s_at 209515_s_at RAB27A, member RAS oncogene family -3.93 -3.93 down 0.005235 FA FTC 12 12 provided by authors 15713710 1 1 56 5880 RAC2 ras-related C3 botulinum toxin substrate 2 (rho family, small GTP binding protein Rac2) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -100 down 1 0 0/1 -100 1 2 -100.00 -100.00 M64595 M64595 RAS-related C3 botulinum toxin substrate 0.01 -100.00 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 8 13 562 5885 RAD21 RAD21 homolog (S. pombe) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.44 up 1 0 1/0 2.44 1 2 2.44 2.44 D38551 D38551 Rad21 2.44 2.44 up M-ACL ACL 1 1 publication 15579771 1 1 28 5886 RAD23A RAD23 homolog A (S. cerevisiae) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.63 down 1 0 0/1 -2.63 1 2 -2.63 -2.63 D21235 D21235 UV excision repair protein RAD23 0.38 -2.63 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 25 34 1592 5887 RAD23B RAD23 homolog B (S. cerevisiae) affy_probe_2_Entrez 1 1 55 2.37 up 1 0 1/0 2.37 1 55 2.37 2.37 201222_s_at 201222_s_at RAD23 homolog B (S. cerevisiae) RAD23B 3.495 3.49 up 0.013912466 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1619 5887 RAD23B RAD23 homolog B (S. cerevisiae) affy_probe_2_Entrez 1 1 55 2.37 up 1 0 1/0 2.37 1 55 2.37 2.37 201223_s_at 201223_s_at RAD23 homolog B (S. cerevisiae) RAD23B 2.371 2.37 up 0.043653268 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1730 5909 RAP1GA1 RAP1, GTPase activating protein 1 affy_probe_2_Entrez 1 1 55 -4.42 down 1 0 0/1 -4.42 1 55 -4.42 -4.42 203911_at 203911_at RAP1, GTPase activating protein 1 RAP1GA1 -4.423 -4.42 down 0.039001953 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 22 1022 5911 RAP2A RAP2A, member of RAS oncogene family Gene_symbol_2_NCBI_Entrez 1 1 7 4 up 1 0 1/0 4 1 7 4.00 4.00 RAP2A RAP2A 4 4.00 up FTC FA 3 4 publication 15475448 11 18 780 5914 RARA retinoic acid receptor, alpha clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 35 10.4 up 2 0 2/0 10.4 1 4 10.40 10.40 M26697 M26697 hB23 gene for B23 nucleophosmin up yes ACL;ATC Norm 21 10 publication 15613457 2 3 88 5914 RARA retinoic acid receptor, alpha clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 35 10.4 up 2 0 2/0 10.4 1 4 10.40 10.40 NM_002520 NM_002520 Nucleophosmin 1 NPM1 10.4 10.40 up yes FCL;PCL;UCL Norm 3 1 publication 15785240 25 34 1620 5921 RASA1 RAS p21 protein activator (GTPase activating protein) 1 affy_probe_2_Entrez 2 2 83 2.21 even 1 1 1/1 2.21 1 55 2.21 2.21 210621_s_at 210621_s_at RAS p21 protein activator (GTPase activating protein) 1 RASA1 2.370 2.37 up 0.029326205 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1626 5921 RASA1 RAS p21 protein activator (GTPase activating protein) 1 affy_probe_2_Entrez 2 2 83 2.21 even 1 1 1/1 2.21 1 55 2.21 2.21 202677_at 202677_at RAS p21 protein activator (GTPase activating protein) 1 RASA1 2.215 2.21 up 0.041850157 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 7 255 5921 RASA1 RAS p21 protein activator (GTPase activating protein) 1 affy_probe_2_Entrez 2 2 83 2.21 even 1 1 1/1 2.21 1 55 2.21 2.21 1675_at 1675_at RAS p21 protein activator (GTPase activating protein) 1_RASA1 RASA1 down FTC PTC;Norm 9 19 provided by authors 15337802 8 13 559 5928 RBBP4 retinoblastoma binding protein 4 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.63 up 1 0 1/0 2.63 1 2 2.63 2.63 X74262 X74262 Chromatin assembly factor 1 p48 subunit; retinoblastoma-binding protein 4 2.63 2.63 up M-ACL ACL 1 1 publication 15579771 13 20 910 5947 RBP1 retinol binding protein 1, cellular clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 M11433 M11433 Retinol-binding protein 1, cellular RBP1 up FTC FA 9 10 publication 12738736 9 14 644 5955 RCN2 reticulocalbin 2, EF-hand calcium binding domain affy_probe_2_Entrez 1 1 24 -3.14 down 1 0 0/1 -3.14 1 24 -3.14 -3.14 201485_s_at 201485_s_at reticulocalbin 2, EF-hand calcium binding domain -3.14 -3.14 down 0.00262 FA FTC 12 12 provided by authors 15713710 14 21 1000 5966 REL v-rel reticuloendotheliosis viral oncogene homolog (avian) Gene_symbol_2_NCBI_Entrez 1 1 14 0 up 1 0 1/0 0 0 0 0 0 V-rel avian reticuloendotheliosis viral oncogene REL up PTC Norm 7 7 publication The gene name for this entry was determined manually from the description 15041723 15 23 1123 5981 RFC1 replication factor C (activator 1) 1, 145kDa Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Replication factor C (activator 1) 1 (145kD) RFC1 3 3.00 up FVPTC PTC 3 2 publication 15475448 8 13 586 5983 RFC3 replication factor C (activator 1) 3, 38kDa clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.04 down 1 0 0/1 -2.04 1 2 -2.04 -2.04 L07541 L07541 Replication factor C 38-kDa subunit (RFC38) 0.49 -2.04 down M-ACL ACL 1 1 publication 15579771 14 21 982 6000 RGS7 regulator of G-protein signalling 7 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 2.7 up 1 0 1/0 2.7 1 14 2.70 2.70 H24326 H24326 Regulator of G-protein signaling (RGS7) 2.7 2.70 up PTC Norm 7 7 publication 15041723 18 31 1397 6004 RGS16 regulator of G-protein signalling 16 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 130 -12.05 down 3 0 0/3 -4.01666666666667 3 130 -2.00 -6.75 U70426 U70426 Homo sapiens A28-RGS14p A28-RGS14 2 -2.00 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1748 6004 RGS16 regulator of G-protein signalling 16 affy_probe_2_Entrez 3 3 130 -12.05 down 3 0 0/3 -4.01666666666667 3 130 -2.00 -6.75 209325_s_at 209325_s_at regulator of G-protein signalling 16 RGS16 -5.588 -5.59 down 1.12702E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1760 6004 RGS16 regulator of G-protein signalling 16 affy_probe_2_Entrez 3 3 130 -12.05 down 3 0 0/3 -4.01666666666667 3 130 -2.00 -6.75 209324_s_at 209324_s_at regulator of G-protein signalling 16 RGS16 -6.745 -6.75 down 2.04741E-09 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 3 6 148 6004 RGS16 regulator of G-protein signalling 16 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 130 -12.05 down 3 0 0/3 -4.01666666666667 3 130 -2.00 -6.75 U70426 U70426 A28-RGS14p RGS16 -3.3 -3.30 down no 0.0059 PTC Norm 8 8 suppl. materials 11752453 2 2 73 6009 RHEB Ras homolog enriched in brain clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -7.4 down 1 0 0/1 -7.4 1 2 -7.40 -7.40 NM_005614 NM_005614 Ras homologue enriched in brain RHEB2 7.4 -7.40 down FCL Norm 1 1 publication 15785240 13 20 958 6035 RNASE1 ribonuclease, RNase A family, 1 (pancreatic) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 78 -2.2 down 2 0 0/2 -2.2 1 59 -2.20 -2.20 D26129 D26129 Ribonuclease Rnase A family 1 (pancreatic) RNASE1 down FTC FA 9 10 publication 12738736 18 31 1375 6035 RNASE1 ribonuclease, RNase A family, 1 (pancreatic) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 78 -2.2 down 2 0 0/2 -2.2 1 59 -2.20 -2.20 D26129 D26129 Ribonuclease A RNase A 2.2 -2.20 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 15 23 1122 6117 RPA1 replication protein A1, 70kDa Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Replication protein A1 (70kD) RPA1 3 3.00 up FVPTC PTC 3 2 publication 15475448 15 23 1064 6130 RPL7A ribosomal protein L7a Gene_symbol_2_NCBI_Entrez 1 1 5 22 up 1 0 1/0 22 1 5 22.00 22.00 Ribosomal protein L7a RPL7A 22 22.00 up FVPTC PTC 3 2 publication 15475448 11 18 757 6133 RPL9 ribosomal protein L9 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 U09953 U09953 Ribosomal protein L9 up ACL;ATC Norm 21 10 publication 15613457 11 18 828 6137 RPL13 ribosomal protein L13 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 X64707 X64707 BBC1 down ACL;ATC Norm 21 10 publication 15613457 15 23 1072 6143 RPL19 ribosomal protein L19 Gene_symbol_2_NCBI_Entrez 1 1 5 6 up 1 0 1/0 6 1 5 6.00 6.00 Ribosomal protein L19 RPL19 6 6.00 up FVPTC PTC 3 2 publication 15475448 15 23 1194 6165 RPL35A ribosomal protein L35a Gene_symbol_2_NCBI_Entrez 1 1 5 -2.5 down 1 0 0/1 -2.5 1 5 -2.50 -2.50 Ribosomal protein L35a RPL35A 0.4 -2.50 down FVPTC PTC 3 2 publication 15475448 11 18 764 6188 RPS3 ribosomal protein S3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 X55715 X55715 Hums3 mRNA for 40S ribosomal protein s3 up ACL;ATC Norm 21 10 publication 15613457 11 18 776 6188 RPS3 ribosomal protein S3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 X55715 X55715 Hums3 mRNA for 40S ribosomal protein s3 up ACL;ATC Norm 21 10 publication 15613457 4 7 270 6196 RPS6KA2 ribosomal protein S6 kinase, 90kDa, polypeptide 2 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 33325_at 33325_at ribosomal protein S6 kinase, 90kDa, polypeptide 2_RPS6KA2 RPS6KA2 down FTC PTC;Norm 9 19 provided by authors 15337802 15 23 1069 6230 RPS25 ribosomal protein S25 Gene_symbol_2_NCBI_Entrez 1 1 5 9 up 1 0 1/0 9 1 5 9.00 9.00 Ribosomal protein S25 RPS25 9 9.00 up FVPTC PTC 3 2 publication 15475448 8 13 547 6240 RRM1 ribonucleotide reductase M1 polypeptide clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 3.34 up 1 0 1/0 3.34 1 2 3.34 3.34 X59543 X59543 Ribonucleoside-diphosphate reductase M1 subunit 3.34 3.34 up M-ACL ACL 1 1 publication 15579771 8 13 552 6241 RRM2 ribonucleotide reductase M2 polypeptide clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.97 up 1 0 1/0 2.97 1 2 2.97 2.97 X59618 X59618 Ribonucleoside-diphosphate reductase M2 subunit 2.97 2.97 up M-ACL ACL 1 1 publication 15579771 24 33 1459 6258 RXRG retinoid X receptor, gamma Gene_symbol_2_NCBI_Entrez 2 2 87 17.25 up 2 0 2/0 8.625 2 87 11.55 5.70 Retinoid X receptor gamma RXRG 3.53 11.55 up PTC Norm 16 16 publication 15735049 25 34 1573 6258 RXRG retinoid X receptor, gamma affy_probe_2_Entrez 2 2 87 17.25 up 2 0 2/0 8.625 2 87 11.55 5.70 205954_at 205954_at retinoid X receptor, gamma RXRG 5.701 5.70 up 0.007459523 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1690 6262 RYR2 ryanodine receptor 2 (cardiac) affy_probe_2_Entrez 1 1 55 -3.74 down 1 0 0/1 -3.74 1 55 -3.74 -3.74 207557_s_at 207557_s_at ryanodine receptor 2 (cardiac) RYR2 -2.936 -2.94 down 0.000836639 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1722 6262 RYR2 ryanodine receptor 2 (cardiac) affy_probe_2_Entrez 1 1 55 -3.74 down 1 0 0/1 -3.74 1 55 -3.74 -3.74 214044_at 214044_at ryanodine receptor 2 (cardiac) RYR2 -3.743 -3.74 down 3.18078E-10 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 8 368 6273 S100A2 S100 calcium binding protein A2 affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 35726_at 35726_at S100 calcium binding protein A2_S100A2 S100A2 up PTC FTC;Norm 6 22 provided by authors 15337802 4 8 374 6275 S100A4 S100 calcium binding protein A4 (calcium protein, calvasculin, metastasin, murine placental homolog) affy_probe_2_Entrez 2 2 30 7.92 up 2 0 2/0 7.92 1 2 7.92 7.92 38087_s_at 38087_s_at S100 calcium binding protein A4 (calcium protein, calvasculin, metastasin, murine placental homolog)_S100A4 S100A4 up PTC FTC;Norm 6 22 provided by authors 15337802 8 13 541 6275 S100A4 S100 calcium binding protein A4 (calcium protein, calvasculin, metastasin, murine placental homolog) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 30 7.92 up 2 0 2/0 7.92 1 2 7.92 7.92 M80563 M80563 S100 calcium-binding protein A4; MTS1 protein 7.92 7.92 up M-ACL ACL 1 1 publication 15579771 24 33 1510 6277 S100A6 S100 calcium binding protein A6 (calcyclin) Gene_symbol_2_NCBI_Entrez 1 1 32 1.93 up 1 0 1/0 1.93 1 32 1.93 1.93 S100 calcium binding protein A6 (calcyclin) S100A6 0.945 1.93 up PTC Norm 16 16 publication 15735049 4 7 253 6281 S100A10 S100 calcium binding protein A10 (annexin II ligand, calpactin I, light polypeptide (p11)) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 39338_at 39338_at S100 calcium binding protein A10 (annexin II ligand, calpactin I, light polypeptide (p11))_S100A10 S100A10 down FTC PTC;Norm 9 19 provided by authors 15337802 24 33 1498 6282 S100A11 S100 calcium binding protein A11 (calgizzarin) Gene_symbol_2_NCBI_Entrez 2 2 60 2.52 up 2 0 2/0 2.52 1 32 2.52 2.52 S100 calcium binding protein A11 (calgizzarin) S100A11 1.335 2.52 up PTC Norm 16 16 publication 15735049 4 8 365 6282 S100A11 S100 calcium binding protein A11 (calgizzarin) affy_probe_2_Entrez 2 2 60 2.52 up 2 0 2/0 2.52 1 32 2.52 2.52 38138_at 38138_at S100 calcium binding protein A11 (calgizzarin)_S100A11 S100A11 up PTC FTC;Norm 6 22 provided by authors 15337802 4 7 305 6284 S100A13 S100 calcium binding protein A13 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 39712_at 39712_at S100 calcium binding protein A13_S100A13 S100A13 down FTC PTC;Norm 9 19 provided by authors 15337802 9 14 675 6310 ATXN1 ataxin 1 affy_probe_2_Entrez 1 1 24 -3.83 down 1 0 0/1 -3.83 1 24 -3.83 -3.83 203231_s_at 203231_s_at spinocerebellar ataxia 1 (olivopontocerebellar ataxia 1, autosomal dominant, ataxin 1) -3.83 -3.83 down 0.000002 FA FTC 12 12 provided by authors 15713710 14 21 988 6314 ATXN7 ataxin 7 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 2.2 up 1 0 1/0 2.2 1 14 2.20 2.20 AA704255 AA704255 Spinocerebellar ataxia 7 2.2 2.20 up PTC Norm 7 7 publication 15041723 18 31 1392 6337 SCNN1A sodium channel, nonvoltage-gated 1 alpha clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 83 6 up 2 0 2/0 3 2 83 4.00 2.00 X76180 X76180 Lung amiloride sensitive Nachannel ENaCa 2 2.00 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 9 14 608 6337 SCNN1A sodium channel, nonvoltage-gated 1 alpha affy_probe_2_Entrez 2 2 83 6 up 2 0 2/0 3 2 83 4.00 2.00 203453_at 203453_at sodium channel, nonvoltage-gated 1 alpha 4 4.00 up 0.006097 FA FTC 12 12 provided by authors 15713710 6 11 401 6347 CCL2 chemokine (C-C motif) ligand 2 Gene_symbol_2_NCBI_Entrez 1 1 12 0 down 1 0 0/1 0 0 0 0 0 Monocyte chemotactic and activating factor CCL2 down no AFTN;CTN Norm 6 6 publication The gene name for this entry was determined manually from the description 11600550 18 31 1354 6355 CCL8 chemokine (C-C motif) ligand 8 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -2.4 down 1 0 0/1 -2.4 1 59 -2.40 -2.40 Y16645 Y16645 Monocyte chemotactic protein-2 MCP-2 2.4 -2.40 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1535 6359 CCL15 chemokine (C-C motif) ligand 15 Gene_symbol_2_NCBI_Entrez 1 1 32 -2.47 down 1 0 0/1 -2.47 1 32 -2.47 -2.47 Chemokine (C-C motif) ligand 15 CCL15 -1.305 -2.47 down PTC Norm 16 16 publication 15735049 25 34 1776 6366 CCL21 chemokine (C-C motif) ligand 21 affy_probe_2_Entrez 2 2 71 -28.97 down 2 0 0/2 -14.485 2 71 -11.37 -17.60 204606_at 204606_at chemokine (C-C motif) ligand 21 CCL21 -11.370 -11.37 down 0.001106354 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 3 6 164 6366 CCL21 chemokine (C-C motif) ligand 21 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 71 -28.97 down 2 0 0/2 -14.485 2 71 -11.37 -17.60 AB002409 AB002409 Small inducible cytokine subfamily, member 21 SCYA21 -17.6 -17.60 down no 0.02 PTC Norm 8 8 suppl. materials 11752453 4 7 205 6383 SDC2 syndecan 2 (heparan sulfate proteoglycan 1, cell surface-associated, fibroglycan) affy_probe_2_Entrez 2 2 52 -3.81 down 2 0 0/2 -3.81 1 24 -3.81 -3.81 39757_at 39757_at syndecan 2 (heparan sulfate proteoglycan 1, cell surface-associated, fibroglycan)_SDC2 SDC2 down FTC PTC;Norm 9 19 provided by authors 15337802 9 14 648 6383 SDC2 syndecan 2 (heparan sulfate proteoglycan 1, cell surface-associated, fibroglycan) affy_probe_2_Entrez 2 2 52 -3.81 down 2 0 0/2 -3.81 1 24 -3.81 -3.81 212154_at 212154_at syndecan 2 (heparan sulfate proteoglycan 1, cell surface-associated, fibroglycan) -3.17 -3.17 down 0.000212 FA FTC 12 12 provided by authors 15713710 9 14 673 6383 SDC2 syndecan 2 (heparan sulfate proteoglycan 1, cell surface-associated, fibroglycan) affy_probe_2_Entrez 2 2 52 -3.81 down 2 0 0/2 -3.81 1 24 -3.81 -3.81 212157_at 212157_at syndecan 2 (heparan sulfate proteoglycan 1, cell surface-associated, fibroglycan) -3.81 -3.81 down 0.000043 FA FTC 12 12 provided by authors 15713710 15 23 1068 6385 SDC4 syndecan 4 (amphiglycan, ryudocan) Gene_symbol_2_NCBI_Entrez 5 5 163 18.97 up 5 0 5/0 4.7425 4 135 9.00 2.30 Syndecan 4 (amphiglycan, ryudocan) SDC4 9 9.00 up yes FVPTC PTC 3 2 publication 15475448 18 31 1360 6385 SDC4 syndecan 4 (amphiglycan, ryudocan) clone_accession_2_NCBI_rna_accession_2_Entrez 5 5 163 18.97 up 5 0 5/0 4.7425 4 135 9.00 2.30 D79206 D79206 Ryudocan core protein SYND4 2.3 2.30 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1586 6385 SDC4 syndecan 4 (amphiglycan, ryudocan) affy_probe_2_Entrez 5 5 163 18.97 up 5 0 5/0 4.7425 4 135 9.00 2.30 202071_at 202071_at syndecan 4 (amphiglycan, ryudocan) SDC4 4.168 4.17 up 0.036184849 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 3 6 137 6385 SDC4 syndecan 4 (amphiglycan, ryudocan) clone_accession_2_NCBI_rna_accession_2_Entrez 5 5 163 18.97 up 5 0 5/0 4.7425 4 135 9.00 2.30 D79206 D79206 Ryudocan core protein SDC4 3.5 3.50 up no 0.0003 PTC Norm 8 8 suppl. materials 11752453 4 8 347 6385 SDC4 syndecan 4 (amphiglycan, ryudocan) affy_probe_2_Entrez 5 5 163 18.97 up 5 0 5/0 4.7425 4 135 9.00 2.30 35844_at 35844_at syndecan 4 (amphiglycan, ryudocan)_SDC4 SDC4 up PTC FTC;Norm 6 22 provided by authors 15337802 13 20 959 6414 SEPP1 selenoprotein P, plasma, 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 down 1 0 0/1 0 0 0 0 0 Z11793 Z11793 Selenoprotein P, plasma 1 SEPP1 down FTC FA 9 10 publication 12738736 11 18 789 6432 SFRS7 splicing factor, arginine/serine-rich 7, 35kDa clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 45 2.5 even 1 1 1/1 2.5 1 14 2.50 2.50 NM_006276 NM_006276 Splicing factor, arginine/serine-rich 7 (SFRS7) down ACL;ATC Norm 21 10 publication 15613457 14 21 983 6432 SFRS7 splicing factor, arginine/serine-rich 7, 35kDa clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 45 2.5 even 1 1 1/1 2.5 1 14 2.50 2.50 H54020 H54020 Splicing factor (9G8) 2.5 2.50 up PTC Norm 7 7 publication 15041723 3 6 118 6439 SFTPB surfactant, pulmonary-associated protein B clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 44 12.5 up 2 0 2/0 12.5 1 16 12.50 12.50 J02761 J02761 Surfactant, pulmonary-associated protein B SFTPB 12.5 12.50 up no 0.03 PTC Norm 8 8 suppl. materials 11752453 4 8 316 6439 SFTPB surfactant, pulmonary-associated protein B affy_probe_2_Entrez 2 2 44 12.5 up 2 0 2/0 12.5 1 16 12.50 12.50 37004_at 37004_at surfactant, pulmonary-associated protein B_SFTPB SFTPB up PTC FTC;Norm 6 22 provided by authors 15337802 9 14 671 6446 SGK serum/glucocorticoid regulated kinase affy_probe_2_Entrez 1 1 24 -3.74 down 1 0 0/1 -3.74 1 24 -3.74 -3.74 201739_at 201739_at serum/glucocorticoid regulated kinase -3.74 -3.74 down 0.002867 FA FTC 12 12 provided by authors 15713710 18 31 1336 6447 SGNE1 secretory granule, neuroendocrine protein 1 (7B2 protein) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 2.7 up 1 0 1/0 2.7 1 59 2.70 2.70 Y00757 Y00757 Polypeptide 7B2 precursor SGNE1 2.7 2.70 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 15 23 1116 6449 SGTA small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Small glutamine-rich tetratricopeptide repeat (TPR)-containing SGT 3 3.00 up FVPTC PTC 3 2 publication 15475448 11 18 818 6462 SHBG sex hormone-binding globulin clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 X05403 X05403 Sex hormone-binding globulin (SHBG) down ACL;ATC Norm 21 10 publication 15613457 15 23 1150 6477 SIAH1 seven in absentia homolog 1 (Drosophila) Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Seven in absentia homolog 1 (Drosophila) SIAH1 2 2.00 up FVPTC PTC 3 2 publication 15475448 9 14 691 6503 SLA Src-like-adaptor affy_probe_2_Entrez 1 1 24 -4.93 down 1 0 0/1 -4.93 1 24 -4.93 -4.93 214977_at 214977_at Homo sapiens cDNA FLJ13790 fis, clone THYRO1000026 -4.93 -4.93 down 0.004454 FA FTC 12 12 provided by authors 15713710 15 22 1037 6505 SLC1A1 solute carrier family 1 (neuronal/epithelial high affinity glutamate transporter, system Xag), member 1 Gene_symbol_2_NCBI_Entrez 1 1 7 -2 down 1 0 0/1 -2 1 7 -2.00 -2.00 Solute carrier family 1 1 SLC1A1 0.5 -2.00 down FTC FA 3 4 publication 15475448 15 23 1168 6560 SLC12A4 solute carrier family 12 (potassium/chloride transporters), member 4 Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Solute carrier family 12 potassium/chloride transporters SLC12A4 2 2.00 up FVPTC PTC 3 2 publication 15475448 24 33 1474 6585 SLIT1 slit homolog 1 (Drosophila) Gene_symbol_2_NCBI_Entrez 1 1 32 5.21 up 1 0 1/0 5.21 1 32 5.21 5.21 Slit homologue 1 (Drosophila) SLIT1 2.38 5.21 up PTC Norm 16 16 publication 15735049 18 31 1321 6590 SLPI secretory leukocyte protease inhibitor (antileukoproteinase) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 119 9.72 up 3 0 3/0 4.86 2 91 6.52 3.20 X04470 X04470 Antileukoprotease ALP 3.2 3.20 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1468 6590 SLPI secretory leukocyte protease inhibitor (antileukoproteinase) Gene_symbol_2_NCBI_Entrez 3 3 119 9.72 up 3 0 3/0 4.86 2 91 6.52 3.20 Secretory leukocyte protease inhibitor (antileukoproteinase) SLPI 2.705 6.52 up PTC Norm 16 16 publication 15735049 4 8 344 6590 SLPI secretory leukocyte protease inhibitor (antileukoproteinase) affy_probe_2_Entrez 3 3 119 9.72 up 3 0 3/0 4.86 2 91 6.52 3.20 32275_at 32275_at secretory leukocyte protease inhibitor (antileukoproteinase)_SLPI SLPI up PTC FTC;Norm 6 22 provided by authors 15337802 25 34 1588 6597 SMARCA4 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 affy_probe_2_Entrez 1 1 55 2.17 up 1 0 1/0 2.17 1 55 2.17 2.17 215714_s_at 215714_s_at SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 SMARCA4 3.978 3.98 up 0.007393916 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1627 6597 SMARCA4 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 affy_probe_2_Entrez 1 1 55 2.17 up 1 0 1/0 2.17 1 55 2.17 2.17 208794_s_at 208794_s_at SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 SMARCA4 2.171 2.17 up 0.044864178 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1673 6640 SNTA1 syntrophin, alpha 1 (dystrophin-associated protein A1, 59kDa, acidic component) affy_probe_2_Entrez 1 1 55 -2.63 down 1 0 0/1 -2.63 1 55 -2.63 -2.63 203516_at 203516_at syntrophin, alpha 1 (dystrophin-associated protein A1, 59kDa, acidic component) SNTA1 -2.630 -2.63 down 8.3961E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1597 6642 SNX1 sorting nexin 1 affy_probe_2_Entrez 2 2 83 3.29 even 1 1 1/1 3.29 1 55 3.29 3.29 214531_s_at 214531_s_at sorting nexin 1 SNX1 3.290 3.29 up 7.87124E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 7 222 6642 SNX1 sorting nexin 1 affy_probe_2_Entrez 2 2 83 3.29 even 1 1 1/1 3.29 1 55 3.29 3.29 35645_at 35645_at sorting nexin 1_SNX1 SNX1 down FTC PTC;Norm 9 19 provided by authors 15337802 13 20 922 6652 SORD sorbitol dehydrogenase clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 down 1 0 0/1 0 0 0 0 0 L29254 L29254 Sorbitol dehydrogenase SORD down FTC FA 9 10 publication 12738736 4 7 244 6653 SORL1 sortilin-related receptor, L(DLR class) A repeats-containing affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 32140_at 32140_at sortilin-related receptor, L(DLR class) A repeats-containing_SORL1 SORL1 down FTC PTC;Norm 9 19 provided by authors 15337802 14 21 969 6668 SP2 Sp2 transcription factor clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 34 up 1 0 1/0 34 1 14 34.00 34.00 T81103 T81103 Sp2 transcription factor 34 34.00 up PTC Norm 7 7 publication 15041723 8 13 570 6672 SP100 nuclear antigen Sp100 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.31 up 1 0 1/0 2.31 1 2 2.31 2.31 M60618 M60618 Nuclear autoantigen spreckled 100-kDa (SP100) 2.31 2.31 up M-ACL ACL 1 1 publication 15579771 1 1 22 6678 SPARC secreted protein, acidic, cysteine-rich (osteonectin) clone_accession_2_NCBI_rna_accession_2_Entrez 3 4 11 0.96 down 3 1 1/3 0.48 2 7 3.00 -2.04 J03040 J03040 Basement membrane protein BM-40 0.49 -2.04 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 15 23 1112 6678 SPARC secreted protein, acidic, cysteine-rich (osteonectin) Gene_symbol_2_NCBI_Entrez 3 4 11 0.96 down 3 1 1/3 0.48 2 7 3.00 -2.04 Secreted protein, acidic, cysteine-rich (osteonectin) SPARC 3 3.00 up FVPTC PTC 3 2 publication 15475448 17 25 1251 6678 SPARC secreted protein, acidic, cysteine-rich (osteonectin) tag_2_refseq_or_mgc_2_Entrez 3 4 11 0.96 down 3 1 1/3 0.48 2 7 3.00 -2.04 ATGTGAAGAG ATGTGAAGAG down FTC ATC 1 1 publication 11076659 17 28 1273 6678 SPARC secreted protein, acidic, cysteine-rich (osteonectin) tag_2_refseq_or_mgc_2_Entrez 3 4 11 0.96 down 3 1 1/3 0.48 2 7 3.00 -2.04 ATGTGAAGAG ATGTGAAGAG down PTC ATC 1 1 publication 11076659 13 20 911 6692 SPINT1 serine protease inhibitor, Kunitz type 1 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 74 4.45 up 2 0 2/0 4.45 1 55 4.45 4.45 AB000095 AB000095 Serine protease inhibitor, Kunitz type 1 SPINT1 up FTC FA 9 10 publication 12738736 25 34 1581 6692 SPINT1 serine protease inhibitor, Kunitz type 1 affy_probe_2_Entrez 2 2 74 4.45 up 2 0 2/0 4.45 1 55 4.45 4.45 202826_at 202826_at serine protease inhibitor, Kunitz type 1 SPINT1 4.450 4.45 up 1.08009E-10 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 18 31 1351 6696 SPP1 secreted phosphoprotein 1 (osteopontin, bone sialoprotein I, early T-lymphocyte activation 1) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 2.4 up 1 0 1/0 2.4 1 59 2.40 2.40 J04765 J04765 Osteopontin precursor OPN 2.4 2.40 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 1 1 48 6714 SRC v-src sarcoma (Schmidt-Ruppin A-2) viral oncogene homolog (avian) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -11.11 down 1 0 0/1 -11.11 1 2 -11.11 -11.11 K03214 K03214 Proto-oncogene c-src1 tyrosine kinase domain 0.09 -11.11 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 13 20 961 6722 SRF serum response factor (c-fos serum response element-binding transcription factor) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 74 -2.87 down 2 0 0/2 -2.87 1 55 -2.87 -2.87 J03161 J03161 Serum response factor (c-fos serum response element-binding transcription factor) SRF down FTC FA 9 10 publication 12738736 25 34 1684 6722 SRF serum response factor (c-fos serum response element-binding transcription factor) affy_probe_2_Entrez 2 2 74 -2.87 down 2 0 0/2 -2.87 1 55 -2.87 -2.87 202401_s_at 202401_s_at serum response factor (c-fos serum response element-binding transcription factor) SRF -2.865 -2.87 down 0.003713672 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 13 20 881 6756 SSX1 synovial sarcoma, X breakpoint 1 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 24 19 up 2 0 2/0 19 1 5 19.00 19.00 S79325 S79325 Fusion gene up FTC FA 9 10 publication 12738736 15 23 1065 6756 SSX1 synovial sarcoma, X breakpoint 1 Gene_symbol_2_NCBI_Entrez 2 2 24 19 up 2 0 2/0 19 1 5 19.00 19.00 Synovial sarcoma, X breakpoint 1 SSX1 19 19.00 up FVPTC PTC 3 2 publication 15475448 24 33 1511 6768 ST14 suppression of tumorigenicity 14 (colon carcinoma, matriptase, epithin) Gene_symbol_2_NCBI_Entrez 1 1 32 1.82 up 1 0 1/0 1.82 1 32 1.82 1.82 Suppression of tumorigenicity 14 (colon carcinoma, matriptase, epithin) ST14 0.86 1.82 up PTC Norm 16 16 publication 15735049 8 13 583 6773 STAT2 signal transducer and activator of transcription 2, 113kDa clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2 up 1 0 1/0 2 1 2 2.00 2.00 U18671 U18671 Signal transducer and activator of transcription 2 (STAT2) 2 2.00 up M-ACL ACL 1 1 publication 15579771 13 20 912 6778 STAT6 signal transducer and activator of transcription 6, interleukin-4 induced clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 U16031 U16031 Signal transducer and activator of transcription 6, interleukin-4 induced STAT6 up FTC FA 9 10 publication 12738736 3 6 146 6781 STC1 stanniocalcin 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 16 -2.8 down 1 0 0/1 -2.8 1 16 -2.80 -2.80 U25997 U25997 Stanniocalcin precursor (STC) STC1 -2.8 -2.80 down no 0.022 PTC Norm 8 8 suppl. materials 11752453 11 18 797 6818 SULT1A3 sulfotransferase family, cytosolic, 1A, phenol-preferring, member 3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 L25275 L25275 Estrogen sulfotransferase (SULTIA3) down ACL;ATC Norm 21 10 publication 15613457 15 23 1173 6833 ABCC8 ATP-binding cassette, sub-family C (CFTR/MRP), member 8 Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 ATP-binding cassette, subfamily C (CFTR/MRP), member 8 ABCC8 2 2.00 up FVPTC PTC 3 2 publication 15475448 18 31 1348 6834 SURF1 surfeit 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -2.5 down 1 0 0/1 -2.5 1 59 -2.50 -2.50 Z35093 Z35093 SURF-1 SURF1 2.5 -2.50 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 15 23 1103 6888 TALDO1 transaldolase 1 Gene_symbol_2_NCBI_Entrez 1 1 5 4 up 1 0 1/0 4 1 5 4.00 4.00 Transaldolase 1 TALDO1 4 4.00 up FVPTC PTC 3 2 publication 15475448 15 23 1186 6901 TAZ tafazzin (cardiomyopathy, dilated 3A (X-linked); endocardial fibroelastosis 2; Barth syndrome) Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Tafazzin (cardiomyopathy, dilated 3A (X-linked) TAZ 2 2.00 up FVPTC PTC 3 2 publication 15475448 10 16 721 6925 TCF4 transcription factor 4 affy_probe_2_Entrez 2 2 38 -5.17 down 2 0 0/2 -2.585 2 38 -2.29 -2.88 32872_at 32872_at cDNA DKFZp564I083 -2.29 -2.29 down yes PTC GT 8 6 publication 15515157 9 14 628 6925 TCF4 transcription factor 4 affy_probe_2_Entrez 2 2 38 -5.17 down 2 0 0/2 -2.585 2 38 -2.29 -2.88 213891_s_at 213891_s_at Homo sapiens cDNA FLJ11918 fis, clone HEMBB1000272 -2.88 -2.88 down 0.000001 FA FTC 12 12 provided by authors 15713710 13 20 962 6993 TCTEL1 t-complex-associated-testis-expressed 1-like 1 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 78 -2.1 down 2 0 0/2 -2.1 1 59 -2.10 -2.10 D50663 D50663 T-complex-associated-testis-expressed 1-like 1 TCTEL1 down FTC FA 9 10 publication 12738736 18 31 1385 6993 TCTEL1 t-complex-associated-testis-expressed 1-like 1 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 78 -2.1 down 2 0 0/2 -2.1 1 59 -2.10 -2.10 D50663 D50663 T-complex-associated-testis-expressed 1-like 1 TCTEL1 2.1 -2.10 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1649 7004 TEAD4 TEA domain family member 4 affy_probe_2_Entrez 1 1 55 -2.19 down 1 0 0/1 -2.19 1 55 -2.19 -2.19 41037_at 41037_at TEA domain family member 4 TEAD4 -2.185 -2.19 down 0.000195038 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 10 15 704 7033 TFF3 trefoil factor 3 (intestinal) affy_probe_2_Entrez 6 7 208 -91.97 down 7 0 0/7 -18.394 5 158 -3.80 -63.55 37897_s_at 37897_s_at Trefoil factor 3 (intestinal) TFF3 -3.8 -3.80 down yes yes GT Norm 6 6 publication 15515157 10 17 752 7033 TFF3 trefoil factor 3 (intestinal) affy_probe_2_Entrez 6 7 208 -91.97 down 7 0 0/7 -18.394 5 158 -3.80 -63.55 31477_at 31477_at Trefoil factor 3 (intestinal) TFF3 -6.81 -6.81 down yes yes PTC Norm 8 8 publication 15515157 10 17 753 7033 TFF3 trefoil factor 3 (intestinal) affy_probe_2_Entrez 6 7 208 -91.97 down 7 0 0/7 -18.394 5 158 -3.80 -63.55 37897_s_at 37897_s_at Trefoil factor 3 (intestinal) TFF3 -8.52 -8.52 down yes yes PTC Norm 8 8 publication 15515157 11 18 816 7033 TFF3 trefoil factor 3 (intestinal) clone_accession_2_NCBI_rna_accession_2_Entrez 6 7 208 -91.97 down 7 0 0/7 -18.394 5 158 -3.80 -63.55 L15203 L15203 Secretory protein (P1.B) down ACL;ATC Norm 21 10 publication 15613457 13 20 964 7033 TFF3 trefoil factor 3 (intestinal) clone_accession_2_NCBI_rna_accession_2_Entrez 6 7 208 -91.97 down 7 0 0/7 -18.394 5 158 -3.80 -63.55 AI985964 AI985964 Trefoil factor 3 (intestinal) TFF3 down FTC FA 9 10 publication 12738736 13 20 965 7033 TFF3 trefoil factor 3 (intestinal) clone_accession_2_NCBI_rna_accession_2_Entrez 6 7 208 -91.97 down 7 0 0/7 -18.394 5 158 -3.80 -63.55 L08044 L08044 Trefoil factor 3 (intestinal) TFF3 down FTC FA 9 10 publication 12738736 18 31 1298 7033 TFF3 trefoil factor 3 (intestinal) clone_accession_2_NCBI_rna_accession_2_Entrez 6 7 208 -91.97 down 7 0 0/7 -18.394 5 158 -3.80 -63.55 AI985964 AI985964 Intestinal Trefoil Factor, precursor TFF3 7.6 -7.60 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 18 31 1311 7033 TFF3 trefoil factor 3 (intestinal) clone_accession_2_NCBI_rna_accession_2_Entrez 6 7 208 -91.97 down 7 0 0/7 -18.394 5 158 -3.80 -63.55 L08044 L08044 Human intestinal trefoil factor TFF3 3.8 -3.80 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1785 7033 TFF3 trefoil factor 3 (intestinal) affy_probe_2_Entrez 6 7 208 -91.97 down 7 0 0/7 -18.394 5 158 -3.80 -63.55 204623_at 204623_at trefoil factor 3 (intestinal) TFF3 -63.550 -63.55 down 9.36533E-11 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 3 6 163 7033 TFF3 trefoil factor 3 (intestinal) clone_accession_2_NCBI_rna_accession_2_Entrez 6 7 208 -91.97 down 7 0 0/7 -18.394 5 158 -3.80 -63.55 L08044 L08044 Intestinal trefoil factor TFF3 -12.3 -12.30 down yes 0.004 PTC Norm 8 8 suppl. materials 11752453 25 34 1651 7035 TFPI tissue factor pathway inhibitor (lipoprotein-associated coagulation inhibitor) affy_probe_2_Entrez 1 1 55 -2.22 down 1 0 0/1 -2.22 1 55 -2.22 -2.22 210664_s_at 210664_s_at tissue factor pathway inhibitor (lipoprotein-associated coagulation inhibitor) TFPI -2.221 -2.22 down 1.48179E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 22 1047 7037 TFRC transferrin receptor (p90, CD71) Gene_symbol_2_NCBI_Entrez 1 1 7 -2.5 down 1 0 0/1 -2.5 1 7 -2.50 -2.50 Transferrin receptor TFRC 0.4 -2.50 down FTC FA 3 4 publication 15475448 11 18 801 7038 TG thyroglobulin clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 43 0 down 2 0 0/2 0 0 0 0 0 X05615 X05615 Thyroglobulin (TG) down yes ACL;ATC Norm 21 10 publication 15613457 6 11 404 7038 TG thyroglobulin Gene_symbol_2_NCBI_Entrez 2 2 43 0 down 2 0 0/2 0 0 0 0 0 Tg TG down no AFTN;CTN Norm 6 6 publication The gene name for this entry was determined manually from the description 11600550 13 20 916 7039 TGFA transforming growth factor, alpha clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 165 18.55 up 4 0 4/0 6.18333333333333 3 146 7.91 3.20 X70340 X70340 Transforming growth factor, TGFA up FTC FA 9 10 publication 12738736 18 31 1322 7039 TGFA transforming growth factor, alpha clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 165 18.55 up 4 0 4/0 6.18333333333333 3 146 7.91 3.20 X70340 X70340 Transforming growth factor alpha TGFA 3.2 3.20 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1465 7039 TGFA transforming growth factor, alpha Gene_symbol_2_NCBI_Entrez 4 4 165 18.55 up 4 0 4/0 6.18333333333333 3 146 7.91 3.20 Transforming growth factor, alpha TGFA 2.895 7.44 up PTC Norm 16 16 publication 15735049 25 34 1562 7039 TGFA transforming growth factor, alpha affy_probe_2_Entrez 4 4 165 18.55 up 4 0 4/0 6.18333333333333 3 146 7.91 3.20 205016_at 205016_at transforming growth factor, alpha TGFA 7.907 7.91 up 7.0336E-06 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 1 1 39 7045 TGFBI transforming growth factor, beta-induced, 68kDa clone_accession_2_NCBI_rna_accession_2_Entrez 2 3 6 -5.26 down 3 0 0/3 -5.26 1 2 -5.26 -5.26 M77349 M77349 BIGH3 0.19 -5.26 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 17 25 1254 7045 TGFBI transforming growth factor, beta-induced, 68kDa tag_2_refseq_or_mgc_2_Entrez 2 3 6 -5.26 down 3 0 0/3 -5.26 1 2 -5.26 -5.26 GTGTGTTTGT GTGTGTTTGT down FTC ATC 1 1 publication 11076659 17 28 1276 7045 TGFBI transforming growth factor, beta-induced, 68kDa tag_2_refseq_or_mgc_2_Entrez 2 3 6 -5.26 down 3 0 0/3 -5.26 1 2 -5.26 -5.26 GTGTGTTTGT GTGTGTTTGT down PTC ATC 1 1 publication 11076659 2 5 111 7046 TGFBR1 transforming growth factor, beta receptor I (activin A receptor type II-like kinase, 53kDa) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -6.6 down 1 0 0/1 -6.6 1 2 -6.60 -6.60 NM_004612 NM_004612 Transforming growth factor, beta receptor I TGFBR1 6.6 -6.60 down UCL Norm 1 1 publication 15785240 13 20 963 7048 TGFBR2 transforming growth factor, beta receptor II (70/80kDa) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 78 -2.2 down 2 0 0/2 -2.2 1 59 -2.20 -2.20 D50683 D50683 Transforming growth factor, receptor II TGFBR2 down yes FTC FA 9 10 publication 12738736 18 31 1370 7048 TGFBR2 transforming growth factor, beta receptor II (70/80kDa) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 78 -2.2 down 2 0 0/2 -2.2 1 59 -2.20 -2.20 D50683 D50683 Transforming growth factor-beta II receptor alpha TGF-beta IIRa 2.2 -2.20 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 6 11 403 7049 TGFBR3 transforming growth factor, beta receptor III (betaglycan, 300kDa) Gene_symbol_2_NCBI_Entrez 1 1 12 0 down 1 0 0/1 0 0 0 0 0 TGF Beta receptor III TGFBR3 down yes AFTN;CTN Norm 6 6 publication The gene name for this entry was determined manually from the description 11600550 4 8 325 7052 TGM2 transglutaminase 2 (C polypeptide, protein-glutamine-gamma-glutamyltransferase) affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 38404_at 38404_at transglutaminase 2 (C polypeptide, protein-glutamine-gamma-glutamyltransferase)_TGM2 TGM2 up PTC FTC;Norm 6 22 provided by authors 15337802 10 16 711 7076 TIMP1 tissue inhibitor of metalloproteinase 1 (erythroid potentiating activity, collagenase inhibitor) affy_probe_2_Entrez 5 6 170 26.89 up 6 0 6/0 5.378 5 142 10.31 3.20 1693_s_at 1693_s_at Tissue inhibitor of metalloproteinase 1 TIMP1 10.31 10.31 up yes yes PTC GT 8 6 publication 15515157 10 17 749 7076 TIMP1 tissue inhibitor of metalloproteinase 1 (erythroid potentiating activity, collagenase inhibitor) affy_probe_2_Entrez 5 6 170 26.89 up 6 0 6/0 5.378 5 142 10.31 3.20 1693_s_at 1693_s_at Tissue inhibitor of metalloproteinase 1 TIMP1 5.17 5.17 up yes no PTC Norm 8 8 publication 15515157 12 19 850 7076 TIMP1 tissue inhibitor of metalloproteinase 1 (erythroid potentiating activity, collagenase inhibitor) clone_accession_2_NCBI_rna_accession_2_Entrez 5 6 170 26.89 up 6 0 6/0 5.378 5 142 10.31 3.20 X03124 X03124 Erythroid potentiating activity (TIMP-1) 3.2 3.20 up yes yes PTC Norm 18 3 publication 12538453 18 31 1320 7076 TIMP1 tissue inhibitor of metalloproteinase 1 (erythroid potentiating activity, collagenase inhibitor) clone_accession_2_NCBI_rna_accession_2_Entrez 5 6 170 26.89 up 6 0 6/0 5.378 5 142 10.31 3.20 D11139 D11139 Tissue inhibitor of metalloproteinases TIMP 3.2 3.20 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1475 7076 TIMP1 tissue inhibitor of metalloproteinase 1 (erythroid potentiating activity, collagenase inhibitor) Gene_symbol_2_NCBI_Entrez 5 6 170 26.89 up 6 0 6/0 5.378 5 142 10.31 3.20 Tissue inhibitor of metalloproteinase 1 (erythroid potentiating activity, collagenase inhibitor) TIMP1 2.325 5.01 up PTC Norm 16 16 publication 15735049 4 8 318 7076 TIMP1 tissue inhibitor of metalloproteinase 1 (erythroid potentiating activity, collagenase inhibitor) affy_probe_2_Entrez 5 6 170 26.89 up 6 0 6/0 5.378 5 142 10.31 3.20 1693_s_at 1693_s_at tissue inhibitor of metalloproteinase 1 (erythroid potentiating activity, collagenase inhibitor)_TIMP1 TIMP1 up PTC FTC;Norm 6 22 provided by authors 15337802 1 1 58 7078 TIMP3 tissue inhibitor of metalloproteinase 3 (Sorsby fundus dystrophy, pseudoinflammatory) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -1000 down 1 0 0/1 -1000 1 2 -1000.00 -1000.00 Z30183 Z30183 Mitogen-inducible gene5(mig-5) 0.001 -1000.00 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 24 33 1533 7091 TLE4 transducin-like enhancer of split 4 (E(sp1) homolog, Drosophila) Gene_symbol_2_NCBI_Entrez 1 1 32 -2.39 down 1 0 0/1 -2.39 1 32 -2.39 -2.39 Transducin-like enhancer of split 4 [E(sp1) homologue, Drosophila] TLE4 -1.26 -2.39 down PTC Norm 16 16 publication 15735049 4 7 292 7094 TLN1 talin 1 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 32166_at 32166_at talin 1_TLN1 TLN1 down FTC PTC;Norm 9 19 provided by authors 15337802 14 21 978 7103 TSPAN8 tetraspanin 8 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 69 0.56 even 1 1 1/1 0.28 2 69 2.80 -2.24 AA045699 AA045699 Tumor-associated antigen CO-029 2.8 2.80 up PTC Norm 7 7 publication 15041723 25 34 1655 7103 TSPAN8 tetraspanin 8 affy_probe_2_Entrez 2 2 69 0.56 even 1 1 1/1 0.28 2 69 2.80 -2.24 203824_at 203824_at transmembrane 4 superfamily member 3 TM4SF3 -2.240 -2.24 down 0.024228004 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 18 31 1314 7122 CLDN5 claudin 5 (transmembrane protein deleted in velocardiofacial syndrome) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -3.5 down 1 0 0/1 -3.5 1 59 -3.50 -3.50 AF000959 AF000959 Deleted in Velo-Cardio-Facial Syndrome TMVCF 3.5 -3.50 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 18 31 1373 7123 CLEC3B C-type lectin domain family 3, member B clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 87 -2.2 down 2 0 0/2 -2.2 1 59 -2.20 -2.20 X64559 X64559 Tetranectin, a plasminogen-kringle 4 binding protein TN 2.2 -2.20 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 4 7 246 7123 CLEC3B C-type lectin domain family 3, member B affy_probe_2_Entrez 2 2 87 -2.2 down 2 0 0/2 -2.2 1 59 -2.20 -2.20 36569_at 36569_at tetranectin (plasminogen binding protein)_TNA TNA down FTC PTC;Norm 9 19 provided by authors 15337802 15 23 1100 7124 TNF tumor necrosis factor (TNF superfamily, member 2) Gene_symbol_2_NCBI_Entrez 1 1 5 4 up 1 0 1/0 4 1 5 4.00 4.00 Tumor necrosis factor (TNF superfamily, member 2) TNF 4 4.00 up FVPTC PTC 3 2 publication 15475448 25 34 1687 7148 TNXB tenascin XB affy_probe_2_Entrez 1 1 55 -3.85 down 1 0 0/1 -3.85 1 55 -3.85 -3.85 208609_s_at 208609_s_at tenascin XB /// tenascin XB TNXB -2.880 -2.88 down 0.046554302 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1723 7148 TNXB tenascin XB affy_probe_2_Entrez 1 1 55 -3.85 down 1 0 0/1 -3.85 1 55 -3.85 -3.85 206093_x_at 206093_x_at tenascin XB TNXB -3.852 -3.85 down 0.022672896 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 1 1 53 7153 TOP2A topoisomerase (DNA) II alpha 170kDa clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -16.67 down 1 0 0/1 -16.67 1 2 -16.67 -16.67 J04088 J04088 DNA topoisomerase IIa 0.06 -16.67 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 11 18 783 7156 TOP3A topoisomerase (DNA) III alpha clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 U43431 U43431 DNA topoisomerase III up ACL;ATC Norm 21 10 publication 15613457 8 13 560 7170 TPM3 tropomyosin 3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.53 up 1 0 1/0 2.53 1 2 2.53 2.53 X85960 X85960 TRK-T3 oncogene 2.53 2.53 up M-ACL ACL 1 1 publication 15579771 10 16 744 7173 TPO thyroid peroxidase affy_probe_2_Entrez 4 4 91 -18.77 down 4 0 0/4 -6.25666666666667 3 89 -2.70 -8.60 35928_at 35928_at Thyroid peroxidase TPO -7.47 -7.47 down yes PTC GT 8 6 publication 15515157 18 31 1340 7173 TPO thyroid peroxidase clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 91 -18.77 down 4 0 0/4 -6.25666666666667 3 89 -2.70 -8.60 J02969 J02969 Thyroid peroxidase TPX 2.7 -2.70 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 19 32 1415 7173 TPO thyroid peroxidase tag_2_refseq_or_mgc_2_Entrez 4 4 91 -18.77 down 4 0 0/4 -6.25666666666667 3 89 -2.70 -8.60 GATGAATAAA GATGAATAAA thyroid peroxidase (TPO) down 0.0001 FVPTC Norm 1 1 publication 14715705 3 6 161 7173 TPO thyroid peroxidase clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 91 -18.77 down 4 0 0/4 -6.25666666666667 3 89 -2.70 -8.60 J02969 J02969 Thyroid peroxidase TPO -8.6 -8.60 down no 0.0022 PTC Norm 8 8 suppl. materials 11752453 17 26 1263 7178 TPT1 tumor protein, translationally-controlled 1 tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 down 1 0 0/1 0 0 0 0 0 TAGGTTGTCT TAGGTTGTCT down FTC FA 1 1 publication 11076659 11 18 832 7189 TRAF6 TNF receptor-associated factor 6 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 U78798 U78798 TNF receptor associated factor 6 (TRAF6) down ACL;ATC Norm 21 10 publication 15613457 9 14 639 7253 TSHR thyroid stimulating hormone receptor affy_probe_2_Entrez 1 1 24 -3.97 down 1 0 0/1 -3.97 1 24 -3.97 -3.97 215443_at 215443_at thyroid stimulating hormone receptor -3.09 -3.09 down 0.000044 FA FTC 12 12 provided by authors 15713710 9 14 680 7253 TSHR thyroid stimulating hormone receptor affy_probe_2_Entrez 1 1 24 -3.97 down 1 0 0/1 -3.97 1 24 -3.97 -3.97 215442_s_at 215442_s_at thyroid stimulating hormone receptor -3.97 -3.97 down 0.000009 FA FTC 12 12 provided by authors 15713710 10 16 710 7262 PHLDA2 pleckstrin homology-like domain, family A, member 2 affy_probe_2_Entrez 4 4 117 24.06 up 4 0 4/0 8.02 3 89 15.96 2.50 31888_s_at 31888_s_at Tumor-suppressing subtransferable candidate 3 TSSC3 15.96 15.96 up yes yes PTC GT 8 6 publication 15515157 18 31 1344 7262 PHLDA2 pleckstrin homology-like domain, family A, member 2 clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 117 24.06 up 4 0 4/0 8.02 3 89 15.96 2.50 AF001294 AF001294 Imprinted in Placenta and Liver IPL 2.5 2.50 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 3 6 130 7262 PHLDA2 pleckstrin homology-like domain, family A, member 2 clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 117 24.06 up 4 0 4/0 8.02 3 89 15.96 2.50 AF001294 AF001294 Tumor suppressing subtransferable candidate 3 TSSC3 5.6 5.60 up no 0.0001 PTC Norm 8 8 suppl. materials 11752453 4 8 355 7262 PHLDA2 pleckstrin homology-like domain, family A, member 2 affy_probe_2_Entrez 4 4 117 24.06 up 4 0 4/0 8.02 3 89 15.96 2.50 31888_s_at 31888_s_at tumor suppressing subtransferable candidate 3_TSSC3 TSSC3 up PTC FTC;Norm 6 22 provided by authors 15337802 24 33 1513 7264 TSTA3 tissue specific transplantation antigen P35B Gene_symbol_2_NCBI_Entrez 1 1 32 1.6 up 1 0 1/0 1.6 1 32 1.60 1.60 Tissue specific transplantation antigen P35B TSTA3 0.68 1.60 up PTC Norm 16 16 publication 15735049 13 20 939 7290 HIRA HIR histone cell cycle regulation defective homolog A (S. cerevisiae) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 down 1 0 0/1 0 0 0 0 0 X89887 X89887 Histone cell cycle regulation-defective homolog A HIRA down FTC FA 9 10 publication 12738736 8 13 578 7298 TYMS thymidylate synthetase clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.09 up 1 0 1/0 2.09 1 2 2.09 2.09 X02308 X02308 Thymidylate synthase (TYMS; TS) 2.09 2.09 up M-ACL ACL 1 1 publication 15579771 19 32 1422 7299 TYR tyrosinase (oculocutaneous albinism IA) tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 up 1 0 1/0 0 0 0 0 0 TTGGCTGGGC TTGGCTGGGC EST up 0.0015 FVPTC Norm 1 1 publication 14715705 15 23 1139 7301 TYRO3 TYRO3 protein tyrosine kinase Gene_symbol_2_NCBI_Entrez 2 2 64 4.1 up 2 0 2/0 2.05 2 64 2.10 2.00 TYRO3 protein tyrosine kinase TYRO3 2 2.00 up FVPTC PTC 3 2 publication 15475448 18 31 1326 7301 TYRO3 TYRO3 protein tyrosine kinase clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 64 4.1 up 2 0 2/0 2.05 2 64 2.10 2.00 D17517 D17517 Sky RSE 3 3.00 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 18 31 1378 7301 TYRO3 TYRO3 protein tyrosine kinase clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 64 4.1 up 2 0 2/0 2.05 2 64 2.10 2.00 U18934 U18934 DTK receptor tyrosine kinase DTK 2.1 2.10 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 9 14 610 7306 TYRP1 tyrosinase-related protein 1 affy_probe_2_Entrez 1 1 24 3.62 up 1 0 1/0 3.62 1 24 3.62 3.62 205694_at 205694_at tyrosinase-related protein 1 3.62 3.62 up 0.000555 FA FTC 12 12 provided by authors 15713710 2 2 87 7311 UBA52 ubiquitin A-52 residue ribosomal protein fusion product 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.86 up 1 0 1/0 2.86 1 2 2.86 2.86 NM_021009 NM_021009 Ubiquitin C UBC 2.86 2.86 up FCL Norm 1 1 publication 15785240 11 18 836 7318 UBE1L ubiquitin-activating enzyme E1-like clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 L13852 L13852 Ubiquitin-activating enzyme E1-related protein down ACL;ATC Norm 21 10 publication 15613457 4 7 210 7329 UBE2I ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 33136_at 33136_at ---_--- --- down FTC PTC;Norm 9 19 provided by authors 15337802 15 22 1042 7335 UBE2V1 ubiquitin-conjugating enzyme E2 variant 1 Gene_symbol_2_NCBI_Entrez 1 1 7 -2.5 down 1 0 0/1 -2.5 1 7 -2.50 -2.50 Ubiquitin-conjugating enzyme E2 variant 1 UBE2V1 0.4 -2.50 down FTC FA 3 4 publication 15475448 15 23 1067 7337 UBE3A ubiquitin protein ligase E3A (human papilloma virus E6-associated protein, Angelman syndrome) Gene_symbol_2_NCBI_Entrez 1 1 5 11 up 1 0 1/0 11 1 5 11.00 11.00 Ubiquitin protein ligase E3A UBE3A 11 11.00 up FVPTC PTC 3 2 publication 15475448 11 18 835 7347 UCHL3 ubiquitin carboxyl-terminal esterase L3 (ubiquitin thiolesterase) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 M30496 M30496 UCHL3 ubiquitin carboxyl-terminal esterase L3 (ubiquitin thiol esterase) down ACL;ATC Norm 21 10 publication 15613457 15 22 1062 7356 SCGB1A1 secretoglobin, family 1A, member 1 (uteroglobin) Gene_symbol_2_NCBI_Entrez 1 1 7 -10 down 1 0 0/1 -10 1 7 -10.00 -10.00 Secretoglobin SCGB1A1 0.1 -10.00 down FTC FA 3 4 publication 15475448 15 23 1176 7360 UGP2 UDP-glucose pyrophosphorylase 2 Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 UDP-glucose pyrophosphorylase 2 UGP2 2 2.00 up FVPTC PTC 3 2 publication 15475448 8 13 558 7372 UMPS uridine monophosphate synthetase (orotate phosphoribosyl transferase and orotidine-5'-decarboxylase) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.68 up 1 0 1/0 2.68 1 2 2.68 2.68 J03626 J03626 Uridine 5'-monophosphate synthase (UMP synthase) 2.68 2.68 up M-ACL ACL 1 1 publication 15579771 5 9 375 7373 COL14A1 collagen, type XIV, alpha 1 (undulin) tag_2_refseq_or_mgc_2_Entrez 1 1 3 0 up 1 0 1/0 0 0 0 0 0 CAGATAAGTT CAGATAAGTT COL14A1 up no FA FTC;Norm 1 2 publication 15085203 3 6 122 7378 UPP1 uridine phosphorylase 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 16 8.3 up 1 0 1/0 8.3 1 16 8.30 8.30 X90858 X90858 Uridine phosphorylase UP 8.3 8.30 up no 0.002 PTC Norm 8 8 suppl. materials 11752453 14 21 976 7410 VAV2 vav 2 oncogene clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 0 up 1 0 1/0 0 0 0 0 0 AA682337 AA682337 Vav 2 oncogene 3 3.00 up PTC Norm 7 7 publication 15041723 14 21 999 7410 VAV2 vav 2 oncogene Gene_symbol_2_NCBI_Entrez 1 1 14 0 up 1 0 1/0 0 0 0 0 0 vav 2 VAV2 up PTC Norm 7 7 publication The gene name for this entry was determined manually from the description 15041723 15 22 1049 7422 VEGF vascular endothelial growth factor Gene_symbol_2_NCBI_Entrez 2 2 9 -5.83 down 2 0 0/2 -2.915 2 9 -2.50 -3.33 Vascular endothelial growth factor VEGF 0.3 -3.33 down FTC FA 3 4 publication 15475448 8 13 599 7422 VEGF vascular endothelial growth factor clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 9 -5.83 down 2 0 0/2 -2.915 2 9 -2.50 -3.33 M32977 M32977 Vascular endothelial growth factor (VEGF) 0.4 -2.50 down M-ACL ACL 1 1 publication 15579771 14 21 1002 7423 VEGFB vascular endothelial growth factor B Gene_symbol_2_NCBI_Entrez 2 2 16 -2.04 even 1 1 1/1 -2.04 1 2 -2.04 -2.04 VEGF-B VEGFB up PTC Norm 7 7 publication The gene name for this entry was determined manually from the description 15041723 8 13 585 7423 VEGFB vascular endothelial growth factor B clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 16 -2.04 even 1 1 1/1 -2.04 1 2 -2.04 -2.04 U48801 U48801 Vascular endothelial growth factor B (VEGFB) 0.49 -2.04 down M-ACL ACL 1 1 publication 15579771 8 13 566 7430 VIL2 villin 2 (ezrin) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.33 up 1 0 1/0 2.33 1 2 2.33 2.33 X51521 X51521 Ezrin; cytovillin 2; villin 2 (VIL2) 2.33 2.33 up M-ACL ACL 1 1 publication 15579771 15 23 1130 7447 VSNL1 visinin-like 1 Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Visinin-like 1 VSNL1 3 3.00 up FVPTC PTC 3 2 publication 15475448 4 7 208 7450 VWF von Willebrand factor affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 607_s_at 607_s_at von Willebrand factor_VWF VWF down FTC PTC;Norm 9 19 provided by authors 15337802 25 34 1663 7466 WFS1 Wolfram syndrome 1 (wolframin) affy_probe_2_Entrez 1 1 55 -2.48 down 1 0 0/1 -2.48 1 55 -2.48 -2.48 202908_at 202908_at Wolfram syndrome 1 (wolframin) WFS1 -2.476 -2.48 down 0.024879125 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 23 1140 7477 WNT7B wingless-type MMTV integration site family, member 7B Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Wingless-type MMTV integration site family, member 7B WNT7B 2 2.00 up FVPTC PTC 3 2 publication 15475448 25 34 1678 7481 WNT11 wingless-type MMTV integration site family, member 11 affy_probe_2_Entrez 1 1 55 -2.75 down 1 0 0/1 -2.75 1 55 -2.75 -2.75 206737_at 206737_at wingless-type MMTV integration site family, member 11 WNT11 -2.747 -2.75 down 9.50816E-08 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 16 24 1229 7507 XPA xeroderma pigmentosum, complementation group A Gene_symbol_2_NCBI_Entrez 1 1 63 -1.75 down 1 0 0/1 -1.75 1 63 -1.75 -1.75 XPA 0.572052402 -1.75 down 0.01 PTC;FVPTC FA;HN 32 31 publication 15087409 19 32 1410 7508 XPC xeroderma pigmentosum, complementation group C tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 up 1 0 1/0 0 0 0 0 0 CACGGAGGCG CACGGAGGCG xeroderma pigmentosum, group C up 0.0245 FVPTC Norm 1 1 publication 14715705 6 11 396 7515 XRCC1 X-ray repair complementing defective repair in Chinese hamster cells 1 Gene_symbol_2_NCBI_Entrez 1 1 12 0 down 1 0 0/1 0 0 0 0 0 DNA repair protein (XRCC1) XRCC1 down no AFTN;CTN Norm 6 6 publication The gene name for this entry was determined manually from the description 11600550 15 23 1083 7531 YWHAE tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide Gene_symbol_2_NCBI_Entrez 1 1 5 5 up 1 0 1/0 5 1 5 5.00 5.00 Tyrosine 3-monooxygenase YWHAE 5 5.00 up FVPTC PTC 3 2 publication 15475448 11 18 761 7534 YWHAZ tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 NM_003406 NM_003406 Tyrosine 3-mono-oxygenase/tryptophan 5-mono-oxygenase activation protein, . poly peptide up ACL;ATC Norm 21 10 publication 15613457 11 18 804 7535 ZAP70 zeta-chain (TCR) associated protein kinase 70kDa clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 L05148 L05148 Protein tyrosine kinase related mRNA sequence down ACL;ATC Norm 21 10 publication 15613457 15 22 1054 7543 ZFX zinc finger protein, X-linked Gene_symbol_2_NCBI_Entrez 1 1 7 -3.33 down 1 0 0/1 -3.33 1 7 -3.33 -3.33 Zinc finger protein, X-linked ZFX 0.3 -3.33 down FTC FA 3 4 publication 15475448 13 20 921 7644 ZNF91 zinc finger protein 91 (HPF7, HTF10) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 L11672 L11672 Zinc finger protein 91 (HPF7, HTF10) ZNF91 up FTC FA 9 10 publication 12738736 10 16 729 7707 ZNF148 zinc finger protein 148 (pHZ-52) affy_probe_2_Entrez 1 1 14 -9.07 down 1 0 0/1 -9.07 1 14 -9.07 -9.07 41465_at 41465_at Zinc finger protein 148 (pHZ-52) ZNF148 -2.9 -2.90 down yes PTC GT 8 6 publication 15515157 10 16 745 7707 ZNF148 zinc finger protein 148 (pHZ-52) affy_probe_2_Entrez 1 1 14 -9.07 down 1 0 0/1 -9.07 1 14 -9.07 -9.07 41466_s_at 41466_s_at Zinc finger protein 148 (pHZ-52) ZNF148 -9.07 -9.07 down yes PTC GT 8 6 publication 15515157 15 23 1105 7709 ZBTB17 zinc finger and BTB domain containing 17 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Zinc finger protein 151 (pHZ-67) ZNF151 3 3.00 up FVPTC PTC 3 2 publication 15475448 11 18 763 7846 TUBA3 tubulin, alpha 3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 H11622 H11622 IMAGE:47833 30 similar to gb:K00558 tubulin a-1 chain up ACL;ATC Norm 21 10 publication 15613457 15 22 1031 7874 USP7 ubiquitin specific protease 7 (herpes virus-associated) Gene_symbol_2_NCBI_Entrez 1 1 7 2 up 1 0 1/0 2 1 7 2.00 2.00 Ubiquitin specific protease 7 USP7 2 2.00 up FTC FA 3 4 publication 15475448 9 14 696 7881 KCNAB1 potassium voltage-gated channel, shaker-related subfamily, beta member 1 affy_probe_2_Entrez 1 1 24 -6.61 down 1 0 0/1 -6.61 1 24 -6.61 -6.61 210471_s_at 210471_s_at potassium voltage-gated channel, shaker-related subfamily, beta member 1 -5.48 -5.48 down 0.000312 FA FTC 12 12 provided by authors 15713710 9 14 697 7881 KCNAB1 potassium voltage-gated channel, shaker-related subfamily, beta member 1 affy_probe_2_Entrez 1 1 24 -6.61 down 1 0 0/1 -6.61 1 24 -6.61 -6.61 210078_s_at 210078_s_at potassium voltage-gated channel, shaker-related subfamily, beta member 1 -6.61 -6.61 down 0.000095 FA FTC 12 12 provided by authors 15713710 13 20 940 7922 SLC39A7 solute carrier family 39 (zinc transporter), member 7 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 down 1 0 0/1 0 0 0 0 0 AL031228 AL031228 HLA class II region-expressed gene KE4 HKE4 down FTC FA 9 10 publication 12738736 3 6 149 7932 OR2H2 olfactory receptor, family 2, subfamily H, member 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 16 -3.3 down 1 0 0/1 -3.3 1 16 -3.30 -3.30 AL031983 AL031983 Diubiquitin UBD -3.3 -3.30 down no 0.0115 PTC Norm 8 8 suppl. materials 11752453 14 21 970 7984 ARHGEF5 Rho guanine nucleotide exchange factor (GEF) 5 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 7.6 up 1 0 1/0 7.6 1 14 7.60 7.60 AA045822 AA045822 Guanine nucleotide regulatory protein (tim) 7.6 7.60 up PTC Norm 7 7 publication 15041723 24 33 1466 7991 TUSC3 tumor suppressor candidate 3 Gene_symbol_2_NCBI_Synonym_2_Entrez 4 4 131 17.52 up 4 0 4/0 5.84 3 103 7.70 2.43 Putative prostate cancer tumor suppressor N33 2.885 7.39 up PTC Norm 16 16 publication 15735049 25 34 1557 7991 TUSC3 tumor suppressor candidate 3 affy_probe_2_Entrez 4 4 131 17.52 up 4 0 4/0 5.84 3 103 7.70 2.43 213423_x_at 213423_x_at tumor suppressor candidate 3 TUSC3 9.579 9.58 up 3.13192E-08 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1567 7991 TUSC3 tumor suppressor candidate 3 affy_probe_2_Entrez 4 4 131 17.52 up 4 0 4/0 5.84 3 103 7.70 2.43 209228_x_at 209228_x_at tumor suppressor candidate 3 TUSC3 6.483 6.48 up 2.40645E-06 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1618 7991 TUSC3 tumor suppressor candidate 3 affy_probe_2_Entrez 4 4 131 17.52 up 4 0 4/0 5.84 3 103 7.70 2.43 209227_at 209227_at tumor suppressor candidate 3 TUSC3 2.433 2.43 up 0.021654313 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 3 6 125 7991 TUSC3 tumor suppressor candidate 3 clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 131 17.52 up 4 0 4/0 5.84 3 103 7.70 2.43 U42349 U42349 Putative prostate cancer tumor suppressor N33 7.7 7.70 up no 0.0001 PTC Norm 8 8 suppl. materials 11752453 4 8 363 7991 TUSC3 tumor suppressor candidate 3 affy_probe_2_Entrez 4 4 131 17.52 up 4 0 4/0 5.84 3 103 7.70 2.43 36851_g_at 36851_g_at Putative prostate cancer tumor suppressor_N33 N33 up PTC FTC;Norm 6 22 provided by authors 15337802 8 13 593 8079 MLF2 myeloid leukemia factor 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.27 down 1 0 0/1 -2.27 1 2 -2.27 -2.27 U57342 U57342 Myelodysplasia/myeloid leukemia factor 2 (MLF2) 0.44 -2.27 down M-ACL ACL 1 1 publication 15579771 15 23 1092 8082 SSPN sarcospan (Kras oncogene-associated gene) Gene_symbol_2_NCBI_Entrez 1 1 5 4 up 1 0 1/0 4 1 5 4.00 4.00 Sarcospan (Kras oncogene-associated gene) SSPN 4 4.00 up FVPTC PTC 3 2 publication 15475448 25 34 1555 8091 HMGA2 high mobility group AT-hook 2 affy_probe_2_Entrez 1 1 55 10.33 up 1 0 1/0 10.33 1 55 10.33 10.33 208025_s_at 208025_s_at high mobility group AT-hook 2 /// high mobility group AT-hook 2 HMGA2 10.329 10.33 up 0.013091579 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 23 1108 8099 CDK2AP1 CDK2-associated protein 1 Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 CDK2-associated protein 1 CDK2AP1 3 3.00 up FVPTC PTC 3 2 publication 15475448 4 8 371 8204 NRIP1 nuclear receptor interacting protein 1 affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 40088_at 40088_at nuclear receptor interacting protein 1_NRIP1 NRIP1 up PTC FTC;Norm 6 22 provided by authors 15337802 10 16 736 8364 HIST1H4C histone 1, H4c affy_probe_2_Entrez 2 2 69 -6.82 down 2 0 0/2 -3.41 2 69 -2.60 -4.22 39969_at 39969_at H4 histone family, member G H4FG -4.22 -4.22 down yes PTC GT 8 6 publication 15515157 25 34 1670 8364 HIST1H4C histone 1, H4c affy_probe_2_Entrez 2 2 69 -6.82 down 2 0 0/2 -3.41 2 69 -2.60 -4.22 205967_at 205967_at histone 1, H4f HIST1H4F -2.597 -2.60 down 0.011390558 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1729 8406 SRPX sushi-repeat-containing protein, X-linked affy_probe_2_Entrez 1 1 55 -4.28 down 1 0 0/1 -4.28 1 55 -4.28 -4.28 204955_at 204955_at sushi-repeat-containing protein, X-linked SRPX -4.282 -4.28 down 0.019937143 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 7 204 8418 CMAH cytidine monophosphate-N-acetylneuraminic acid hydroxylase (CMP-N-acetylneuraminate monooxygenase) affy_probe_2_Entrez 2 2 52 -3.49 down 2 0 0/2 -3.49 1 24 -3.49 -3.49 39317_at 39317_at cytidine monophosphate-N-acetylneuraminic acid hydroxylase (CMP-N-acetylneuraminate monooxygenase)_CMAH CMAH down FTC PTC;Norm 9 19 provided by authors 15337802 9 14 661 8418 CMAH cytidine monophosphate-N-acetylneuraminic acid hydroxylase (CMP-N-acetylneuraminate monooxygenase) affy_probe_2_Entrez 2 2 52 -3.49 down 2 0 0/2 -3.49 1 24 -3.49 -3.49 205518_s_at 205518_s_at cytidine monophosphate-N-acetylneuraminic acid hydroxylase (CMP-N-acetylneuraminate monooxygenase) -3.49 -3.49 down 0.003132 FA FTC 12 12 provided by authors 15713710 15 23 1070 8431 NR0B2 nuclear receptor subfamily 0, group B, member 2 Gene_symbol_2_NCBI_Entrez 1 1 5 7 up 1 0 1/0 7 1 5 7.00 7.00 Nuclear receptor subfamily 0, group B, member 2 NR0B2 7 7.00 up FVPTC PTC 3 2 publication 15475448 11 18 803 8470 ARGBP2 Arg/Abl-interacting protein ArgBP2 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 86 -7.85 down 2 0 0/2 -7.85 1 55 -7.85 -7.85 AF049884 AF049884 Arg/Abl-interacting protein ArgBP2a (ArgBP2a) down ACL;ATC Norm 21 10 publication 15613457 25 34 1769 8470 ARGBP2 Arg/Abl-interacting protein ArgBP2 affy_probe_2_Entrez 2 2 86 -7.85 down 2 0 0/2 -7.85 1 55 -7.85 -7.85 204288_s_at 204288_s_at Arg/Abl-interacting protein ArgBP2 ARGBP2 -7.855 -7.85 down 0.045328617 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 9 14 635 8490 RGS5 regulator of G-protein signalling 5 affy_probe_2_Entrez 1 1 24 -3.03 down 1 0 0/1 -3.03 1 24 -3.03 -3.03 209071_s_at 209071_s_at regulator of G-protein signalling 5 -3.03 -3.03 down 0.000001 FA FTC 12 12 provided by authors 15713710 14 21 971 8493 PPM1D protein phosphatase 1D magnesium-dependent, delta isoform clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 4.7 up 1 0 1/0 4.7 1 14 4.70 4.70 N33955 N33955 Protein phosphatase Wip1 4.7 4.70 up PTC Norm 7 7 publication 15041723 4 7 250 8502 PKP4 plakophilin 4 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 39788_at 39788_at plakophilin 4_PKP4 PKP4 down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 239 8531 CSDA cold shock domain protein A affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 39839_at 39839_at cold shock domain protein A_CSDA CSDA down FTC PTC;Norm 9 19 provided by authors 15337802 15 23 1188 8533 COPS3 COP9 constitutive photomorphogenic homolog subunit 3 (Arabidopsis) Gene_symbol_2_NCBI_Entrez 1 1 5 -2 down 1 0 0/1 -2 1 5 -2.00 -2.00 COP9 subunit 3 COPS3 0.5 -2.00 down FVPTC PTC 3 2 publication 15475448 15 23 1099 8545 CGGBP1 CGG triplet repeat binding protein 1 Gene_symbol_2_NCBI_Entrez 1 1 5 4 up 1 0 1/0 4 1 5 4.00 4.00 CGG triplet repeat binding protein 1 CGGBP1 4 4.00 up FVPTC PTC 3 2 publication 15475448 25 34 1617 8547 FCN3 ficolin (collagen/fibrinogen domain containing) 3 (Hakata antigen) affy_probe_2_Entrez 1 1 55 2.45 up 1 0 1/0 2.45 1 55 2.45 2.45 205866_at 205866_at --- --- 2.451 2.45 up 0.022158313 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 7 230 8553 BHLHB2 basic helix-loop-helix domain containing, class B, 2 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 40790_at 40790_at basic helix-loop-helix domain containing, class B, 2_BHLHB2 BHLHB2 down FTC PTC;Norm 9 19 provided by authors 15337802 2 2 69 8554 PIAS1 protein inhibitor of activated STAT, 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -8 down 1 0 0/1 -8 1 2 -8.00 -8.00 NM_016166 NM_016166 Protein inhibitor of activated STAT, 1 PIAS1 8 -8.00 down FCL Norm 1 1 publication 15785240 1 1 7 8558 CDK10 cyclin-dependent kinase (CDC2-like) 10 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 7.78 up 1 0 1/0 7.78 1 2 7.78 7.78 L33264 L33264 CDC2-related protein kinase (PISSLRE) 7.78 7.78 up M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 10 16 717 8560 DEGS1 degenerative spermatocyte homolog 1, lipid desaturase (Drosophila) affy_probe_2_Entrez 1 1 14 5.24 up 1 0 1/0 5.24 1 14 5.24 5.24 33337_at 33337_at Degenerative spermatocyte lipid desaturase DEGS 5.24 5.24 up yes PTC GT 8 6 publication 15515157 16 24 1210 8562 DENR density-regulated protein Gene_symbol_2_NCBI_Entrez 1 1 63 -1.51 down 1 0 0/1 -1.51 1 63 -1.51 -1.51 DENR 0.662337662 -1.51 down 0.02 PTC;FVPTC FA;HN 32 31 publication 15087409 11 18 791 8570 KHSRP KH-type splicing regulatory protein (FUSE binding protein 2) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 U94832 U94832 KH type splicing regulatory protein (KSRP) down ACL;ATC Norm 21 10 publication 15613457 3 6 116 8572 PDLIM4 PDZ and LIM domain 4 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 44 14.5 up 2 0 2/0 14.5 1 16 14.50 14.50 X93510 X93510 37-kDa LIM domain protein RIL 14.5 14.50 up no 0.003 PTC Norm 8 8 suppl. materials 11752453 4 8 349 8572 PDLIM4 PDZ and LIM domain 4 affy_probe_2_Entrez 2 2 44 14.5 up 2 0 2/0 14.5 1 16 14.50 14.50 32610_at 32610_at LIM domain protein_RIL RIL up PTC FTC;Norm 6 22 provided by authors 15337802 15 23 1121 8612 PPAP2C phosphatidic acid phosphatase type 2C Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Phosphatidic acid phosphatase type 2C PPAP2C 3 3.00 up FVPTC PTC 3 2 publication 15475448 4 7 235 8613 PPAP2B phosphatidic acid phosphatase type 2B affy_probe_2_Entrez 2 2 52 -4.46 down 2 0 0/2 -4.46 1 24 -4.46 -4.46 33862_at 33862_at phosphatidic acid phosphatase type 2B_PPAP2B PPAP2B down FTC PTC;Norm 9 19 provided by authors 15337802 9 14 652 8613 PPAP2B phosphatidic acid phosphatase type 2B affy_probe_2_Entrez 2 2 52 -4.46 down 2 0 0/2 -4.46 1 24 -4.46 -4.46 212230_at 212230_at phosphatidic acid phosphatase type 2B -3.28 -3.28 down 0.000001 FA FTC 12 12 provided by authors 15713710 9 14 678 8613 PPAP2B phosphatidic acid phosphatase type 2B affy_probe_2_Entrez 2 2 52 -4.46 down 2 0 0/2 -4.46 1 24 -4.46 -4.46 212226_s_at 212226_s_at phosphatidic acid phosphatase type 2B -3.91 -3.91 down 0 FA FTC 12 12 provided by authors 15713710 9 14 688 8613 PPAP2B phosphatidic acid phosphatase type 2B affy_probe_2_Entrez 2 2 52 -4.46 down 2 0 0/2 -4.46 1 24 -4.46 -4.46 209355_s_at 209355_s_at phosphatidic acid phosphatase type 2B -4.46 -4.46 down 0.000001 FA FTC 12 12 provided by authors 15713710 16 24 1247 8630 HSD17B6 hydroxysteroid (17-beta) dehydrogenase 6 Gene_symbol_2_NCBI_Synonym_2_Entrez 2 2 122 -5.82 down 2 0 0/2 -2.91 2 122 -2.80 -3.02 RODH 0.330882353 -3.02 down 0.01 PTC;FVPTC FA;HN 32 31 publication 15087409 18 31 1331 8630 HSD17B6 hydroxysteroid (17-beta) dehydrogenase 6 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 122 -5.82 down 2 0 0/2 -2.91 2 122 -2.80 -3.02 U89281 U89281 Oxidative 3 alpha hydroxysteroid dehydrogenase RODH 2.8 -2.80 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 15 23 1094 8664 EIF3S7 eukaryotic translation initiation factor 3, subunit 7 zeta, 66/67kDa Gene_symbol_2_NCBI_Entrez 1 1 5 4 up 1 0 1/0 4 1 5 4.00 4.00 Eukaryotic translation initiation factor 3, subunit 7 EIF3S7 4 4.00 up FVPTC PTC 3 2 publication 15475448 25 34 1554 8714 ABCC3 ATP-binding cassette, sub-family C (CFTR/MRP), member 3 affy_probe_2_Entrez 2 2 83 7.08 up 2 0 2/0 7.08 1 55 7.08 7.08 208161_s_at 208161_s_at ATP-binding cassette, sub-family C (CFTR/MRP), member 3 ABCC3 10.353 10.35 up 0.000350203 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1565 8714 ABCC3 ATP-binding cassette, sub-family C (CFTR/MRP), member 3 affy_probe_2_Entrez 2 2 83 7.08 up 2 0 2/0 7.08 1 55 7.08 7.08 209641_s_at 209641_s_at ATP-binding cassette, sub-family C (CFTR/MRP), member 3 ABCC3 7.076 7.08 up 6.91482E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 8 339 8714 ABCC3 ATP-binding cassette, sub-family C (CFTR/MRP), member 3 affy_probe_2_Entrez 2 2 83 7.08 up 2 0 2/0 7.08 1 55 7.08 7.08 38261_at 38261_at ATP-binding cassette, sub-family C (CFTR/MRP), member 3_ABCC3 ABCC3 up PTC FTC;Norm 6 22 provided by authors 15337802 15 23 1125 8718 TNFRSF25 tumor necrosis factor receptor superfamily, member 25 Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Tumor necrosis factor receptor superfamily, member 12a TNFRSF25 3 3.00 up FVPTC PTC 3 2 publication 15475448 4 7 221 8743 TNFSF10 tumor necrosis factor (ligand) superfamily, member 10 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 1715_at 1715_at tumor necrosis factor (ligand) superfamily, member 10_TNFSF10 TNFSF10 down FTC PTC;Norm 9 19 provided by authors 15337802 25 34 1601 8795 TNFRSF10B tumor necrosis factor receptor superfamily, member 10b affy_probe_2_Entrez 1 1 55 2.54 up 1 0 1/0 2.54 1 55 2.54 2.54 209294_x_at 209294_x_at tumor necrosis factor receptor superfamily, member 10b TNFRSF10B 3.130 3.13 up 0.0056309 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1612 8795 TNFRSF10B tumor necrosis factor receptor superfamily, member 10b affy_probe_2_Entrez 1 1 55 2.54 up 1 0 1/0 2.54 1 55 2.54 2.54 209295_at 209295_at tumor necrosis factor receptor superfamily, member 10b TNFRSF10B 2.544 2.54 up 0.000148339 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 24 33 1453 8796 SCEL sciellin Gene_symbol_2_NCBI_Entrez 2 2 48 19.73 up 2 0 2/0 9.865 2 48 15.03 4.70 Sciellin SCEL 3.91 15.03 up PTC Norm 16 16 publication 15735049 3 6 131 8796 SCEL sciellin clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 48 19.73 up 2 0 2/0 9.865 2 48 15.03 4.70 AF045941 AF045941 Sciellin SCEL 4.7 4.70 up yes 0.0002 PTC Norm 8 8 suppl. materials 11752453 24 33 1507 8828 NRP2 neuropilin 2 Gene_symbol_2_NCBI_Entrez 1 1 32 2.04 up 1 0 1/0 2.04 1 32 2.04 2.04 Neuropilin 2 NRP2 1.03 2.04 up PTC Norm 16 16 publication 15735049 11 18 796 8841 HDAC3 histone deacetylase 3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 U66914 U66914 Histone deacetylase 3 (HDAC3) down ACL;ATC Norm 21 10 publication 15613457 25 34 1737 8842 PROM1 prominin 1 affy_probe_2_Entrez 1 1 55 -4.76 down 1 0 0/1 -4.76 1 55 -4.76 -4.76 204304_s_at 204304_s_at prominin 1 PROM1 -4.758 -4.76 down 0.019298975 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 8 328 8848 TSC22D1 TSC22 domain family, member 1 affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 39032_at 39032_at transforming growth factor beta-stimulated protein TSC-22_TSC22 TSC22 up PTC FTC;Norm 6 22 provided by authors 15337802 15 23 1199 8851 CDK5R1 cyclin-dependent kinase 5, regulatory subunit 1 (p35) Gene_symbol_2_NCBI_Entrez 1 1 5 -5 down 1 0 0/1 -5 1 5 -5.00 -5.00 Cyclin-dependent kinase 5, regulatory subunit 1 (p35) CDK5R1 0.2 -5.00 down FVPTC PTC 3 2 publication 15475448 4 7 202 8853 DDEF2 development and differentiation enhancing factor 2 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 39410_at 39410_at development and differentiation enhancing factor 2_DDEF2 DDEF2 down FTC PTC;Norm 9 19 provided by authors 15337802 10 16 733 8857 FCGBP Fc fragment of IgG binding protein affy_probe_2_Entrez 4 5 136 -9.62 down 5 0 0/5 -3.20666666666667 3 89 -3.10 -3.30 39014_at 39014_at Fc fragment of IgG binding protein FCGBP -3.22 -3.22 down yes PTC GT 8 6 publication 15515157 10 17 751 8857 FCGBP Fc fragment of IgG binding protein affy_probe_2_Entrez 4 5 136 -9.62 down 5 0 0/5 -3.20666666666667 3 89 -3.10 -3.30 39014_at 39014_at Fc fragment of IgG binding protein FCGBP -3.3 -3.30 down no PTC Norm 8 8 publication 15515157 13 20 931 8857 FCGBP Fc fragment of IgG binding protein clone_accession_2_NCBI_rna_accession_2_Entrez 4 5 136 -9.62 down 5 0 0/5 -3.20666666666667 3 89 -3.10 -3.30 D84239 D84239 Fc fragment of IgG binding protein FCGBP down FTC FA 9 10 publication 12738736 18 31 1325 8857 FCGBP Fc fragment of IgG binding protein clone_accession_2_NCBI_rna_accession_2_Entrez 4 5 136 -9.62 down 5 0 0/5 -3.20666666666667 3 89 -3.10 -3.30 D84239 D84239 IgG Fc binding protein FC(GAMMA)BP 3.1 -3.10 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 4 7 277 8857 FCGBP Fc fragment of IgG binding protein affy_probe_2_Entrez 4 5 136 -9.62 down 5 0 0/5 -3.20666666666667 3 89 -3.10 -3.30 39014_at 39014_at Fc fragment of IgG binding protein_FCGBP FCGBP down FTC PTC;Norm 9 19 provided by authors 15337802 25 34 1602 8869 ST3GAL5 ST3 beta-galactoside alpha-2,3-sialyltransferase 5 affy_probe_2_Entrez 2 2 83 2.95 up 2 0 2/0 2.95 1 55 2.95 2.95 203217_s_at 203217_s_at sialyltransferase 9 (CMP-NeuAc:lactosylceramide alpha-2,3-sialyltransferase; GM3 synthase) SIAT9 2.955 2.95 up 0.014813632 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 8 370 8869 ST3GAL5 ST3 beta-galactoside alpha-2,3-sialyltransferase 5 affy_probe_2_Entrez 2 2 83 2.95 up 2 0 2/0 2.95 1 55 2.95 2.95 34256_at 34256_at sialyltransferase 9 (CMP-NeuAc:lactosylceramide alpha-2,3-sialyltransferase; GM3 synthase)_SIAT9 SIAT9 up PTC FTC;Norm 6 22 provided by authors 15337802 8 13 550 8872 C10orf7 chromosome 10 open reading frame 7 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.99 up 1 0 1/0 2.99 1 2 2.99 2.99 D14878 D14878 Protein D123 2.99 2.99 up M-ACL ACL 1 1 publication 15579771 18 31 1400 8892 EIF2B2 eukaryotic translation initiation factor 2B, subunit 2 beta, 39kDa clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 -2 down 1 0 0/1 -2 1 59 -2.00 -2.00 AF035280 AF035280 Translation initiation factor eIF-2B beta subunit EIF2B2 2 -2.00 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 4 7 302 8933 CXX1 CAAX box 1 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 33856_at 33856_at CAAX box 1_CXX1 CXX1 down FTC PTC;Norm 9 19 provided by authors 15337802 13 20 930 8939 FUBP3 far upstream element (FUSE) binding protein 3 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 21 2.41 even 1 1 1/1 2.41 1 2 2.41 2.41 U69127 U69127 Far upstream element (FUSE) binding protein 3 FUBP3 down FTC FA 9 10 publication 12738736 8 13 564 8939 FUBP3 far upstream element (FUSE) binding protein 3 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 21 2.41 even 1 1 1/1 2.41 1 2 2.41 2.41 U69127 U69127 Fuse-binding protein 3 (FBP3) 2.41 2.41 up M-ACL ACL 1 1 publication 15579771 10 16 738 8942 KYNU kynureninase (L-kynurenine hydrolase) affy_probe_2_Entrez 1 1 14 -4.29 down 1 0 0/1 -4.29 1 14 -4.29 -4.29 38492_at 38492_at Kynureninase (L-kynurenine hydrolase) KYNU -4.29 -4.29 down yes PTC GT 8 6 publication 15515157 24 33 1490 8974 P4HA2 procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha polypeptide II Gene_symbol_2_NCBI_Entrez 4 4 131 11.27 up 4 0 4/0 3.75666666666667 3 103 4.50 2.93 Procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha polypeptide II P4HA2 1.55 2.93 up PTC Norm 16 16 publication 15735049 25 34 1589 8974 P4HA2 procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha polypeptide II affy_probe_2_Entrez 4 4 131 11.27 up 4 0 4/0 3.75666666666667 3 103 4.50 2.93 202733_at 202733_at procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha polypeptide II P4HA2 3.839 3.84 up 0.000172295 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 3 6 133 8974 P4HA2 procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha polypeptide II clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 131 11.27 up 4 0 4/0 3.75666666666667 3 103 4.50 2.93 U90441 U90441 Prolyl 4-hydroxylase alpha (II) subunit P4HA2 4.5 4.50 up no 0.0001 PTC Norm 8 8 suppl. materials 11752453 4 8 362 8974 P4HA2 procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha polypeptide II affy_probe_2_Entrez 4 4 131 11.27 up 4 0 4/0 3.75666666666667 3 103 4.50 2.93 34390_at 34390_at procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha polypeptide II_P4HA2 P4HA2 up PTC FTC;Norm 6 22 provided by authors 15337802 11 18 794 8985 PLOD3 procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 AF046889 AF046889 lysylhydoxylase isoform 3 (PLOD3) down ACL;ATC Norm 21 10 publication 15613457 15 22 1055 8991 SELENBP1 selenium binding protein 1 Gene_symbol_2_NCBI_Entrez 2 3 71 -7.43 down 3 0 0/3 -2.47666666666667 3 71 -2.00 -3.33 Selenium binding protein 1 SELENBP1 0.3 -3.33 down FTC FA 3 4 publication 15475448 15 23 1191 8991 SELENBP1 selenium binding protein 1 Gene_symbol_2_NCBI_Entrez 2 3 71 -7.43 down 3 0 0/3 -2.47666666666667 3 71 -2.00 -3.33 Selenium binding protein 1 SELENBP1 0.5 -2.00 down FVPTC PTC 3 2 publication 15475448 18 31 1387 8991 SELENBP1 selenium binding protein 1 clone_accession_2_NCBI_rna_accession_2_Entrez 2 3 71 -7.43 down 3 0 0/3 -2.47666666666667 3 71 -2.00 -3.33 U29091 U29091 Human selenium-binding protein HSBP 2.1 -2.10 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 11 18 772 8992 ATP6V0E ATPase, H+ transporting, lysosomal 9kDa, V0 subunit e clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 Y15286 Y15286 Vascular proton-ATPase subunit M9.2 up ACL;ATC Norm 21 10 publication 15613457 15 23 1095 9049 AIP aryl hydrocarbon receptor interacting protein Gene_symbol_2_NCBI_Entrez 1 1 5 4 up 1 0 1/0 4 1 5 4.00 4.00 Aryl hydrocarbon receptor-interacting protein AIP 4 4.00 up FVPTC PTC 3 2 publication 15475448 25 34 1652 9060 PAPSS2 3'-phosphoadenosine 5'-phosphosulfate synthase 2 affy_probe_2_Entrez 1 1 55 -6.95 down 1 0 0/1 -6.95 1 55 -6.95 -6.95 203059_s_at 203059_s_at 3'-phosphoadenosine 5'-phosphosulfate synthase 2 PAPSS2 -2.224 -2.22 down 0.007712264 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1762 9060 PAPSS2 3'-phosphoadenosine 5'-phosphosulfate synthase 2 affy_probe_2_Entrez 1 1 55 -6.95 down 1 0 0/1 -6.95 1 55 -6.95 -6.95 203058_s_at 203058_s_at 3'-phosphoadenosine 5'-phosphosulfate synthase 2 PAPSS2 -6.893 -6.89 down 6.01927E-14 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1763 9060 PAPSS2 3'-phosphoadenosine 5'-phosphosulfate synthase 2 affy_probe_2_Entrez 1 1 55 -6.95 down 1 0 0/1 -6.95 1 55 -6.95 -6.95 203060_s_at 203060_s_at 3'-phosphoadenosine 5'-phosphosulfate synthase 2 PAPSS2 -6.947 -6.95 down 6.02663E-07 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 7 306 9061 PAPSS1 3'-phosphoadenosine 5'-phosphosulfate synthase 1 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 34411_at 34411_at 3'-phosphoadenosine 5'-phosphosulfate synthase 1_PAPSS1 PAPSS1 down FTC PTC;Norm 9 19 provided by authors 15337802 24 33 1476 9071 CLDN10 claudin 10 Gene_symbol_2_NCBI_Entrez 2 2 60 4.99 up 2 0 2/0 4.99 1 32 4.99 4.99 Claudin 10 CLDN10 2.32 4.99 up PTC Norm 16 16 publication 15735049 4 8 329 9071 CLDN10 claudin 10 affy_probe_2_Entrez 2 2 60 4.99 up 2 0 2/0 4.99 1 32 4.99 4.99 39579_at 39579_at claudin 10_CLDN10 CLDN10 up PTC FTC;Norm 6 22 provided by authors 15337802 25 34 1553 9076 CLDN1 claudin 1 affy_probe_2_Entrez 1 1 55 10.75 up 1 0 1/0 10.75 1 55 10.75 10.75 218182_s_at 218182_s_at claudin 1 CLDN1 10.754 10.75 up 0.002431061 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 24 33 1527 9110 MTMR4 myotubularin related protein 4 Gene_symbol_2_NCBI_Entrez 1 1 32 -1.83 down 1 0 0/1 -1.83 1 32 -1.83 -1.83 Myotubularin-related protein 4 MTMR4 -0.875 -1.83 down PTC Norm 16 16 publication 15735049 4 7 211 9124 PDLIM1 PDZ and LIM domain 1 (elfin) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 36937_s_at 36937_s_at PDZ and LIM domain 1 (elfin)_PDLIM1 PDLIM1 down FTC PTC;Norm 9 19 provided by authors 15337802 11 18 831 9138 ARHGEF1 Rho guanine nucleotide exchange factor (GEF) 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 U64105 U64105 Guanine nucleotide exchange factor p115-RhoGEF (ARHGEF1) down ACL;ATC Norm 21 10 publication 15613457 16 24 1204 9144 SYNGR2 synaptogyrin 2 Gene_symbol_2_NCBI_Entrez 1 1 63 2.49 up 1 0 1/0 2.49 1 63 2.49 2.49 SYNGR2 2.493333333 2.49 up yes 0.01 PTC;FVPTC FA;HN 32 31 publication 15087409 25 34 1754 9162 DGKI diacylglycerol kinase, iota affy_probe_2_Entrez 1 1 55 -6.07 down 1 0 0/1 -6.07 1 55 -6.07 -6.07 206806_at 206806_at diacylglycerol kinase, iota DGKI -6.070 -6.07 down 8.56779E-08 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 24 33 1524 9166 EBAG9 estrogen receptor binding site associated, antigen, 9 Gene_symbol_2_NCBI_Entrez 1 1 32 -1.57 down 1 0 0/1 -1.57 1 32 -1.57 -1.57 Estrogen receptor binding site associated antigen 9 EBAG9 -0.65 -1.57 down PTC Norm 16 16 publication 15735049 10 16 718 9168 TMSB10 thymosin, beta 10 affy_probe_2_Entrez 1 1 14 5.09 up 1 0 1/0 5.09 1 14 5.09 5.09 31481_s_at 31481_s_at Thymosin, beta 10 TMSB10 5.09 5.09 up yes PTC GT 8 6 publication 15515157 2 2 82 9201 DCAMKL1 doublecortin and CaM kinase-like 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 4.09 up 1 0 1/0 4.09 1 2 4.09 4.09 NM_004734 NM_004734 Double cortin and CaM kinase-like 1 DCAMKL1 4.09 4.09 up FCL Norm 1 1 publication 15785240 15 23 1135 9218 VAPA VAMP (vesicle-associated membrane protein)-associated protein A, 33kDa Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Vesicle-associated membrane protein)-associated A VAPA 3 3.00 up FVPTC PTC 3 2 publication 15475448 4 8 350 9249 DHRS3 dehydrogenase/reductase (SDR family) member 3 affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 40782_at 40782_at short-chain dehydrogenase/reductase 1_SDR1 SDR1 up PTC FTC;Norm 6 22 provided by authors 15337802 25 34 1694 9252 RPS6KA5 ribosomal protein S6 kinase, 90kDa, polypeptide 5 affy_probe_2_Entrez 1 1 55 -2.99 down 1 0 0/1 -2.99 1 55 -2.99 -2.99 204633_s_at 204633_s_at ribosomal protein S6 kinase, 90kDa, polypeptide 5 RPS6KA5 -2.992 -2.99 down 8.9986E-07 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 7 196 9341 VAMP3 vesicle-associated membrane protein 3 (cellubrevin) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 35784_at 35784_at vesicle-associated membrane protein 3 (cellubrevin)_VAMP3 VAMP3 down FTC PTC;Norm 9 19 provided by authors 15337802 11 18 774 9349 RPL23 ribosomal protein L23 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 X55954 X55954 HL23 ribosomal protein homolog up ACL;ATC Norm 21 10 publication 15613457 16 24 1241 9352 TXNL1 thioredoxin-like 1 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 63 -2.09 down 1 0 0/1 -2.09 1 63 -2.09 -2.09 TXNL 0.478991597 -2.09 down 0.01 PTC;FVPTC FA;HN 32 31 publication 15087409 9 14 627 9411 ARHGAP29 Rho GTPase activating protein 29 affy_probe_2_Entrez 1 1 24 -2.86 down 1 0 0/1 -2.86 1 24 -2.86 -2.86 203910_at 203910_at PTPL1-associated RhoGAP 1 -2.86 -2.86 down 0.000011 FA FTC 12 12 provided by authors 15713710 13 20 935 9413 C9orf61 chromosome 9 open reading frame 61 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 102 -5.52 down 3 0 0/3 -2.76 2 83 -2.10 -3.42 L27479 L27479 Friedriech ataxia region gene X123 X123 down FTC FA 9 10 publication 12738736 18 31 1382 9413 C9orf61 chromosome 9 open reading frame 61 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 102 -5.52 down 3 0 0/3 -2.76 2 83 -2.10 -3.42 L27479 L27479 Human X123 X123 2.1 -2.10 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 9 14 658 9413 C9orf61 chromosome 9 open reading frame 61 affy_probe_2_Entrez 3 3 102 -5.52 down 3 0 0/3 -2.76 2 83 -2.10 -3.42 213900_at 213900_at Friedreich ataxia region gene X123 -3.42 -3.42 down 0.000211 FA FTC 12 12 provided by authors 15713710 18 31 1391 9435 CHST2 carbohydrate (N-acetylglucosamine-6-O) sulfotransferase 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 2 up 1 0 1/0 2 1 59 2.00 2.00 AB014679 AB014679 N-acetylglucosamine-6-O-sulfotransferas e GN6ST 2 2.00 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 15 23 1179 9444 QKI quaking homolog, KH domain RNA binding (mouse) Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Homolog of mouse quaking QKI QKI 2 2.00 up FVPTC PTC 3 2 publication 15475448 4 7 275 9445 ITM2B integral membrane protein 2B affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 41300_s_at 41300_s_at integral membrane protein 2B_ITM2B ITM2B down FTC PTC;Norm 9 19 provided by authors 15337802 8 13 553 9446 GSTO1 glutathione S-transferase omega 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.84 up 1 0 1/0 2.84 1 2 2.84 2.84 U90313 U90313 Glutathione-S-transferase (GST) gene 2.84 2.84 up M-ACL ACL 1 1 publication 15579771 25 34 1630 9448 MAP4K4 mitogen-activated protein kinase kinase kinase kinase 4 affy_probe_2_Entrez 1 1 55 2.13 up 1 0 1/0 2.13 1 55 2.13 2.13 218181_s_at 218181_s_at mitogen-activated protein kinase kinase kinase kinase 4 MAP4K4 2.130 2.13 up 0.001822074 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 22 1035 9451 EIF2AK3 eukaryotic translation initiation factor 2-alpha kinase 3 Gene_symbol_2_NCBI_Entrez 1 1 7 -2 down 1 0 0/1 -2 1 7 -2.00 -2.00 Eukaryotic translation initiation factor 2 alpha kinase 3 EIF2AK3 0.5 -2.00 down FTC FA 3 4 publication 15475448 4 7 191 9452 ITM2A integral membrane protein 2A affy_probe_2_Entrez 2 2 52 -3.72 down 2 0 0/2 -3.72 1 24 -3.72 -3.72 40775_at 40775_at integral membrane protein 2A_ITM2A ITM2A down FTC PTC;Norm 9 19 provided by authors 15337802 9 14 669 9452 ITM2A integral membrane protein 2A affy_probe_2_Entrez 2 2 52 -3.72 down 2 0 0/2 -3.72 1 24 -3.72 -3.72 202746_at 202746_at integral membrane protein 2A -3.72 -3.72 down 0.000192 FA FTC 12 12 provided by authors 15713710 2 4 102 9510 ADAMTS1 a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -5.8 down 1 0 0/1 -5.8 1 2 -5.80 -5.80 NM_006988 NM_006988 A disintegrin-like and metalloprotease with thrombospondin type 1 motif ADAMTS1 5.8 -5.80 down PCL Norm 1 1 publication 15785240 24 33 1522 9515 STXBP5L syntaxin binding protein 5-like Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 32 -1.5 down 1 0 0/1 -1.5 1 32 -1.50 -1.50 Tomosyn-like KIAA1006 -0.585 -1.50 down PTC Norm 16 16 publication 15735049 4 7 213 9516 LITAF lipopolysaccharide-induced TNF factor affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 37024_at 37024_at lipopolysaccharide-induced TNF factor_LITAF LITAF down FTC PTC;Norm 9 19 provided by authors 15337802 12 19 842 9518 GDF15 growth differentiation factor 15 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 45 16.46 up 2 0 2/0 8.23 2 45 8.60 7.86 AF019770 AF019770 MIC-1 8.6 8.60 up PTC Norm 18 3 publication 12538453 9 14 605 9518 GDF15 growth differentiation factor 15 affy_probe_2_Entrez 2 2 45 16.46 up 2 0 2/0 8.23 2 45 8.60 7.86 221577_x_at 221577_x_at prostate differentiation factor 7.86 7.86 up 0.003934 FA FTC 12 12 provided by authors 15713710 11 18 837 9564 BCAR1 breast cancer anti-estrogen resistance 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 W69766 W69766 IMAGE:343903 down ACL;ATC Norm 21 10 publication 15613457 10 17 748 9568 GPR51 G protein-coupled receptor 51 affy_probe_2_Entrez 4 4 112 22.01 up 4 0 4/0 5.5025 4 112 8.26 3.30 33764_at 33764_at G protein-coupled receptor 51 GPR51 8.26 8.26 up no PTC Norm 8 8 publication 15515157 15 23 1082 9568 GPR51 G protein-coupled receptor 51 Gene_symbol_2_NCBI_Entrez 4 4 112 22.01 up 4 0 4/0 5.5025 4 112 8.26 3.30 G protein-coupled receptor 51 GPR51 5 5.00 up FVPTC PTC 3 2 publication 15475448 18 31 1318 9568 GPR51 G protein-coupled receptor 51 clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 112 22.01 up 4 0 4/0 5.5025 4 112 8.26 3.30 AF056085 AF056085 G protein-coupled receptor GABABR2 3.3 3.30 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1472 9568 GPR51 G protein-coupled receptor 51 Gene_symbol_2_NCBI_Entrez 4 4 112 22.01 up 4 0 4/0 5.5025 4 112 8.26 3.30 G protein-coupled receptor 51 GPR51 2.445 5.45 up PTC Norm 16 16 publication 15735049 5 10 389 9586 CREB5 cAMP responsive element binding protein 5 tag_2_refseq_or_mgc_2_Entrez 1 1 3 0 up 1 0 1/0 0 0 0 0 0 TAAATACTTG TAAATACTTG PDK4 up no FTC FA;Norm 1 2 publication 15085203 25 34 1688 9592 IER2 immediate early response 2 affy_probe_2_Entrez 1 1 55 -2.89 down 1 0 0/1 -2.89 1 55 -2.89 -2.89 202081_at 202081_at immediate early response 2 IER2 -2.894 -2.89 down 0.038446886 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 17 26 1262 9607 CART cocaine- and amphetamine-regulated transcript tag_2_refseq_or_mgc_2_Entrez 1 2 4 0 even 1 1 1/1 0 0 0 0 0 TGTGACGCCG TGTGACGCCG up FTC FA 1 1 publication 11076659 17 30 1293 9607 CART cocaine- and amphetamine-regulated transcript tag_2_refseq_or_mgc_2_Entrez 1 2 4 0 even 1 1 1/1 0 0 0 0 0 TGTGACGCCG TGTGACGCCG down PTC FTC 1 1 publication 11076659 24 33 1517 9641 IKBKE inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase epsilon Gene_symbol_2_NCBI_Entrez 1 1 32 1.24 up 1 0 1/0 1.24 1 32 1.24 1.24 Inhibitor of light polypeptide gene enhancer in B-cells, kinase epsilon IKBKE 0.315 1.24 up PTC Norm 16 16 publication 15735049 15 23 1172 9685 ENTH enthoprotin Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Enthoprotin ENTH 2 2.00 up FVPTC PTC 3 2 publication 15475448 25 34 1631 9695 EDEM1 ER degradation enhancer, mannosidase alpha-like 1 affy_probe_2_Entrez 1 1 55 2.13 up 1 0 1/0 2.13 1 55 2.13 2.13 203279_at 203279_at ER degradation enhancer, mannosidase alpha-like 1 EDEM1 2.128 2.13 up 0.007204821 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 18 31 1389 9697 TRAM2 translocation associated membrane protein 2 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 114 -4.82 down 2 0 0/2 -2.41 2 114 -2.10 -2.72 D31762 D31762 LIM protein SLIMMER mRNA KIAA0057 2.1 -2.10 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1676 9697 TRAM2 translocation associated membrane protein 2 affy_probe_2_Entrez 2 2 114 -4.82 down 2 0 0/2 -2.41 2 114 -2.10 -2.72 202368_s_at 202368_s_at translocation associated membrane protein 2 TRAM2 -2.722 -2.72 down 0.000853362 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 13 20 892 9746 CLSTN3 calsyntenin 3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 AB018269 AB018269 KIAA0726 gene product KIAA0726 up FTC FA 9 10 publication 12738736 9 14 629 9749 PHACTR2 phosphatase and actin regulator 2 affy_probe_2_Entrez 1 1 24 -3.16 down 1 0 0/1 -3.16 1 24 -3.16 -3.16 204049_s_at 204049_s_at KIAA0680 gene product -2.89 -2.89 down 0.000036 FA FTC 12 12 provided by authors 15713710 9 14 646 9749 PHACTR2 phosphatase and actin regulator 2 affy_probe_2_Entrez 1 1 24 -3.16 down 1 0 0/1 -3.16 1 24 -3.16 -3.16 204048_s_at 204048_s_at KIAA0680 gene product -3.16 -3.16 down 0.000045 FA FTC 12 12 provided by authors 15713710 9 14 686 9774 BCLAF1 BCL2-associated transcription factor 1 affy_probe_2_Entrez 1 1 24 -4.34 down 1 0 0/1 -4.34 1 24 -4.34 -4.34 214499_s_at 214499_s_at Bcl-2-associated transcription factor -4.34 -4.34 down 0.000008 FA FTC 12 12 provided by authors 15713710 4 7 189 9806 SPOCK2 sparc/osteonectin, cwcv and kazal-like domains proteoglycan (testican) 2 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 36155_at 36155_at sparc/osteonectin, cwcv and kazal-like domains proteoglycan (testican) 2_SPOCK2 SPOCK2 down FTC PTC;Norm 9 19 provided by authors 15337802 13 20 929 9844 ELMO1 engulfment and cell motility 1 (ced-12 homolog, C. elegans) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 78 -2.3 down 2 0 0/2 -2.3 1 59 -2.30 -2.30 D87457 D87457 Engulfment and cell motility 1 ELMO1 down FTC FA 9 10 publication 12738736 18 31 1362 9844 ELMO1 engulfment and cell motility 1 (ced-12 homolog, C. elegans) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 78 -2.3 down 2 0 0/2 -2.3 1 59 -2.30 -2.30 D87457 D87457 KIAA0281 gene KIAA0281 2.3 -2.30 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1709 9882 TBC1D4 TBC1 domain family, member 4 affy_probe_2_Entrez 1 1 55 -3.69 down 1 0 0/1 -3.69 1 55 -3.69 -3.69 203387_s_at 203387_s_at TBC1 domain family, member 4 TBC1D4 -3.389 -3.39 down 0.001948548 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1721 9882 TBC1D4 TBC1 domain family, member 4 affy_probe_2_Entrez 1 1 55 -3.69 down 1 0 0/1 -3.69 1 55 -3.69 -3.69 203386_at 203386_at TBC1 domain family, member 4 TBC1D4 -3.694 -3.69 down 0.008659612 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 11 18 781 9894 KIAA0683 KIAA0683 gene product clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 NM_016111 NM_016111 KIAA0683 protein up ACL;ATC Norm 21 10 publication 15613457 15 23 1134 9900 SV2A synaptic vesicle glycoprotein 2A Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Likely ortholog of mouse synaptic vesicle glycoprotein 2a SV2 3 3.00 up FVPTC PTC 3 2 publication 15475448 2 2 60 9901 SRGAP3 SLIT-ROBO Rho GTPase activating protein 3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -12.5 down 1 0 0/1 -12.5 1 2 -12.50 -12.50 NM_014850 NM_014850 SLIT-ROBO Rho GTPase-activating protein 2 SRGAP2 12.5 -12.50 down FCL Norm 1 1 publication 15785240 24 33 1491 9902 MRC2 mannose receptor, C type 2 Gene_symbol_2_NCBI_Entrez 2 2 60 2.88 even 1 1 1/1 2.88 1 32 2.88 2.88 Mannose receptor, C type 2 MRC2 1.525 2.88 up PTC Norm 16 16 publication 15735049 4 7 300 9902 MRC2 mannose receptor, C type 2 affy_probe_2_Entrez 2 2 60 2.88 even 1 1 1/1 2.88 1 32 2.88 2.88 37408_at 37408_at mannose receptor, C type 2_MRC2 MRC2 down FTC PTC;Norm 9 19 provided by authors 15337802 25 34 1728 9914 KIAA0703 KIAA0703 gene product affy_probe_2_Entrez 1 1 55 -4.05 down 1 0 0/1 -4.05 1 55 -4.05 -4.05 206043_s_at 206043_s_at KIAA0703 gene product KIAA0703 -4.054 -4.05 down 1.31194E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1752 9935 MAFB v-maf musculoaponeurotic fibrosarcoma oncogene homolog B (avian) affy_probe_2_Entrez 1 1 55 -5.87 down 1 0 0/1 -5.87 1 55 -5.87 -5.87 218559_s_at 218559_s_at v-maf musculoaponeurotic fibrosarcoma oncogene homolog B (avian) MAFB -5.871 -5.87 down 0.041986197 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 7 224 9936 CD302 CD302 antigen affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 34760_at 34760_at type I transmembrane C-type lectin receptor DCL-1_DCL-1 DCL-1 down FTC PTC;Norm 9 19 provided by authors 15337802 24 33 1497 9961 MVP major vault protein Gene_symbol_2_NCBI_Entrez 2 2 87 5.82 up 2 0 2/0 2.91 2 87 3.24 2.58 Major vault protein MVP 1.37 2.58 up PTC Norm 16 16 publication 15735049 25 34 1598 9961 MVP major vault protein affy_probe_2_Entrez 2 2 87 5.82 up 2 0 2/0 2.91 2 87 3.24 2.58 202180_s_at 202180_s_at major vault protein MVP 3.239 3.24 up 0.011233219 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 2 2 64 9967 THRAP3 thyroid hormone receptor associated protein 3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -9.9 down 1 0 0/1 -9.9 1 2 -9.90 -9.90 NM_005119 NM_005119 Thyroid hormone receptor-associated protein TRAP150 9.9 -9.90 down FCL Norm 1 1 publication 15785240 13 20 914 9969 THRAP1 thyroid hormone receptor associated protein 1 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 74 2.46 up 2 0 2/0 2.46 1 55 2.46 2.46 AB011165 AB011165 Thyroid hormone receptor-associated protein 240kDa subunit TRAP240 up FTC FA 9 10 publication 12738736 25 34 1616 9969 THRAP1 thyroid hormone receptor associated protein 1 affy_probe_2_Entrez 2 2 74 2.46 up 2 0 2/0 2.46 1 55 2.46 2.46 201987_at 201987_at thyroid hormone receptor associated protein 1 THRAP1 2.463 2.46 up 0.043812497 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 23 1114 10015 PDCD6IP programmed cell death 6 interacting protein Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Programmed cell death 6-interacting protein PDCD6IP 3 3.00 up FVPTC PTC 3 2 publication 15475448 15 23 1084 10019 LNK lymphocyte adaptor protein Gene_symbol_2_NCBI_Entrez 1 1 5 5 up 1 0 1/0 5 1 5 5.00 5.00 Lymphocyte adaptor protein LNK 5 5.00 up FVPTC PTC 3 2 publication 15475448 15 23 1175 10061 ABCF2 ATP-binding cassette, sub-family F (GCN20), member 2 Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 ATP-binding cassette, subfamily F (GCN20), member 2 ABCF2 2 2.00 up FVPTC PTC 3 2 publication 15475448 15 23 1080 10072 DPP3 dipeptidylpeptidase 3 Gene_symbol_2_NCBI_Entrez 1 1 5 5 up 1 0 1/0 5 1 5 5.00 5.00 Dipeptidylpeptidase III DPP3 5 5.00 up FVPTC PTC 3 2 publication 15475448 11 18 823 10076 PTPRU protein tyrosine phosphatase, receptor type, U clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 U73727 U73727 Receptor protein tyrosine phosphatase hPTP-J precursor down ACL;ATC Norm 21 10 publication 15613457 25 34 1718 10098 TSPAN5 tetraspanin 5 affy_probe_2_Entrez 1 1 55 -3.61 down 1 0 0/1 -3.61 1 55 -3.61 -3.61 209890_at 209890_at transmembrane 4 superfamily member 9 TM4SF9 -3.614 -3.61 down 0.003217913 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 2 3 94 10103 TSPAN1 tetraspanin 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 4 -2.5 down 1 0 0/1 -2.5 1 4 -2.50 -2.50 NM_005727 NM_005727 Tetraspan 1 TSPAN-1 2.5 -2.50 down FCL;PCL;UCL Norm 3 1 publication 15785240 9 14 614 10105 PPIF peptidylprolyl isomerase F (cyclophilin F) affy_probe_2_Entrez 1 1 24 3.02 up 1 0 1/0 3.02 1 24 3.02 3.02 201489_at 201489_at peptidylprolyl isomerase F (cyclophilin F) 3.02 3.02 up 0.002756 FA FTC 12 12 provided by authors 15713710 13 20 906 10135 PBEF1 pre-B-cell colony enhancing factor 1 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 47 0 even 1 1 1/1 0 0 0 0 0 U02020 U02020 Pre-B-cell colony-enhancing factor PBEF up FTC FA 9 10 publication 12738736 4 7 247 10135 PBEF1 pre-B-cell colony enhancing factor 1 affy_probe_2_Entrez 2 2 47 0 even 1 1 1/1 0 0 0 0 0 33849_at 33849_at pre-B-cell colony-enhancing factor_PBEF PBEF down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 298 10140 TOB1 transducer of ERBB2, 1 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 40631_at 40631_at transducer of ERBB2, 1_TOB1 TOB1 down FTC PTC;Norm 9 19 provided by authors 15337802 16 24 1238 10144 FAM13A1 family with sequence similarity 13, member A1 Gene_symbol_2_NCBI_Entrez 1 1 63 -1.9 down 1 0 0/1 -1.9 1 63 -1.90 -1.90 FAM13A1 0.525925926 -1.90 down yes 0.02 PTC;FVPTC FA;HN 32 31 publication 15087409 4 7 193 10152 ABI2 abl interactor 2 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 36448_at 36448_at ---_--- --- down FTC PTC;Norm 9 19 provided by authors 15337802 18 31 1334 10154 PLXNC1 plexin C1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 2.7 up 1 0 1/0 2.7 1 59 2.70 2.70 AF030339 AF030339 Viral encoded semaphorin protein receptor PLXN-C1 2.7 2.70 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 15 23 1166 10155 TRIM28 tripartite motif-containing 28 Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Tripartite motif-containing 28 TRIM28 2 2.00 up FVPTC PTC 3 2 publication 15475448 24 33 1456 10158 PDZK1IP1 PDZK1 interacting protein 1 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 32 13.13 up 1 0 1/0 13.13 1 32 13.13 13.13 Membrane-associated protein 17 MAP17 3.715 13.13 up PTC Norm 16 16 publication 15735049 24 33 1540 10166 SLC25A15 solute carrier family 25 (mitochondrial carrier; ornithine transporter) member 15 Gene_symbol_2_NCBI_Entrez 1 1 32 -3.86 down 1 0 0/1 -3.86 1 32 -3.86 -3.86 Solute carrier family 25 (mitochondrial carrier; ornithine transporter) member 15 SLC25A15 -1.95 -3.86 down PTC Norm 16 16 publication 15735049 24 33 1477 10205 EVA1 epithelial V-like antigen 1 Gene_symbol_2_NCBI_Entrez 2 2 87 9.78 up 2 0 2/0 4.89 2 87 4.91 4.87 Epithelial V-like antigen 1 EVA1 2.285 4.87 up PTC Norm 16 16 publication 15735049 25 34 1552 10205 EVA1 epithelial V-like antigen 1 affy_probe_2_Entrez 2 2 87 9.78 up 2 0 2/0 4.89 2 87 4.91 4.87 203779_s_at 203779_s_at epithelial V-like antigen 1 EVA1 13.949 13.95 up 2.43333E-06 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1578 10205 EVA1 epithelial V-like antigen 1 affy_probe_2_Entrez 2 2 87 9.78 up 2 0 2/0 4.89 2 87 4.91 4.87 203780_at 203780_at epithelial V-like antigen 1 EVA1 4.910 4.91 up 4.99938E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 11 18 811 10238 WDR68 WD repeat domain 68 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 U94747 U94747 WD repeat protein HAN11 (AN11) down ACL;ATC Norm 21 10 publication 15613457 24 33 1523 10241 NDP52 nuclear domain 10 protein Gene_symbol_2_NCBI_Entrez 1 1 32 -1.53 down 1 0 0/1 -1.53 1 32 -1.53 -1.53 Nuclear domain 10 protein NDP52 -0.61 -1.53 down PTC Norm 16 16 publication 15735049 15 23 1193 10250 SRRM1 serine/arginine repetitive matrix 1 Gene_symbol_2_NCBI_Entrez 1 1 5 -2 down 1 0 0/1 -2 1 5 -2.00 -2.00 Serine/arginine repetitive matrix 1 SRRM1 0.5 -2.00 down FVPTC PTC 3 2 publication 15475448 2 2 65 10252 SPRY1 sprouty homolog 1, antagonist of FGF signaling (Drosophila) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -9.8 down 1 0 0/1 -9.8 1 2 -9.80 -9.80 BC063856 BC063856 Sprouty homolog 1, antagonist of FGF signaling SPRY1 9.8 -9.80 down FCL Norm 1 1 publication 15785240 16 24 1225 10282 BET1 BET1 homolog (S. cerevisiae) Gene_symbol_2_NCBI_Entrez 1 1 63 -1.68 down 1 0 0/1 -1.68 1 63 -1.68 -1.68 BET1 0.594202899 -1.68 down 0.04 PTC;FVPTC FA;HN 32 31 publication 15087409 2 2 81 10322 SMYD5 SMYD family member 5 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 4.2 up 1 0 1/0 4.2 1 2 4.20 4.20 XM_039548 XM_039548 SMYD family member 5 SMYD5 4.2 4.20 up FCL Norm 1 1 publication 15785240 3 6 144 10370 CITED2 Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 16 -2.7 down 1 0 0/1 -2.7 1 16 -2.70 -2.70 U65093 U65093 Cbp/p300-interacting transactivator 2 CITED2 -2.7 -2.70 down no 0.0019 PTC Norm 8 8 suppl. materials 11752453 17 25 1260 10376 K-ALPHA-1 tubulin, alpha, ubiquitous tag_2_refseq_or_mgc_2_Entrez 1 2 4 0 down 2 0 0/2 0 0 0 0 0 TGTACCTGTA TGTACCTGTA down FTC ATC 1 1 publication 11076659 17 28 1284 10376 K-ALPHA-1 tubulin, alpha, ubiquitous tag_2_refseq_or_mgc_2_Entrez 1 2 4 0 down 2 0 0/2 0 0 0 0 0 TGTACCTGTA TGTACCTGTA down PTC ATC 1 1 publication 11076659 15 23 1085 10379 ISGF3G interferon-stimulated transcription factor 3, gamma 48kDa Gene_symbol_2_NCBI_Entrez 1 1 5 5 up 1 0 1/0 5 1 5 5.00 5.00 Interferon-stimulated transcription factor 3, gamma (48kD) ISGF3G 5 5.00 up FVPTC PTC 3 2 publication 15475448 11 18 820 10385 BTN2A2 butyrophilin, subfamily 2, member A2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 U90550 U90550 Butyrophilin (BTF2) down ACL;ATC Norm 21 10 publication 15613457 4 7 214 10396 ATP8A1 ATPase, aminophospholipid transporter (APLT), Class I, type 8A, member 1 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 33267_at 33267_at ATPase, aminophospholipid transporter (APLT), Class I, type 8A, member 1_ATP8A1 ATP8A1 down FTC PTC;Norm 9 19 provided by authors 15337802 2 2 76 10397 NDRG1 N-myc downstream regulated gene 1 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 57 -8.67 down 2 0 0/2 -4.335 2 57 -2.07 -6.60 NM_006096 NM_006096 N-myc downstream regulated gene 1 NDRG1 6.6 -6.60 down FCL Norm 1 1 publication 15785240 25 34 1640 10397 NDRG1 N-myc downstream regulated gene 1 affy_probe_2_Entrez 2 2 57 -8.67 down 2 0 0/2 -4.335 2 57 -2.07 -6.60 200632_s_at 200632_s_at N-myc downstream regulated gene 1 NDRG1 -2.068 -2.07 down 0.041656945 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 7 299 10398 MYL9 myosin, light polypeptide 9, regulatory affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 39145_at 39145_at myosin, light polypeptide 9, regulatory_MYL9 MYL9 down FTC PTC;Norm 9 19 provided by authors 15337802 18 31 1327 10404 PGCP plasma glutamate carboxypeptidase clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 111 -6.43 down 3 0 0/3 -3.215 2 83 -2.90 -3.53 W28330 W28330 Plasma glutamate carboxypeptidase PGCP 2.9 -2.90 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 4 7 170 10404 PGCP plasma glutamate carboxypeptidase affy_probe_2_Entrez 3 3 111 -6.43 down 3 0 0/3 -3.215 2 83 -2.90 -3.53 32765_f_at 32765_f_at plasma glutamate carboxypeptidase_PGCP PGCP down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 236 10404 PGCP plasma glutamate carboxypeptidase affy_probe_2_Entrez 3 3 111 -6.43 down 3 0 0/3 -3.215 2 83 -2.90 -3.53 32764_at 32764_at plasma glutamate carboxypeptidase_PGCP PGCP down FTC PTC;Norm 9 19 provided by authors 15337802 9 14 654 10404 PGCP plasma glutamate carboxypeptidase affy_probe_2_Entrez 3 3 111 -6.43 down 3 0 0/3 -3.215 2 83 -2.90 -3.53 208454_s_at 208454_s_at plasma glutamate carboxypeptidase -3.29 -3.29 down 0.000093 FA FTC 12 12 provided by authors 15713710 9 14 663 10404 PGCP plasma glutamate carboxypeptidase affy_probe_2_Entrez 3 3 111 -6.43 down 3 0 0/3 -3.215 2 83 -2.90 -3.53 203501_at 203501_at plasma glutamate carboxypeptidase -3.53 -3.53 down 0.000657 FA FTC 12 12 provided by authors 15713710 13 20 890 10437 IFI30 interferon, gamma-inducible protein 30 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 J03909 J03909 IFN, inducible protein 30 IFI30 up FTC FA 9 10 publication 12738736 13 20 891 10437 IFI30 interferon, gamma-inducible protein 30 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 J03909 J03909 Interferon, gamma-inducible protein 30 IFI30 up FTC FA 9 10 publication 12738736 18 31 1306 10439 OLFM1 olfactomedin 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 4.7 up 1 0 1/0 4.7 1 59 4.70 4.70 U79299 U79299 Neuronal olfactomedin-related ER localized protein NOE1 4.7 4.70 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 11 18 787 10445 MCRS1 microspherule protein 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 AF068007 AF068007 Cell cycle-regulated factor p78 down ACL;ATC Norm 21 10 publication 15613457 4 7 175 10457 GPNMB glycoprotein (transmembrane) nmb affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 38379_at 38379_at glycoprotein (transmembrane) nmb_GPNMB GPNMB down FTC PTC;Norm 9 19 provided by authors 15337802 25 34 1593 10458 BAIAP2 BAI1-associated protein 2 affy_probe_2_Entrez 1 1 55 3.4 up 1 0 1/0 3.4 1 55 3.40 3.40 209502_s_at 209502_s_at BAI1-associated protein 2 BAIAP2 3.398 3.40 up 0.018405073 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 9 14 632 10492 SYNCRIP synaptotagmin binding, cytoplasmic RNA interacting protein affy_probe_2_Entrez 1 1 24 -2.98 down 1 0 0/1 -2.98 1 24 -2.98 -2.98 209025_s_at 209025_s_at NS1-associated protein 1 -2.98 -2.98 down 0.000001 FA FTC 12 12 provided by authors 15713710 13 20 934 10516 FBLN5 fibulin 5 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 down 1 0 0/1 0 0 0 0 0 AF093118 AF093118 Fibulin 5 FBLN5 down FTC FA 9 10 publication 12738736 24 33 1455 10551 AGR2 anterior gradient 2 homolog (Xenopus laevis) Gene_symbol_2_NCBI_Entrez 1 1 32 13.93 up 1 0 1/0 13.93 1 32 13.93 13.93 Anterior gradient 2 homologue (Xenopus laevis) AGR2 3.8 13.93 up PTC Norm 16 16 publication 15735049 13 20 960 10558 SPTLC1 serine palmitoyltransferase, long chain base subunit 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 down 1 0 0/1 0 0 0 0 0 Y08685 Y08685 Serine palmitoyltransferase, long chain base subunit 1 SPTLC1 down FTC FA 9 10 publication 12738736 24 33 1451 10568 SLC34A2 solute carrier family 34 (sodium phosphate), member 2 Gene_symbol_2_NCBI_Entrez 1 1 32 18.57 up 1 0 1/0 18.57 1 32 18.57 18.57 Solute carrier family 34 (sodium phosphate), member 2 SLC34A2 4.215 18.57 up PTC Norm 16 16 publication 15735049 24 33 1496 10577 NPC2 Niemann-Pick disease, type C2 Gene_symbol_2_NCBI_Entrez 2 2 87 5.18 up 2 0 2/0 2.59 2 87 2.64 2.54 Niemann-Pick disease, type C2 NPC2 1.4 2.64 up PTC Norm 16 16 publication 15735049 25 34 1613 10577 NPC2 Niemann-Pick disease, type C2 affy_probe_2_Entrez 2 2 87 5.18 up 2 0 2/0 2.59 2 87 2.64 2.54 200701_at 200701_at Niemann-Pick disease, type C2 NPC2 2.536 2.54 up 5.9102E-08 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 13 20 871 10602 CDC42EP3 CDC42 effector protein (Rho GTPase binding) 3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 AF094521 AF094521 Cdc42 effector protein 3 CEP3 up FTC FA 9 10 publication 12738736 13 20 883 10616 C20orf18 chromosome 20 open reading frame 18 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 AA160708 AA160708 HBV-associated factor XAP4 up FTC FA 9 10 publication 12738736 14 21 996 10638 SPHAR S-phase response (cyclin-related) Gene_symbol_2_NCBI_Entrez 1 1 14 0 up 1 0 1/0 0 0 0 0 0 SPHAR gene for cyclin-related protein SPHAR up PTC Norm 7 7 publication The gene name for this entry was determined manually from the description 15041723 8 13 579 10653 SPINT2 serine protease inhibitor, Kunitz type, 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 2.06 up 1 0 1/0 2.06 1 2 2.06 2.06 U78095 U78095 Bikunin; hepatocyte growth factor activator inhibitor 2 2.06 2.06 up M-ACL ACL 1 1 publication 15579771 2 4 99 10658 CUGBP1 CUG triplet repeat, RNA binding protein 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -7.6 down 1 0 0/1 -7.6 1 2 -7.60 -7.60 NM_006560 NM_006560 CUG triplet repeat, RNA binding protein 1 CUGBP1 7.6 -7.60 down PCL Norm 1 1 publication 15785240 13 20 917 10695 TNRC5 trinucleotide repeat containing 5 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 U80744 U80744 Trinucleotide repeat containing 5 TNRC5 up FTC FA 9 10 publication 12738736 15 23 1079 10724 MGEA5 meningioma expressed antigen 5 (hyaluronidase) Gene_symbol_2_NCBI_Entrez 1 1 5 5 up 1 0 1/0 5 1 5 5.00 5.00 Meningioma expressed antigen 5 (hyaluronidase) MGEA5 5 5.00 up FVPTC PTC 3 2 publication 15475448 24 33 1530 10732 TCFL5 transcription factor-like 5 (basic helix-loop-helix) Gene_symbol_2_NCBI_Entrez 1 1 32 -2.01 down 1 0 0/1 -2.01 1 32 -2.01 -2.01 Transcription factor-like 5 (basic helix-loop-helix) TCFL5 -1.01 -2.01 down PTC Norm 16 16 publication 15735049 4 7 243 10768 AHCYL1 S-adenosylhomocysteine hydrolase-like 1 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 34728_g_at 34728_g_at S-adenosylhomocysteine hydrolase-like 1_AHCYL1 AHCYL1 down FTC PTC;Norm 9 19 provided by authors 15337802 15 22 1033 10769 PLK2 polo-like kinase 2 (Drosophila) Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 7 -2 down 1 0 0/1 -2 1 7 -2.00 -2.00 Serum-inducible SNK 0.5 -2.00 down FTC FA 3 4 publication 15475448 4 7 233 10771 ZMYND11 zinc finger, MYND domain containing 11 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 33864_at 33864_at adenovirus 5 E1A binding protein_BS69 BS69 down FTC PTC;Norm 9 19 provided by authors 15337802 25 34 1641 10778 ZNF271 zinc finger protein 271 affy_probe_2_Entrez 1 1 55 -2.07 down 1 0 0/1 -2.07 1 55 -2.07 -2.07 211009_s_at 211009_s_at zinc finger protein 271 ZNF271 -2.068 -2.07 down 0.000422955 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 13 20 898 10797 MTHFD2 methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2, methenyltetrahydrofolate cyclohydrolase clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 X16396 X16396 Methylene tetrahydrofolate dehydrogenase (NADdependent), methenyltetrahydrofolate cyclohydrolase MTHFD2 up FTC FA 9 10 publication 12738736 2 2 62 10847 SRCAP Snf2-related CBP activator protein clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -10.6 down 1 0 0/1 -10.6 1 2 -10.60 -10.60 NM_006662 NM_006662 Snf2-related CBP activator protein SRCAP 10.6 -10.60 down FCL Norm 1 1 publication 15785240 3 6 140 10875 FGL2 fibrinogen-like 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 16 -2.3 down 1 0 0/1 -2.3 1 16 -2.30 -2.30 Z36531 Z36531 Fibrinogen-like protein (pT49 protein) FGL2 -2.3 -2.30 down no 0.0004 PTC Norm 8 8 suppl. materials 11752453 25 34 1739 10894 XLKD1 extracellular link domain containing 1 affy_probe_2_Entrez 1 1 55 -5.96 down 1 0 0/1 -5.96 1 55 -5.96 -5.96 220037_s_at 220037_s_at extracellular link domain containing 1 XLKD1 -4.832 -4.83 down 7.11835E-06 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1753 10894 XLKD1 extracellular link domain containing 1 affy_probe_2_Entrez 1 1 55 -5.96 down 1 0 0/1 -5.96 1 55 -5.96 -5.96 219059_s_at 219059_s_at extracellular link domain containing 1 XLKD1 -5.956 -5.96 down 1.27637E-09 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 23 1126 10943 MSL3L1 male-specific lethal 3-like 1 (Drosophila) Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Male-specific lethal 3-like 1 (Drosophila) MSL3L1 3 3.00 up FVPTC PTC 3 2 publication 15475448 25 34 1603 10963 STIP1 stress-induced-phosphoprotein 1 (Hsp70/Hsp90-organizing protein) affy_probe_2_Entrez 1 1 55 2.95 up 1 0 1/0 2.95 1 55 2.95 2.95 213330_s_at 213330_s_at stress-induced-phosphoprotein 1 (Hsp70/Hsp90-organizing protein) STIP1 2.954 2.95 up 0.028822821 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1624 10973 ASCC3 activating signal cointegrator 1 complex subunit 3 affy_probe_2_Entrez 1 1 55 2.27 up 1 0 1/0 2.27 1 55 2.27 2.27 212815_at 212815_at activating signal cointegrator 1 complex subunit 3 ASCC3 2.274 2.27 up 0.029602255 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 7 225 10974 C10orf116 chromosome 10 open reading frame 116 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 32527_at 32527_at adipose specific 2_APM2 APM2 down FTC PTC;Norm 9 19 provided by authors 15337802 15 22 1056 10989 IMMT inner membrane protein, mitochondrial (mitofilin) Gene_symbol_2_NCBI_Entrez 1 1 7 -5 down 1 0 0/1 -5 1 7 -5.00 -5.00 Inner membrane protein, mitochondrial IMMT 0.2 -5.00 down FTC FA 3 4 publication 15475448 14 21 974 11004 KIF2C kinesin family member 2C clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 3.2 up 1 0 1/0 3.2 1 14 3.20 3.20 AA400476 AA400476 Mitotic centromere-associated kinesin 3.2 3.20 up PTC Norm 7 7 publication 15041723 4 7 289 11030 RBPMS RNA binding protein with multiple splicing affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 34163_g_at 34163_g_at RNA binding protein with multiple splicing_RBPMS RBPMS down FTC PTC;Norm 9 19 provided by authors 15337802 15 23 1161 11033 CENTA1 centaurin, alpha 1 Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Centaurin, alpha 1 CENTA1 2 2.00 up FVPTC PTC 3 2 publication 15475448 11 18 758 11034 DSTN destrin (actin depolymerizing factor) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 NM_006870 NM_006870 DSTN-destrin (actin depolymerizing factor) up yes yes ACL;ATC Norm 21 10 publication 15613457 10 16 727 11039 SMA4 SMA4 affy_probe_2_Entrez 1 1 14 -2.74 down 1 0 0/1 -2.74 1 14 -2.74 -2.74 32921_at 32921_at SMA4 SMA4 -2.74 -2.74 down yes PTC GT 8 6 publication 15515157 13 20 954 11072 DUSP14 dual specificity phosphatase 14 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 down 1 0 0/1 0 0 0 0 0 AF038844 AF038844 MKP-1 like protein kinase phosphatase MKP-L down FTC FA 9 10 publication 12738736 24 33 1478 11098 PRSS23 protease, serine, 23 Gene_symbol_2_NCBI_Synonym_2_Entrez 2 2 48 11.42 up 2 0 2/0 5.71 2 48 6.70 4.72 Protease, serine, 23 SPUVE 2.24 4.72 up PTC Norm 16 16 publication 15735049 3 6 126 11098 PRSS23 protease, serine, 23 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 48 11.42 up 2 0 2/0 5.71 2 48 6.70 4.72 AF015287 AF015287 Serine protease SPUVE 6.7 6.70 up no 0.0002 PTC Norm 8 8 suppl. materials 11752453 2 3 89 11140 CDC37 CDC37 cell division cycle 37 homolog (S. cerevisiae) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 4 4.3 up 1 0 1/0 4.3 1 4 4.30 4.30 NM_007065 NM_007065 Cell division cycle 37 homologue CDC37 4.3 4.30 up FCL;PCL;UCL Norm 3 1 publication 15785240 13 20 918 11170 TU3A TU3A protein clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 AF035283 AF035283 TU3A protein TU3A up FTC FA 9 10 publication 12738736 25 34 1622 11177 BAZ1A bromodomain adjacent to zinc finger domain, 1A affy_probe_2_Entrez 1 1 55 2.31 up 1 0 1/0 2.31 1 55 2.31 2.31 217986_s_at 217986_s_at bromodomain adjacent to zinc finger domain, 1A BAZ1A 2.305 2.31 up 0.022075114 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 16 24 1221 11183 MAP4K5 mitogen-activated protein kinase kinase kinase kinase 5 Gene_symbol_2_NCBI_Entrez 1 1 63 -1.64 down 1 0 0/1 -1.64 1 63 -1.64 -1.64 MAP4K5 0.610062893 -1.64 down 0.04 PTC;FVPTC FA;HN 32 31 publication 15087409 24 33 1514 11237 RNF24 ring finger protein 24 Gene_symbol_2_NCBI_Entrez 1 1 32 1.55 up 1 0 1/0 1.55 1 32 1.55 1.55 Ring finger protein 24 RNF24 0.63 1.55 up PTC Norm 16 16 publication 15735049 25 34 1623 11275 KLHL2 kelch-like 2, Mayven (Drosophila) affy_probe_2_Entrez 1 1 55 2.3 up 1 0 1/0 2.3 1 55 2.30 2.30 219157_at 219157_at kelch-like 2, Mayven (Drosophila) KLHL2 2.305 2.30 up 0.005690622 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1561 11322 EVER1 epidermodysplasia verruciformis 1 affy_probe_2_Entrez 1 1 55 8.08 up 1 0 1/0 8.08 1 55 8.08 8.08 204328_at 204328_at epidermodysplasia verruciformis 1 EVER1 8.079 8.08 up 3.21272E-07 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 11 18 809 11332 BACH brain acyl-CoA hydrolase clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 U91316 U91316 Acyl-CoA thioester hydrolase down ACL;ATC Norm 21 10 publication 15613457 1 1 23 11333 PDAP1 PDGFA associated protein 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -2.17 down 1 0 0/1 -2.17 1 2 -2.17 -2.17 U41745 U41745 PDGF-associated protein 0.46 -2.17 down M FTC 1 1 publication RT-PCR done for GAPDH, CDC-RPK, c-fos, Gelatinase A, IGFBP) 11272096 13 20 955 22795 NID2 nidogen 2 (osteonidogen) clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 22 0 even 1 1 1/1 0 0 0 0 0 D86425 D86425 Nidogen 2 NID2 down FTC FA 9 10 publication 12738736 5 9 378 22795 NID2 nidogen 2 (osteonidogen) tag_2_refseq_or_mgc_2_Entrez 2 2 22 0 even 1 1 1/1 0 0 0 0 0 TGATCAATAT TGATCAATAT NID2 up no FA FTC;Norm 1 2 publication 15085203 13 20 863 22809 ATF5 activating transcription factor 5 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 AB021663 AB021663 Activating transcription factor 5 ATF5 up FTC FA 9 10 publication 12738736 25 34 1672 22848 AAK1 AP2 associated kinase 1 affy_probe_2_Entrez 1 1 55 -2.62 down 1 0 0/1 -2.62 1 55 -2.62 -2.62 205434_s_at 205434_s_at AP2 associated kinase 1 AAK1 -2.622 -2.62 down 0.014039369 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 9 14 637 22882 ZHX2 zinc fingers and homeoboxes 2 affy_probe_2_Entrez 1 1 24 -3.09 down 1 0 0/1 -3.09 1 24 -3.09 -3.09 203556_at 203556_at KIAA0854 protein -3.09 -3.09 down 0.000038 FA FTC 12 12 provided by authors 15713710 13 20 894 22885 ABLIM3 actin binding LIM protein family, member 3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 AB020650 AB020650 KIAA0843 protein KIAA0843 up FTC FA 9 10 publication 12738736 9 14 623 22902 RIPX rap2 interacting protein x affy_probe_2_Entrez 1 1 24 -2.8 down 1 0 0/1 -2.8 1 24 -2.80 -2.80 213939_s_at 213939_s_at KIAA0871 protein -2.8 -2.80 down 0.000288 FA FTC 12 12 provided by authors 15713710 25 34 1703 22915 MMRN1 multimerin 1 affy_probe_2_Entrez 1 1 55 -3.22 down 1 0 0/1 -3.22 1 55 -3.22 -3.22 205612_at 205612_at multimerin 1 MMRN1 -3.219 -3.22 down 9.8325E-07 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 8 13 543 22919 MAPRE1 microtubule-associated protein, RP/EB family, member 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 4.9 up 1 0 1/0 4.9 1 2 4.90 4.90 U24166 U24166 EB1 protein 4.9 4.90 up M-ACL ACL 1 1 publication 15579771 25 34 1653 22921 MSRB2 methionine sulfoxide reductase B2 affy_probe_2_Entrez 1 1 55 -2.24 down 1 0 0/1 -2.24 1 55 -2.24 -2.24 218773_s_at 218773_s_at methionine sulfoxide reductase B MSRB -2.237 -2.24 down 0.001408171 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1719 22925 PLA2R1 phospholipase A2 receptor 1, 180kDa affy_probe_2_Entrez 1 1 55 -4.6 down 1 0 0/1 -4.6 1 55 -4.60 -4.60 210194_at 210194_at phospholipase A2 receptor 1, 180kDa PLA2R1 -3.657 -3.66 down 0.000561768 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1731 22925 PLA2R1 phospholipase A2 receptor 1, 180kDa affy_probe_2_Entrez 1 1 55 -4.6 down 1 0 0/1 -4.6 1 55 -4.60 -4.60 207415_at 207415_at phospholipase A2 receptor 1, 180kDa PLA2R1 -4.600 -4.60 down 1.04937E-09 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 23 1127 22938 SKIIP SKI interacting protein Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 SKI-interacting protein SNW1 3 3.00 up FVPTC PTC 3 2 publication 15475448 25 34 1680 22941 SHANK2 SH3 and multiple ankyrin repeat domains 2 affy_probe_2_Entrez 1 1 55 -5.01 down 1 0 0/1 -5.01 1 55 -5.01 -5.01 213307_at 213307_at SH3 and multiple ankyrin repeat domains 2 SHANK2 -2.774 -2.77 down 0.000303351 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1742 22941 SHANK2 SH3 and multiple ankyrin repeat domains 2 affy_probe_2_Entrez 1 1 55 -5.01 down 1 0 0/1 -5.01 1 55 -5.01 -5.01 213308_at 213308_at SH3 and multiple ankyrin repeat domains 2 SHANK2 -5.010 -5.01 down 3.32102E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 24 33 1518 22976 PAXIP1 PAX interacting (with transcription-activation domain) protein 1 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 32 -1.38 down 1 0 0/1 -1.38 1 32 -1.38 -1.38 PAX transcription activation domain interacting protein 1-like PAXIP1L -0.465 -1.38 down PTC Norm 16 16 publication 15735049 25 34 1657 23005 MAPKBP1 mitogen activated protein kinase binding protein 1 affy_probe_2_Entrez 1 1 55 -2.27 down 1 0 0/1 -2.27 1 55 -2.27 -2.27 213394_at 213394_at likely ortholog of mouse mitogen activated protein kinase binding proten 1 MAPKBP1 -2.274 -2.27 down 0.015438141 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 18 31 1369 23007 PLCL3 phospholipase C-like 3 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 114 -5.5 down 2 0 0/2 -2.75 2 114 -2.20 -3.30 AB028992 AB028992 KIAA1069 protein KIAA1069 2.2 -2.20 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1705 23007 PLCL3 phospholipase C-like 3 affy_probe_2_Entrez 2 2 114 -5.5 down 2 0 0/2 -2.75 2 114 -2.20 -3.30 214745_at 214745_at phospholipase C-like 3 PLCL3 -3.296 -3.30 down 0.009969013 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1583 23043 TNIK TRAF2 and NCK interacting kinase affy_probe_2_Entrez 1 1 55 3.16 up 1 0 1/0 3.16 1 55 3.16 3.16 211828_s_at 211828_s_at TRAF2 and NCK interacting kinase TNIK 4.317 4.32 up 7.49126E-06 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1600 23043 TNIK TRAF2 and NCK interacting kinase affy_probe_2_Entrez 1 1 55 3.16 up 1 0 1/0 3.16 1 55 3.16 3.16 213107_at 213107_at TRAF2 and NCK interacting kinase TNIK 3.158 3.16 up 0.001257775 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 24 33 1508 23052 KIAA0830 KIAA0830 protein Gene_symbol_2_NCBI_Entrez 2 2 60 2.01 even 1 1 1/1 2.01 1 32 2.01 2.01 KIAA0830 protein KIAA0830 1.01 2.01 up PTC Norm 16 16 publication 15735049 4 7 283 23052 KIAA0830 KIAA0830 protein affy_probe_2_Entrez 2 2 60 2.01 even 1 1 1/1 2.01 1 32 2.01 2.01 40455_at 40455_at KIAA0830 protein_KIAA0830 KIAA0830 down FTC PTC;Norm 9 19 provided by authors 15337802 13 20 901 23089 PEG10 paternally expressed 10 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 83 4.4 up 3 0 3/0 2.2 2 64 2.40 2.00 AB028974 AB028974 Paternally expressed 10 PEG10 up FTC FA 9 10 publication 12738736 15 23 1181 23089 PEG10 paternally expressed 10 Gene_symbol_2_NCBI_Entrez 3 3 83 4.4 up 3 0 3/0 2.2 2 64 2.40 2.00 PateRNAlly expressed 10 PEG10 2 2.00 up FVPTC PTC 3 2 publication 15475448 18 31 1350 23089 PEG10 paternally expressed 10 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 83 4.4 up 3 0 3/0 2.2 2 64 2.40 2.00 AB028974 AB028974 KIAA1051 protein KIAA1051 2.4 2.40 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 9 14 690 23150 FRMD4B FERM domain containing 4B affy_probe_2_Entrez 1 1 24 -4.66 down 1 0 0/1 -4.66 1 24 -4.66 -4.66 213056_at 213056_at KIAA1013 protein -4.66 -4.66 down 0.002559 FA FTC 12 12 provided by authors 15713710 4 7 296 23167 KIAA0143 KIAA0143 protein affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 38472_at 38472_at KIAA0143 protein_KIAA0143 KIAA0143 down FTC PTC;Norm 9 19 provided by authors 15337802 16 24 1235 23171 GPD1L glycerol-3-phosphate dehydrogenase 1-like Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 63 -1.88 down 1 0 0/1 -1.88 1 63 -1.88 -1.88 KIAA0089 0.531468531 -1.88 down 0.03 PTC;FVPTC FA;HN 32 31 publication 15087409 25 34 1650 23177 KIAA0582 KIAA0582 affy_probe_2_Entrez 1 1 55 -2.21 down 1 0 0/1 -2.21 1 55 -2.21 -2.21 212677_s_at 212677_s_at KIAA0582 KIAA0582 -2.211 -2.21 down 0.019167189 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 13 20 949 23180 RAFTLIN raft-linking protein clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 43 -3.27 down 2 0 0/2 -3.27 1 24 -3.27 -3.27 D42043 D42043 KIAA0084 protein KIAA0084 down FTC FA 9 10 publication 12738736 9 14 650 23180 RAFTLIN raft-linking protein affy_probe_2_Entrez 2 2 43 -3.27 down 2 0 0/2 -3.27 1 24 -3.27 -3.27 212646_at 212646_at KIAA0084 protein -3.27 -3.27 down 0.000001 FA FTC 12 12 provided by authors 15713710 15 23 1171 23208 SYT11 synaptotagmin XI Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Synaptotagmin XI SYT11 2 2.00 up FVPTC PTC 3 2 publication 15475448 24 33 1470 23220 DTX4 deltex 4 homolog (Drosophila) Gene_symbol_2_NCBI_Synonym_2_Entrez 3 3 76 9.62 up 3 0 3/0 4.81 2 48 5.62 4.00 KIAA0937 protein KIAA0937 2.49 5.62 up PTC Norm 16 16 publication 15735049 3 6 134 23220 DTX4 deltex 4 homolog (Drosophila) clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 76 9.62 up 3 0 3/0 4.81 2 48 5.62 4.00 AB023154 AB023154 KIAA0937 KIAA0937 4 4.00 up no 0.0001 PTC Norm 8 8 suppl. materials 11752453 4 8 333 23220 DTX4 deltex 4 homolog (Drosophila) affy_probe_2_Entrez 3 3 76 9.62 up 3 0 3/0 4.81 2 48 5.62 4.00 35369_at 35369_at macrophage expressed gene 1_MPEG1 MPEG1 up PTC FTC;Norm 6 22 provided by authors 15337802 18 31 1380 23231 KIAA0746 KIAA0746 protein clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 59 2.1 up 1 0 1/0 2.1 1 59 2.10 2.10 AB018289 AB018289 KIAA0746 protein KIAA0746 2.1 2.10 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1596 23250 ATP11A ATPase, Class VI, type 11A affy_probe_2_Entrez 2 2 79 0.18 even 1 1 1/1 0.0899999999999999 2 79 3.30 -3.12 216488_s_at 216488_s_at ATPase, Class VI, type 11A ATP11A 3.296 3.30 up 0.037241031 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 9 14 641 23250 ATP11A ATPase, Class VI, type 11A affy_probe_2_Entrez 2 2 79 0.18 even 1 1 1/1 0.0899999999999999 2 79 3.30 -3.12 213582_at 213582_at ATPase, Class VI, type 11A -3.12 -3.12 down 0.004345 FA FTC 12 12 provided by authors 15713710 4 7 259 23266 LPHN2 latrophilin 2 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 34174_s_at 34174_s_at latrophilin 2_LPHN2 LPHN2 down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 274 23270 TSPYL4 TSPY-like 4 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 33835_at 33835_at TSPY-like 4_TSPYL4 TSPYL4 down FTC PTC;Norm 9 19 provided by authors 15337802 16 24 1217 23272 RAP140 retinoblastoma-associated protein 140 Gene_symbol_2_NCBI_Entrez 1 1 63 -1.6 down 1 0 0/1 -1.6 1 63 -1.60 -1.60 RAP140 0.625 -1.60 down 0.01 PTC;FVPTC FA;HN 32 31 publication 15087409 25 34 1734 23345 SYNE1 spectrin repeat containing, nuclear envelope 1 affy_probe_2_Entrez 1 1 55 -4.63 down 1 0 0/1 -4.63 1 55 -4.63 -4.63 215350_at 215350_at spectrin repeat containing, nuclear envelope 1 SYNE1 -4.629 -4.63 down 2.471E-09 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 18 31 1368 23348 DOCK9 dedicator of cytokinesis 9 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 142 4.94 up 3 0 3/0 2.47 2 114 2.74 2.20 AB028981 AB028981 KIAA1058 protein KIAA1058 2.2 2.20 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 25 34 1608 23348 DOCK9 dedicator of cytokinesis 9 affy_probe_2_Entrez 3 3 142 4.94 up 3 0 3/0 2.47 2 114 2.74 2.20 212538_at 212538_at dedicator of cytokinesis 9 DOCK9 2.740 2.74 up 0.00395343 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 8 353 23348 DOCK9 dedicator of cytokinesis 9 affy_probe_2_Entrez 3 3 142 4.94 up 3 0 3/0 2.47 2 114 2.74 2.20 37571_at 37571_at zizimin1_zizimin1 zizimin1 up PTC FTC;Norm 6 22 provided by authors 15337802 18 31 1335 23362 PSD3 pleckstrin and Sec7 domain containing 3 clone_accession_2_NCBI_rna_accession_2_Entrez 3 3 146 11.97 up 3 0 3/0 3.99 3 146 5.50 2.70 AB023159 AB023159 KIAA0942 protein KIAA0942 2.7 2.70 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1485 23362 PSD3 pleckstrin and Sec7 domain containing 3 Gene_symbol_2_NCBI_Synonym_2_Entrez 3 3 146 11.97 up 3 0 3/0 3.99 3 146 5.50 2.70 Hypothetical protein DKFZp761K1423 DKFZp761K1423 1.915 3.77 up PTC Norm 16 16 publication 15735049 25 34 1560 23362 PSD3 pleckstrin and Sec7 domain containing 3 affy_probe_2_Entrez 3 3 146 11.97 up 3 0 3/0 3.99 3 146 5.50 2.70 203354_s_at 203354_s_at pleckstrin and Sec7 domain containing 3 PSD3 8.253 8.25 up 0.007461741 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1572 23362 PSD3 pleckstrin and Sec7 domain containing 3 affy_probe_2_Entrez 3 3 146 11.97 up 3 0 3/0 3.99 3 146 5.50 2.70 218613_at 218613_at pleckstrin and Sec7 domain containing 3 PSD3 5.726 5.73 up 1.1507E-08 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1575 23362 PSD3 pleckstrin and Sec7 domain containing 3 affy_probe_2_Entrez 3 3 146 11.97 up 3 0 3/0 3.99 3 146 5.50 2.70 203355_s_at 203355_s_at pleckstrin and Sec7 domain containing 3 PSD3 5.503 5.50 up 2.71768E-07 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 23 1119 23365 ARHGEF12 Rho guanine nucleotide exchange factor (GEF) 12 Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Rho guanine exchange factor (GEF) 12 ARHGEF12 3 3.00 up FVPTC PTC 3 2 publication 15475448 13 20 893 23367 LARP1 La ribonucleoprotein domain family, member 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 AB018274 AB018274 KIAA0731 protein KIAA0731 up FTC FA 9 10 publication 12738736 25 34 1599 23381 EST1B Est1p-like protein B affy_probe_2_Entrez 1 1 55 3.17 up 1 0 1/0 3.17 1 55 3.17 3.17 212147_at 212147_at Est1p-like protein B EST1B 3.172 3.17 up 0.007667858 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 23 1157 23413 FREQ frequenin homolog (Drosophila) Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Frequenin (Drosophila) homolog FREQ 2 2.00 up FVPTC PTC 3 2 publication 15475448 25 34 1745 23414 ZFPM2 zinc finger protein, multitype 2 affy_probe_2_Entrez 1 1 55 -5.16 down 1 0 0/1 -5.16 1 55 -5.16 -5.16 219778_at 219778_at zinc finger protein, multitype 2 ZFPM2 -5.161 -5.16 down 0.00053732 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 12 19 853 23468 CBX5 chromobox homolog 5 (HP1 alpha homolog, Drosophila) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 21 -2.04 down 1 0 0/1 -2.04 1 21 -2.04 -2.04 L07515 L07515 HP1-alpha 0.49 -2.04 down PTC Norm 18 3 publication 12538453 9 14 617 23469 PHF3 PHD finger protein 3 affy_probe_2_Entrez 1 1 24 -2.68 down 1 0 0/1 -2.68 1 24 -2.68 -2.68 215718_s_at 215718_s_at PHD finger protein 3 -2.68 -2.68 down 0.000017 FA FTC 12 12 provided by authors 15713710 11 18 833 23471 TRAM1 translocation associated membrane protein 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 X63679 X63679 TRAMP protein down ACL;ATC Norm 21 10 publication 15613457 4 7 282 23492 CBX7 chromobox homolog 7 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 36894_at 36894_at chromobox homolog 7_CBX7 CBX7 down FTC PTC;Norm 9 19 provided by authors 15337802 16 24 1243 23516 SLC39A14 solute carrier family 39 (zinc transporter), member 14 Gene_symbol_2_NCBI_Synonym_2_Entrez 2 2 122 -4.24 down 2 0 0/2 -2.12 2 122 -2.00 -2.24 KIAA0062 0.446601942 -2.24 down 0.001 PTC;FVPTC FA;HN 32 31 publication 15087409 18 31 1398 23516 SLC39A14 solute carrier family 39 (zinc transporter), member 14 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 122 -4.24 down 2 0 0/2 -2.12 2 122 -2.00 -2.24 D31887 D31887 KIAA0062 gene KIAA0062 2 -2.00 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 15 22 1030 23544 SEZ6L seizure related 6 homolog (mouse)-like Gene_symbol_2_NCBI_Entrez 1 1 7 2 up 1 0 1/0 2 1 7 2.00 2.00 Seizure related gene 6 (mouse)-like SEZ6L 2 2.00 up FTC FA 3 4 publication 15475448 24 33 1520 23609 MKRN2 makorin, ring finger protein, 2 Gene_symbol_2_NCBI_Entrez 1 1 32 -1.44 down 1 0 0/1 -1.44 1 32 -1.44 -1.44 Makorin, ring finger protein, 2 MKRN2 -0.525 -1.44 down PTC Norm 16 16 publication 15735049 9 14 664 23635 SSBP2 single-stranded DNA binding protein 2 affy_probe_2_Entrez 1 1 24 -3.61 down 1 0 0/1 -3.61 1 24 -3.61 -3.61 210829_s_at 210829_s_at single-stranded DNA binding protein 2 -3.61 -3.61 down 0.009525 FA FTC 12 12 provided by authors 15713710 4 7 197 23641 LDOC1 leucine zipper, down-regulated in cancer 1 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 39967_at 39967_at leucine zipper, down-regulated in cancer 1_LDOC1 LDOC1 down FTC PTC;Norm 9 19 provided by authors 15337802 25 34 1716 23645 PPP1R15A protein phosphatase 1, regulatory (inhibitor) subunit 15A affy_probe_2_Entrez 1 1 55 -3.57 down 1 0 0/1 -3.57 1 55 -3.57 -3.57 37028_at 37028_at protein phosphatase 1, regulatory (inhibitor) subunit 15A PPP1R15A -3.571 -3.57 down 0.002055442 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 13 20 913 23646 PLD3 phospholipase D family, member 3 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 47 0 up 2 0 2/0 0 0 0 0 0 U60644 U60644 Similar to vaccinia virus HindIII K4L ORF HU_K4 up FTC FA 9 10 publication 12738736 4 8 361 23646 PLD3 phospholipase D family, member 3 affy_probe_2_Entrez 2 2 47 0 up 2 0 2/0 0 0 0 0 0 36151_at 36151_at phospholipase D3_PLD3 PLD3 up PTC FTC;Norm 6 22 provided by authors 15337802 14 21 968 23649 POLA2 polymerase (DNA directed), alpha 2 (70kD subunit) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 37 up 1 0 1/0 37 1 14 37.00 37.00 AA486289 AA486289 DNA polymerase 37 37.00 up PTC Norm 7 7 publication 15041723 4 7 297 23654 PLXNB2 plexin B2 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 34780_at 34780_at plexin B2_PLXNB2 PLXNB2 down FTC PTC;Norm 9 19 provided by authors 15337802 13 20 941 23673 STX12 syntaxin 12 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 47 0 down 2 0 0/2 0 0 0 0 0 AL035306 AL035306 Hypothetical protein MGC14797 MCG14797 down FTC FA 9 10 publication 12738736 4 7 269 23673 STX12 syntaxin 12 affy_probe_2_Entrez 2 2 47 0 down 2 0 0/2 0 0 0 0 0 38685_at 38685_at syntaxin 12_STX12 STX12 down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 181 23705 IGSF4 immunoglobulin superfamily, member 4 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 35829_at 35829_at immunoglobulin superfamily, member 4_IGSF4 IGSF4 down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 215 23705 IGSF4 immunoglobulin superfamily, member 4 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 37929_at 37929_at immunoglobulin superfamily, member 4_IGSF4 IGSF4 down FTC PTC;Norm 9 19 provided by authors 15337802 9 14 625 23741 CRI1 CREBBP/EP300 inhibitor 1 affy_probe_2_Entrez 1 1 24 -2.84 down 1 0 0/1 -2.84 1 24 -2.84 -2.84 208670_s_at 208670_s_at CREBBP/EP300 inhibitory protein 1 -2.84 -2.84 down 0.000004 FA FTC 12 12 provided by authors 15713710 24 33 1492 23767 FLRT3 fibronectin leucine rich transmembrane protein 3 Gene_symbol_2_NCBI_Entrez 1 1 32 2.85 up 1 0 1/0 2.85 1 32 2.85 2.85 Fibronectin leucine-rich transmembrane protein 3 FLRT3 1.51 2.85 up PTC Norm 16 16 publication 15735049 11 18 840 25770 HS747E2A hypothetical protein HS747E2A clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 AL035364 AL035364 HS747E2A hypothetical protein HS747E2A down ACL;ATC Norm 21 10 publication 15613457 15 23 1182 25787 DGCR9 DiGeorge syndrome critical region gene 9 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 DiGeorge syndrome gene A DGS-A 2 2.00 up FVPTC PTC 3 2 publication 15475448 15 22 1021 25797 QPCT glutaminyl-peptide cyclotransferase (glutaminyl cyclase) Gene_symbol_2_NCBI_Entrez 4 4 153 29.25 up 4 0 4/0 7.3125 4 153 11.67 3.40 Glutaminyl-peptide cyclotransferase QPCT 4 4.00 up FTC FA 3 4 publication 15475448 18 31 1316 25797 QPCT glutaminyl-peptide cyclotransferase (glutaminyl cyclase) clone_accession_2_NCBI_rna_accession_2_Entrez 4 4 153 29.25 up 4 0 4/0 7.3125 4 153 11.67 3.40 X71125 X71125 Glutamine cyclotransferase GCT 3.4 3.40 up FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1458 25797 QPCT glutaminyl-peptide cyclotransferase (glutaminyl cyclase) Gene_symbol_2_NCBI_Entrez 4 4 153 29.25 up 4 0 4/0 7.3125 4 153 11.67 3.40 Glutaminyl-peptide cyclotransferase (glutaminyl cyclase) QPCT 3.545 11.67 up PTC Norm 16 16 publication 15735049 25 34 1556 25797 QPCT glutaminyl-peptide cyclotransferase (glutaminyl cyclase) affy_probe_2_Entrez 4 4 153 29.25 up 4 0 4/0 7.3125 4 153 11.67 3.40 205174_s_at 205174_s_at glutaminyl-peptide cyclotransferase (glutaminyl cyclase) QPCT 10.178 10.18 up 1.64137E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1714 25802 LMOD1 leiomodin 1 (smooth muscle) affy_probe_2_Entrez 1 1 55 -8.46 down 1 0 0/1 -8.46 1 55 -8.46 -8.46 211562_s_at 211562_s_at leiomodin 1 (smooth muscle) LMOD1 -3.518 -3.52 down 0.015264131 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1770 25802 LMOD1 leiomodin 1 (smooth muscle) affy_probe_2_Entrez 1 1 55 -8.46 down 1 0 0/1 -8.46 1 55 -8.46 -8.46 203766_s_at 203766_s_at leiomodin 1 (smooth muscle) LMOD1 -8.458 -8.46 down 7.9874E-07 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 13 20 957 25807 C22orf3 chromosome 22 open reading frame 3 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 down 1 0 0/1 0 0 0 0 0 AL031186 AL031186 Putative emu1 LOC129080 down FTC FA 9 10 publication 12738736 25 34 1682 25890 ABI3BP ABI gene family, member 3 (NESH) binding protein affy_probe_2_Entrez 2 2 58 -2.8 even 1 1 1/1 -2.8 1 55 -2.80 -2.80 220518_at 220518_at target of Nesh-SH3 TARSH -2.800 -2.80 down 0.006377425 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 5 9 376 25890 ABI3BP ABI gene family, member 3 (NESH) binding protein tag_2_refseq_or_mgc_2_Entrez 2 2 58 -2.8 even 1 1 1/1 -2.8 1 55 -2.80 -2.80 CTTCAATCTT CTTCAATCTT TARSH up no FA FTC;Norm 1 2 publication 15085203 24 33 1544 25928 SOSTDC1 sclerostin domain containing 1 Gene_symbol_2_NCBI_Entrez 1 1 32 -10.3 down 1 0 0/1 -10.3 1 32 -10.30 -10.30 Sclerostin domain containing 1 SOSTDC1 -3.365 -10.30 down PTC Norm 16 16 publication 15735049 25 34 1698 26018 LRIG1 leucine-rich repeats and immunoglobulin-like domains 1 affy_probe_2_Entrez 1 1 55 -3.12 down 1 0 0/1 -3.12 1 55 -3.12 -3.12 211596_s_at 211596_s_at leucine-rich repeats and immunoglobulin-like domains 1 /// leucine-rich repeats and immunoglobulin-like domains 1 LRIG1 -3.116 -3.12 down 0.005129109 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1771 26034 PIP3-E phosphoinositide-binding protein PIP3-E affy_probe_2_Entrez 1 1 55 -8.53 down 1 0 0/1 -8.53 1 55 -8.53 -8.53 214735_at 214735_at phosphoinositide-binding protein PIP3-E PIP3-E -8.534 -8.53 down 3.72471E-13 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1693 26040 SETBP1 SET binding protein 1 affy_probe_2_Entrez 1 1 55 -2.97 down 1 0 0/1 -2.97 1 55 -2.97 -2.97 205933_at 205933_at SET binding protein 1 SETBP1 -2.973 -2.97 down 0.007628938 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 7 180 26118 WSB1 WD repeat and SOCS box-containing 1 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 40928_at 40928_at SOCS box-containing WD protein SWiP-1_WSB1 WSB1 down FTC PTC;Norm 9 19 provided by authors 15337802 13 20 927 26130 GAPVD1 GTPase activating protein and VPS9 domains 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 down 1 0 0/1 0 0 0 0 0 AL080196 AL080196 DKFZP434C212 protein DKFZP434C212 down FTC FA 9 10 publication 12738736 4 7 287 26135 PAI-RBP1 PAI-1 mRNA binding protein affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 40441_g_at 40441_g_at PAI-1 mRNA-binding protein_PAI-RBP1 PAI-RBP1 down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 220 26137 ZBTB20 zinc finger and BTB domain containing 20 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 38211_at 38211_at zinc finger protein 288_ZNF288 ZNF288 down FTC PTC;Norm 9 19 provided by authors 15337802 2 2 70 26191 PTPN22 protein tyrosine phosphatase, non-receptor type 22 (lymphoid) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -7.8 down 1 0 0/1 -7.8 1 2 -7.80 -7.80 NM_012411 NM_012411 Protein tyrosine phosphatase, nonreceptor type 22 PTPN22 7.8 -7.80 down FCL Norm 1 1 publication 15785240 15 23 1109 26470 SEZ6L2 seizure related 6 homolog (mouse)-like 2 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Type I transmembrane receptor (seizure-related protein) PSK-1 3 3.00 up FVPTC PTC 3 2 publication 15475448 4 7 256 26471 P8 p8 protein (candidate of metastasis 1) affy_probe_2_Entrez 2 2 52 4.44 even 1 1 1/1 4.44 1 24 4.44 4.44 38754_at 38754_at p8 protein (candidate of metastasis 1)_P8 P8 down FTC PTC;Norm 9 19 provided by authors 15337802 9 14 607 26471 P8 p8 protein (candidate of metastasis 1) affy_probe_2_Entrez 2 2 52 4.44 even 1 1 1/1 4.44 1 24 4.44 4.44 209230_s_at 209230_s_at p8 protein (candidate of metastasis 1) 4.44 4.44 up 0.001643 FA FTC 12 12 provided by authors 15713710 25 34 1611 26503 SLC17A5 solute carrier family 17 (anion/sugar transporter), member 5 affy_probe_2_Entrez 1 1 55 2.58 up 1 0 1/0 2.58 1 55 2.58 2.58 221041_s_at 221041_s_at solute carrier family 17 (anion/sugar transporter), member 5 SLC17A5 2.582 2.58 up 0.028162674 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 7 271 26509 FER1L3 fer-1-like 3, myoferlin (C. elegans) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 34678_at 34678_at fer-1-like 3, myoferlin (C. elegans)_FER1L3 FER1L3 down FTC PTC;Norm 9 19 provided by authors 15337802 14 21 977 26578 OSTF1 osteoclast stimulating factor 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 2.9 up 1 0 1/0 2.9 1 14 2.90 2.90 AA283693 AA283693 Osteoclast-stimulating factor 2.9 2.90 up PTC Norm 7 7 publication 15041723 15 23 1086 27132 CPNE7 copine VII Gene_symbol_2_NCBI_Entrez 1 1 5 5 up 1 0 1/0 5 1 5 5.00 5.00 Copine VII CPNE7 5 5.00 up FVPTC PTC 3 2 publication 15475448 25 34 1576 27161 EIF2C2 eukaryotic translation initiation factor 2C, 2 affy_probe_2_Entrez 2 2 79 0.9 even 1 1 1/1 0.45 2 79 5.24 -4.34 222294_s_at 222294_s_at --- --- 5.237 5.24 up 7.86214E-06 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 9 14 687 27161 EIF2C2 eukaryotic translation initiation factor 2C, 2 affy_probe_2_Entrez 2 2 79 0.9 even 1 1 1/1 0.45 2 79 5.24 -4.34 222294_s_at 222294_s_at ESTs -4.34 -4.34 down 0.002698 FA FTC 12 12 provided by authors 15713710 13 20 952 27258 LSM3 LSM3 homolog, U6 small nuclear RNA associated (S. cerevisiae) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 down 1 0 0/1 0 0 0 0 0 N98670 N98670 LSM 3 protein LSM3 down FTC FA 9 10 publication 12738736 9 14 611 27333 GOLPH4 golgi phosphoprotein 4 affy_probe_2_Entrez 1 1 24 3.53 up 1 0 1/0 3.53 1 24 3.53 3.53 204324_s_at 204324_s_at golgi phosphoprotein 4 3.53 3.53 up 0.000843 FA FTC 12 12 provided by authors 15713710 13 20 920 27338 UBE2S ubiquitin-conjugating enzyme E2S clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 M91670 M91670 Ubiquitin carrier protein E2-EPF up FTC FA 9 10 publication 12738736 15 23 1170 27342 RABGEF1 RAB guanine nucleotide exchange factor (GEF) 1 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Putative Rab5 GDP/GTP exchange factor homologue RABEX5 2 2.00 up FVPTC PTC 3 2 publication 15475448 15 23 1106 27430 MAT2B methionine adenosyltransferase II, beta Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 Methionine adenosyltransferase II, beta MAT2B 3 3.00 up FVPTC PTC 3 2 publication 15475448 24 33 1460 28965 SLC27A6 solute carrier family 27 (fatty acid transporter), member 6 Gene_symbol_2_NCBI_Entrez 1 1 32 10.97 up 1 0 1/0 10.97 1 32 10.97 10.97 Solute carrier family 27 ( fatty acid transporter), member 6 SLC27A6 3.455 10.97 up PTC Norm 16 16 publication 15735049 15 23 1074 29115 HCNGP transcriptional regulator protein Gene_symbol_2_NCBI_Entrez 1 1 5 6 up 1 0 1/0 6 1 5 6.00 6.00 Transcriptional regulator protein HCNGP 6 6.00 up FVPTC PTC 3 2 publication 15475448 25 34 1685 29118 DDX25 DEAD (Asp-Glu-Ala-Asp) box polypeptide 25 affy_probe_2_Entrez 1 1 55 -2.87 down 1 0 0/1 -2.87 1 55 -2.87 -2.87 219945_at 219945_at DEAD (Asp-Glu-Ala-Asp) box polypeptide 25 DDX25 -2.868 -2.87 down 0.005312359 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1648 29842 TFCP2L1 transcription factor CP2-like 1 affy_probe_2_Entrez 1 1 55 -2.17 down 1 0 0/1 -2.17 1 55 -2.17 -2.17 219735_s_at 219735_s_at transcription factor CP2-like 1 TFCP2L1 -2.172 -2.17 down 4.2665E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 15 23 1147 29920 PYCR2 pyrroline-5-carboxylate reductase family, member 2 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Pyrroline 5-carboxylate reductase isoform P5CR2 2 2.00 up FVPTC PTC 3 2 publication 15475448 4 7 240 29969 MDFIC MyoD family inhibitor domain containing affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 37842_at 37842_at I-mfa domain-containing protein_HIC HIC down FTC PTC;Norm 9 19 provided by authors 15337802 9 14 626 30008 EFEMP2 EGF-containing fibulin-like extracellular matrix protein 2 affy_probe_2_Entrez 1 1 24 -2.86 down 1 0 0/1 -2.86 1 24 -2.86 -2.86 209356_x_at 209356_x_at EGF-containing fibulin-like extracellular matrix protein 2 -2.86 -2.86 down 0.000001 FA FTC 12 12 provided by authors 15713710 15 23 1129 30827 CXXC1 CXXC finger 1 (PHD domain) Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 CpG binding protein CGBP 3 3.00 up FVPTC PTC 3 2 publication 15475448 4 8 322 50486 G0S2 putative lymphocyte G0/G1 switch gene affy_probe_2_Entrez 1 1 28 0 up 1 0 1/0 0 0 0 0 0 38326_at 38326_at putative lymphocyte G0/G1 switch gene_G0S2 G0S2 up PTC FTC;Norm 6 22 provided by authors 15337802 2 4 103 50488 MINK1 misshapen-like kinase 1 (zebrafish) clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -5.6 down 1 0 0/1 -5.6 1 2 -5.60 -5.60 NM_015716 NM_015716 Misshapen/NIK-related kinase MINK 5.6 -5.60 down PCL Norm 1 1 publication 15785240 9 14 674 50506 DUOX2 dual oxidase 2 affy_probe_2_Entrez 1 1 24 -3.82 down 1 0 0/1 -3.82 1 24 -3.82 -3.82 219727_at 219727_at dual oxidase 2 -3.82 -3.82 down 0.003596 FA FTC 12 12 provided by authors 15713710 25 34 1660 51011 FAHD2A fumarylacetoacetate hydrolase domain containing 2A affy_probe_2_Entrez 1 1 55 -2.49 down 1 0 0/1 -2.49 1 55 -2.49 -2.49 222056_s_at 222056_s_at fumarylacetoacetate hydrolase domain containing 2A FAHD2A -2.421 -2.42 down 0.000948018 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1664 51011 FAHD2A fumarylacetoacetate hydrolase domain containing 2A affy_probe_2_Entrez 1 1 55 -2.49 down 1 0 0/1 -2.49 1 55 -2.49 -2.49 218504_at 218504_at fumarylacetoacetate hydrolase domain containing 2A FAHD2A -2.486 -2.49 down 0.006361772 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 9 14 662 51196 PLCE1 phospholipase C, epsilon 1 affy_probe_2_Entrez 1 1 24 -3.5 down 1 0 0/1 -3.5 1 24 -3.50 -3.50 205111_s_at 205111_s_at phospholipase C, epsilon 1 -3.5 -3.50 down 0.004579 FA FTC 12 12 provided by authors 15713710 4 7 229 51232 CRIM1 cysteine rich transmembrane BMP regulator 1 (chordin-like) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 40936_at 40936_at cysteine-rich motor neuron 1_CRIM1 CRIM1 down FTC PTC;Norm 9 19 provided by authors 15337802 16 24 1226 51340 CRNKL1 Crn, crooked neck-like 1 (Drosophila) Gene_symbol_2_NCBI_Entrez 1 1 63 -1.68 down 1 0 0/1 -1.68 1 63 -1.68 -1.68 CRNKL1 0.593984962 -1.68 down 0.01 PTC;FVPTC FA;HN 32 31 publication 15087409 16 24 1231 51382 ATP6V1D ATPase, H+ transporting, lysosomal 34kDa, V1 subunit D Gene_symbol_2_NCBI_Entrez 1 1 63 -1.82 down 1 0 0/1 -1.82 1 63 -1.82 -1.82 ATP6V1D 0.549707602 -1.82 down 0.01 PTC;FVPTC FA;HN 32 31 publication 15087409 4 7 293 51421 AMOTL2 angiomotin like 2 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 38842_at 38842_at angiomotin like 2_AMOTL2 AMOTL2 down FTC PTC;Norm 9 19 provided by authors 15337802 15 22 1028 51440 HPCAL4 hippocalcin like 4 Gene_symbol_2_NCBI_Entrez 1 1 7 3 up 1 0 1/0 3 1 7 3.00 3.00 Hippocalcin-like protein 4 HPCAL4 3 3.00 up FTC FA 3 4 publication 15475448 13 20 872 51454 GULP1 GULP, engulfment adaptor PTB domain containing 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 AL080142 AL080142 CED-6 protein CED-6 up FTC FA 9 10 publication 12738736 16 24 1233 51690 LSM7 LSM7 homolog, U6 small nuclear RNA associated (S. cerevisiae) Gene_symbol_2_NCBI_Entrez 1 1 63 -1.86 down 1 0 0/1 -1.86 1 63 -1.86 -1.86 LSM7 0.5390625 -1.86 down yes 0.001 PTC;FVPTC FA;HN 32 31 publication 15087409 24 33 1537 51741 WWOX WW domain containing oxidoreductase Gene_symbol_2_NCBI_Entrez 2 2 87 -6.34 down 2 0 0/2 -3.17 2 87 -2.85 -3.49 WW domain containing oxidoreductase WWOX -1.51 -2.85 down PTC Norm 16 16 publication 15735049 25 34 1713 51741 WWOX WW domain containing oxidoreductase affy_probe_2_Entrez 2 2 87 -6.34 down 2 0 0/2 -3.17 2 87 -2.85 -3.49 219077_s_at 219077_s_at WW domain containing oxidoreductase WWOX -3.486 -3.49 down 0.045866957 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1571 51809 GALNT7 UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 7 (GalNAc-T7) affy_probe_2_Entrez 1 1 55 5.76 up 1 0 1/0 5.76 1 55 5.76 5.76 218313_s_at 218313_s_at UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 7 (GalNAc-T7) GALNT7 5.760 5.76 up 4.17933E-06 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1720 53353 LRP1B low density lipoprotein-related protein 1B (deleted in tumors) affy_probe_2_Entrez 1 1 55 -3.69 down 1 0 0/1 -3.69 1 55 -3.69 -3.69 219643_at 219643_at low density lipoprotein-related protein 1B (deleted in tumors) LRP1B -3.690 -3.69 down 3.55901E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 11 18 790 53588 ZWINTAS ZW10 interactor antisense clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 X98261 X98261 M-phase phosphoprotein, mpp5 down ACL;ATC Norm 21 10 publication 15613457 16 24 1219 54065 C21orf51 chromosome 21 open reading frame 51 Gene_symbol_2_NCBI_Entrez 1 1 63 -1.6 down 1 0 0/1 -1.6 1 63 -1.60 -1.60 C21orf51 0.623762376 -1.60 down 0.02 PTC;FVPTC FA;HN 32 31 publication 15087409 24 33 1481 54210 TREM1 triggering receptor expressed on myeloid cells 1 Gene_symbol_2_NCBI_Entrez 1 1 32 4.63 up 1 0 1/0 4.63 1 32 4.63 4.63 Triggering receptor expressed on myeloid cells 1 TREM1 2.21 4.63 up PTC Norm 16 16 publication 15735049 4 7 227 54453 RIN2 Ras and Rab interactor 2 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 36550_at 36550_at Ras and Rab interactor 2_RIN2 RIN2 down FTC PTC;Norm 9 19 provided by authors 15337802 16 24 1240 54462 KIAA1128 KIAA1128 Gene_symbol_2_NCBI_Entrez 1 1 63 -1.96 down 1 0 0/1 -1.96 1 63 -1.96 -1.96 KIAA1128 0.511363636 -1.96 down yes 0.03 PTC;FVPTC FA;HN 32 31 publication 15087409 4 7 182 54504 CPVL carboxypeptidase, vitellogenic-like affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 38323_at 38323_at carboxypeptidase, vitellogenic-like_CPVL CPVL down FTC PTC;Norm 9 19 provided by authors 15337802 25 34 1654 54556 ING3 inhibitor of growth family, member 3 affy_probe_2_Entrez 1 1 55 -2.24 down 1 0 0/1 -2.24 1 55 -2.24 -2.24 205070_at 205070_at inhibitor of growth family, member 3 ING3 -2.239 -2.24 down 0.000425855 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 2 2 86 54888 NSUN2 NOL1/NOP2/Sun domain family, member 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 3.04 up 1 0 1/0 3.04 1 2 3.04 3.04 BE154215 BE154215 Unknown EST 3.04 3.04 up FCL Norm 1 1 publication 15785240 25 34 1667 54959 APIN APin protein affy_probe_2_Entrez 1 1 55 -2.54 down 1 0 0/1 -2.54 1 55 -2.54 -2.54 220133_at 220133_at APin protein APIN -2.541 -2.54 down 2.50295E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 16 24 1230 54969 FLJ20534 hypothetical protein FLJ20534 Gene_symbol_2_NCBI_Entrez 1 1 63 -1.8 down 1 0 0/1 -1.8 1 63 -1.80 -1.80 FLJ20534 0.556701031 -1.80 down 0.02 PTC;FVPTC FA;HN 32 31 publication 15087409 25 34 1699 54996 MOSC2 MOCO sulphurase C-terminal domain containing 2 affy_probe_2_Entrez 1 1 55 -3.14 down 1 0 0/1 -3.14 1 55 -3.14 -3.14 221636_s_at 221636_s_at hypothetical protein FLJ20605 FLJ20605 -3.143 -3.14 down 6.37944E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1707 55022 FLJ20701 hypothetical protein FLJ20701 affy_probe_2_Entrez 1 1 55 -3.31 down 1 0 0/1 -3.31 1 55 -3.31 -3.31 219093_at 219093_at hypothetical protein FLJ20701 FLJ20701 -3.314 -3.31 down 5.24947E-09 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 9 14 647 55084 FLJ10159 hypothetical protein FLJ10159 affy_probe_2_Entrez 1 1 24 -3.17 down 1 0 0/1 -3.17 1 24 -3.17 -3.17 218974_at 218974_at hypothetical protein FLJ10159 -3.17 -3.17 down 0.000017 FA FTC 12 12 provided by authors 15713710 24 33 1543 55086 FLJ10178 hypothetical protein FLJ10178 Gene_symbol_2_NCBI_Entrez 1 1 32 -8.17 down 1 0 0/1 -8.17 1 32 -8.17 -8.17 Hypothetical protein FLJ10178 FLJ10178 -3.03 -8.17 down PTC Norm 16 16 publication 15735049 15 22 1046 55160 ARHGEF10L Rho guanine nucleotide exchange factor (GEF) 10-like Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 7 -2.5 down 1 0 0/1 -2.5 1 7 -2.50 -2.50 Highly similar to rho guanyl nucleotide exchange factor FLJ10521 0.4 -2.50 down FTC FA 3 4 publication 15475448 24 33 1480 55220 FLJ10748 hypothetical protein FLJ10748 Gene_symbol_2_NCBI_Entrez 1 1 32 4.68 up 1 0 1/0 4.68 1 32 4.68 4.68 Hypothetical protein FLJ10748 FLJ10748 2.225 4.68 up PTC Norm 16 16 publication 15735049 24 33 1525 55274 PHF10 PHD finger protein 10 Gene_symbol_2_NCBI_Entrez 1 1 32 -1.59 down 1 0 0/1 -1.59 1 32 -1.59 -1.59 PHD finger protein 10 PHF10 -0.665 -1.59 down PTC Norm 16 16 publication 15735049 16 24 1213 55364 IMPACT hypothetical protein IMPACT Gene_symbol_2_NCBI_Entrez 1 1 63 -1.53 down 1 0 0/1 -1.53 1 63 -1.53 -1.53 IMPACT 0.651515152 -1.53 down yes 0.03 PTC;FVPTC FA;HN 32 31 publication 15087409 15 23 1117 55466 DNAJA4 DnaJ (Hsp40) homolog, subfamily A, member 4 Gene_symbol_2_NCBI_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 DnaJ (Hsp40) homolog, subfamily A, member 4 DNAJA4 3 3.00 up FVPTC PTC 3 2 publication 15475448 2 2 61 55573 H41 hypothetical protein H41 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -12.2 down 1 0 0/1 -12.2 1 2 -12.20 -12.20 NM_017548 NM_017548 Unknown EST 12.2 -12.20 down FCL Norm 1 1 publication 15785240 13 20 868 55643 BTBD2 BTB (POZ) domain containing 2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 W68046 W68046 BTB domain containing 2 BTBD2 up FTC FA 9 10 publication 12738736 16 24 1212 55650 PIGV phosphatidylinositol glycan, class V Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 63 -1.53 down 1 0 0/1 -1.53 1 63 -1.53 -1.53 FLJ20477 0.655172414 -1.53 down 0.0001 PTC;FVPTC FA;HN 32 31 publication 15087409 15 23 1198 55676 SLC30A6 solute carrier family 30 (zinc transporter), member 6 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 -3.33 down 1 0 0/1 -3.33 1 5 -3.33 -3.33 Likely ortholog of mouse zinc transporter 6 ZNT6 0.3 -3.33 down FVPTC PTC 3 2 publication 15475448 25 34 1761 55753 OGDHL oxoglutarate dehydrogenase-like affy_probe_2_Entrez 1 1 55 -6.78 down 1 0 0/1 -6.78 1 55 -6.78 -6.78 219277_s_at 219277_s_at oxoglutarate dehydrogenase-like OGDHL -6.778 -6.78 down 0.026741097 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1609 55784 MCTP2 multiple C2-domains with two transmembrane regions 2 affy_probe_2_Entrez 1 1 55 2.69 up 1 0 1/0 2.69 1 55 2.69 2.69 220603_s_at 220603_s_at multiple C2-domains with two transmembrane regions 2 MCTP2 2.691 2.69 up 3.06294E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1750 55790 ChGn chondroitin beta1,4 N-acetylgalactosaminyltransferase affy_probe_2_Entrez 1 1 55 -5.62 down 1 0 0/1 -5.62 1 55 -5.62 -5.62 219049_at 219049_at chondroitin beta1,4 N-acetylgalactosaminyltransferase ChGn -5.620 -5.62 down 0.002724696 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 13 20 938 55830 GLT8D1 glycosyltransferase 8 domain containing 1 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 82 -1.87 down 2 0 0/2 -1.87 1 63 -1.87 -1.87 L13435 L13435 Glucosyltransferase AD-017 AD017 down FTC FA 9 10 publication 12738736 16 24 1234 55830 GLT8D1 glycosyltransferase 8 domain containing 1 Gene_symbol_2_NCBI_Synonym_2_Entrez 2 2 82 -1.87 down 2 0 0/2 -1.87 1 63 -1.87 -1.87 AD-017 0.535031847 -1.87 down 0.01 PTC;FVPTC FA;HN 32 31 publication 15087409 15 23 1151 55833 UBAP2 ubiquitin associated protein 2 Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Ubiquitin associated protein 2 UBAP2 2 2.00 up FVPTC PTC 3 2 publication 15475448 9 14 681 55885 LMO3 LIM domain only 3 (rhombotin-like 2) affy_probe_2_Entrez 1 1 24 -4 down 1 0 0/1 -4 1 24 -4.00 -4.00 204424_s_at 204424_s_at neuronal specific transcription factor DAT1 -4 -4.00 down 0.003594 FA FTC 12 12 provided by authors 15713710 15 23 1163 55970 GNG12 guanine nucleotide binding protein (G protein), gamma 12 Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Guanine nucleotide binding protein, gamma 12 GNG12 2 2.00 up FVPTC PTC 3 2 publication 15475448 15 23 1190 55973 BCAP29 B-cell receptor-associated protein 29 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 -2 down 1 0 0/1 -2 1 5 -2.00 -2.00 B-cell receptor-associated protein BAP29 BAP29 0.5 -2.00 down FVPTC PTC 3 2 publication 15475448 13 20 886 56255 DJ971N18.2 hypothetical protein DJ971N18.2 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 AL021396 AL021396 Hypothetical protein DJ971N18.2 up FTC FA 9 10 publication 12738736 4 7 249 56271 BEXL1 brain expressed X-linked-like 1 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 40916_at 40916_at hypothetical protein FLJ10097_FLJ10097 FLJ10097 down FTC PTC;Norm 9 19 provided by authors 15337802 25 34 1671 56603 CYP26B1 cytochrome P450, family 26, subfamily B, polypeptide 1 affy_probe_2_Entrez 1 1 55 -2.61 down 1 0 0/1 -2.61 1 55 -2.61 -2.61 219825_at 219825_at cytochrome P450, family 26, subfamily B, polypeptide 1 CYP26B1 -2.609 -2.61 down 0.020528648 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 24 33 1448 56649 TMPRSS4 transmembrane protease, serine 4 Gene_symbol_2_NCBI_Entrez 1 1 32 19.77 up 1 0 1/0 19.77 1 32 19.77 19.77 Transmembrane protease, serine 4 TMPRSS4 4.305 19.77 up PTC Norm 16 16 publication 15735049 16 24 1209 56943 ENY2 enhancer of yellow 2 homolog (Drosophila) Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 63 -1.47 down 1 0 0/1 -1.47 1 63 -1.47 -1.47 DC6 0.680672269 -1.47 down 0.04 PTC;FVPTC FA;HN 32 31 publication 15087409 15 23 1075 56949 XAB2 XPA binding protein 2 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 6 up 1 0 1/0 6 1 5 6.00 6.00 tetratricopeptide repeat protein involved in transcription HCNP 6 6.00 up FVPTC PTC 3 2 publication 15475448 25 34 1715 57088 PLSCR4 phospholipid scramblase 4 affy_probe_2_Entrez 1 1 55 -3.55 down 1 0 0/1 -3.55 1 55 -3.55 -3.55 218901_at 218901_at --- --- -3.555 -3.55 down 0.001250845 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 11 18 814 57292 KIR2DL5A killer cell immunoglobulin-like receptor, two domains, long cytoplasmic tail, 5A clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 L76672 L76672 nkat9 down ACL;ATC Norm 21 10 publication 15613457 24 33 1501 57402 S100A14 S100 calcium binding protein A14 Gene_symbol_2_NCBI_Entrez 1 1 32 2.32 up 1 0 1/0 2.32 1 32 2.32 2.32 S100 calcium-binding protein A14 (calgizzarin) S100A14 1.215 2.32 up PTC Norm 16 16 publication 15735049 15 23 1162 57449 PLEKHG5 pleckstrin homology domain containing, family G (with RhoGef domain) member 5 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 KIAA0720 protein KIAA0720 2 2.00 up FVPTC PTC 3 2 publication 15475448 9 14 616 57460 PPM1H protein phosphatase 1H (PP2C domain containing) affy_probe_2_Entrez 1 1 24 2.71 up 1 0 1/0 2.71 1 24 2.71 2.71 212686_at 212686_at KIAA1157 protein 2.71 2.71 up 0.000065 FA FTC 12 12 provided by authors 15713710 4 7 200 57493 HEG1 HEG homolog 1 (zebrafish) affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 33328_at 33328_at KIAA1237 protein_KIAA1237 KIAA1237 down FTC PTC;Norm 9 19 provided by authors 15337802 4 7 285 57498 KIDINS220 kinase D-interacting substance of 220 kDa affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 39163_at 39163_at likely homolog of rat kinase D-interacting substance of 220 kDa_KIDINS220 KIDINS220 down FTC PTC;Norm 9 19 provided by authors 15337802 9 14 618 57509 MTUS1 mitochondrial tumor suppressor 1 affy_probe_2_Entrez 1 1 24 -2.71 down 1 0 0/1 -2.71 1 24 -2.71 -2.71 212096_s_at 212096_s_at AT2 receptor-interacting protein 1 -2.71 -2.71 down 0.000493 FA FTC 12 12 provided by authors 15713710 19 32 1417 57561 ARRDC3 arrestin domain containing 3 tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 up 1 0 1/0 0 0 0 0 0 AAGCAAGAAT AAGCAAGAAT KIAA1376 protein up 0.0245 FVPTC Norm 1 1 publication 14715705 9 14 619 57599 WDR48 WD repeat domain 48 affy_probe_2_Entrez 1 1 24 -2.72 down 1 0 0/1 -2.72 1 24 -2.72 -2.72 221735_at 221735_at WD repeat endosomal protein -2.72 -2.72 down 0.000016 FA FTC 12 12 provided by authors 15713710 25 34 1647 57613 KIAA1467 KIAA1467 protein affy_probe_2_Entrez 1 1 55 -2.16 down 1 0 0/1 -2.16 1 55 -2.16 -2.16 213234_at 213234_at KIAA1467 protein KIAA1467 -2.158 -2.16 down 0.038062468 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 11 18 810 57862 ZNF410 zinc finger protein 410 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 U90919 U90919 Clones 23667 and 23775 zinc finger protein down ACL;ATC Norm 21 10 publication 15613457 16 24 1214 58497 PRUNE prune homolog (Drosophila) Gene_symbol_2_NCBI_Synonym_2_Entrez 2 2 95 -3.4 down 2 0 0/2 -1.7 2 95 -1.56 -1.84 HTCD37 0.639344262 -1.56 down 0.01 PTC;FVPTC FA;HN 32 31 publication 15087409 24 33 1528 58497 PRUNE prune homolog (Drosophila) Gene_symbol_2_NCBI_Synonym_2_Entrez 2 2 95 -3.4 down 2 0 0/2 -1.7 2 95 -1.56 -1.84 TcD37 homologue HTCD37 -0.88 -1.84 down PTC Norm 16 16 publication 15735049 9 14 672 58517 RBM25 RNA binding motif protein 25 affy_probe_2_Entrez 1 1 24 -3.75 down 1 0 0/1 -3.75 1 24 -3.75 -3.75 212030_at 212030_at S164 protein -3.75 -3.75 down 0.000038 FA FTC 12 12 provided by authors 15713710 11 18 838 60685 TEX27 testis expressed sequence 27 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 AL137302 AL137302 TEX27 testis expressed sequence 27 down ACL;ATC Norm 21 10 publication 15613457 15 22 1051 63826 SRR serine racemase Gene_symbol_2_NCBI_Entrez 1 1 7 -3.33 down 1 0 0/1 -3.33 1 7 -3.33 -3.33 Serine racemase SRR 0.3 -3.33 down FTC FA 3 4 publication 15475448 24 33 1502 64220 STRA6 stimulated by retinoic acid gene 6 homolog (mouse) Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 32 2.31 up 1 0 1/0 2.31 1 32 2.31 2.31 Stimulated by retinoic acid gene 6 FLJ12541 1.21 2.31 up PTC Norm 16 16 publication 15735049 25 34 1674 64283 RGNEF Rho-guanine nucleotide exchange factor affy_probe_2_Entrez 1 1 55 -2.63 down 1 0 0/1 -2.63 1 55 -2.63 -2.63 219610_at 219610_at Rho-guanine nucleotide exchange factor RGNEF -2.634 -2.63 down 0.000282681 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1595 64393 WIG1 p53 target zinc finger protein affy_probe_2_Entrez 1 1 55 3.33 up 1 0 1/0 3.33 1 55 3.33 3.33 219628_at 219628_at p53 target zinc finger protein WIG1 3.326 3.33 up 0.034418855 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 5 10 387 64418 FLJ13576 hypothetical protein FLJ13576 tag_2_refseq_or_mgc_2_Entrez 1 1 3 0 up 1 0 1/0 0 0 0 0 0 TAATGTATTC TAATGTATTC FLJ13576 up no FTC FA;Norm 1 2 publication 15085203 25 34 1711 64759 TNS3 tensin 3 affy_probe_2_Entrez 1 1 55 -3.46 down 1 0 0/1 -3.46 1 55 -3.46 -3.46 217853_at 217853_at tensin-like SH2 domain containing 1 TENS1 -3.458 -3.46 down 0.029759472 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 9 14 622 64778 FNDC3B fibronectin type III domain containing 3B affy_probe_2_Entrez 1 1 24 -2.77 down 1 0 0/1 -2.77 1 24 -2.77 -2.77 218618_s_at 218618_s_at hypothetical protein FLJ23399 -2.77 -2.77 down 0.000021 FA FTC 12 12 provided by authors 15713710 24 33 1463 64838 FNDC4 fibronectin type III domain containing 4 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 32 8.43 up 1 0 1/0 8.43 1 32 8.43 8.43 Likely orthologue of mouse fibronectin type III repeat containing protein 1 FRCP1 3.075 8.43 up PTC Norm 16 16 publication 15735049 15 23 1174 66008 ALS2CR3 amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 3 Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 ALS2CR3, KIAA0549, CALS-C ALS2CR3 2 2.00 up FVPTC PTC 3 2 publication 15475448 13 20 887 79017 C7orf24 chromosome 7 open reading frame 24 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 47 0 up 2 0 2/0 0 0 0 0 0 AI620381 AI620381 Hypothetical protein MCG3077 McG3077 up FTC FA 9 10 publication 12738736 4 8 369 79017 C7orf24 chromosome 7 open reading frame 24 affy_probe_2_Entrez 2 2 47 0 up 2 0 2/0 0 0 0 0 0 41696_at 41696_at chromosome 7 open reading frame 24_C7orf24 C7orf24 up PTC FTC;Norm 6 22 provided by authors 15337802 15 23 1154 79178 THTPA thiamine triphosphatase Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Thiamine triphosphatase THTPA 2 2.00 up FVPTC PTC 3 2 publication 15475448 15 23 1155 79571 GCC1 GRIP and coiled-coil domain containing 1 Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Golgi coiled coil 1 GCC1 2 2.00 up FVPTC PTC 3 2 publication 15475448 9 14 683 79695 GALNT12 UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 12 (GalNAc-T12) affy_probe_2_Entrez 1 1 24 -4.14 down 1 0 0/1 -4.14 1 24 -4.14 -4.14 218885_s_at 218885_s_at hypothetical protein FLJ21212 -4.14 -4.14 down 0.000078 FA FTC 12 12 provided by authors 15713710 25 34 1755 79698 ZMAT4 zinc finger, matrin type 4 affy_probe_2_Entrez 1 1 55 -6.19 down 1 0 0/1 -6.19 1 55 -6.19 -6.19 219877_at 219877_at hypothetical protein FLJ13842 FLJ13842 -6.189 -6.19 down 0.000543866 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1614 79745 RSNL2 restin-like 2 affy_probe_2_Entrez 1 1 55 2.51 up 1 0 1/0 2.51 1 55 2.51 2.51 219944_at 219944_at hypothetical protein FLJ21069 FLJ21069 2.511 2.51 up 0.015516611 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 11 18 768 79921 TCEAL4 transcription elongation factor A (SII)-like 4 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 AF271783 AF271783 NPD017 up ACL;ATC Norm 21 10 publication 15613457 25 34 1706 79953 C20orf39 chromosome 20 open reading frame 39 affy_probe_2_Entrez 1 1 55 -3.3 down 1 0 0/1 -3.3 1 55 -3.30 -3.30 219310_at 219310_at chromosome 20 open reading frame 39 C20orf39 -3.304 -3.30 down 1.67171E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 24 33 1541 80157 FLJ21511 hypothetical protein FLJ21511 Gene_symbol_2_NCBI_Entrez 2 2 87 -11.76 down 2 0 0/2 -5.88 2 87 -4.64 -7.12 Hypothetical protein FLJ21511 FLJ21511 -2.215 -4.64 down PTC Norm 16 16 publication 15735049 25 34 1759 80157 FLJ21511 hypothetical protein FLJ21511 affy_probe_2_Entrez 2 2 87 -11.76 down 2 0 0/2 -5.88 2 87 -4.64 -7.12 220723_s_at 220723_s_at hypothetical protein FLJ21511 FLJ21511 -6.593 -6.59 down 0.000104549 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1766 80157 FLJ21511 hypothetical protein FLJ21511 affy_probe_2_Entrez 2 2 87 -11.76 down 2 0 0/2 -5.88 2 87 -4.64 -7.12 220724_at 220724_at hypothetical protein FLJ21511 FLJ21511 -7.115 -7.12 down 0.000193981 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 9 14 692 80204 FBXO11 F-box protein 11 affy_probe_2_Entrez 1 1 24 -5 down 1 0 0/1 -5 1 24 -5.00 -5.00 222119_s_at 222119_s_at vitiligo-associated protein VIT-1 -5 -5.00 down 0.000029 FA FTC 12 12 provided by authors 15713710 9 14 682 80778 ZNF34 zinc finger protein 34 (KOX 32) affy_probe_2_Entrez 1 1 24 -4.04 down 1 0 0/1 -4.04 1 24 -4.04 -4.04 219801_at 219801_at hypothetical protein MGC10520 -4.04 -4.04 down 0.000003 FA FTC 12 12 provided by authors 15713710 15 23 1107 81565 NDEL1 nudE nuclear distribution gene E homolog like 1 (A. nidulans) Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 3 up 1 0 1/0 3 1 5 3.00 3.00 LIS1-interacting protein NUDEL; endooligopeptidase A NUDEL 3 3.00 up FVPTC PTC 3 2 publication 15475448 25 34 1604 81569 ACTL8 actin-like 8 affy_probe_2_Entrez 1 1 55 2.87 up 1 0 1/0 2.87 1 55 2.87 2.87 214957_at 214957_at actin like protein LOC81569 2.867 2.87 up 0.017874849 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 16 24 1236 81689 HBLD2 HESB like domain containing 2 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 63 -1.89 down 1 0 0/1 -1.89 1 63 -1.89 -1.89 MGC4276 0.529411765 -1.89 down 0.0001 PTC;FVPTC FA;HN 32 31 publication 15087409 15 22 1058 81706 PPP1R14C protein phosphatase 1, regulatory (inhibitor) subunit 14C Gene_symbol_2_NCBI_Entrez 1 1 7 -5 down 1 0 0/1 -5 1 7 -5.00 -5.00 Protein phosphatase 1 regulatory (inhibitor) subunit 14C PPP1R14C 0.2 -5.00 down FTC FA 3 4 publication 15475448 25 34 1646 81839 VANGL1 vang-like 1 (van gogh, Drosophila) affy_probe_2_Entrez 1 1 55 -2.13 down 1 0 0/1 -2.13 1 55 -2.13 -2.13 219330_at 219330_at vang-like 1 (van gogh, Drosophila) VANGL1 -2.130 -2.13 down 0.000634148 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1689 83439 TCF7L1 transcription factor 7-like 1 (T-cell specific, HMG-box) affy_probe_2_Entrez 1 1 55 -2.93 down 1 0 0/1 -2.93 1 55 -2.93 -2.93 221016_s_at 221016_s_at transcription factor 7-like 1 (T-cell specific, HMG-box) /// transcription factor 7-like 1 (T-cell specific, HMG-box) TCF7L1 -2.931 -2.93 down 0.002847923 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1756 83468 GLT8D2 glycosyltransferase 8 domain containing 2 affy_probe_2_Entrez 1 1 55 -6.23 down 1 0 0/1 -6.23 1 55 -6.23 -6.23 221447_s_at 221447_s_at gycosyltransferase /// gycosyltransferase LOC83468 -6.227 -6.23 down 2.16432E-07 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 25 34 1696 83478 ARHGAP24 Rho GTPase activating protein 24 affy_probe_2_Entrez 1 1 55 -3.08 down 1 0 0/1 -3.08 1 55 -3.08 -3.08 221030_s_at 221030_s_at Rho GTPase activating protein 24 /// Rho GTPase activating protein 24 ARHGAP24 -3.085 -3.08 down 0.000138869 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 9 14 638 83483 PLVAP plasmalemma vesicle associated protein affy_probe_2_Entrez 1 1 24 -3.09 down 1 0 0/1 -3.09 1 24 -3.09 -3.09 221529_s_at 221529_s_at plasmalemma vesicle associated protein -3.09 -3.09 down 0.000263 FA FTC 12 12 provided by authors 15713710 25 34 1644 84187 RP13-360B22.2 hypothetical protein FLJ22679 affy_probe_2_Entrez 1 1 55 -2.11 down 1 0 0/1 -2.11 1 55 -2.11 -2.11 220486_x_at 220486_x_at hypothetical protein FLJ22679 FLJ22679 -2.114 -2.11 down 0.025028009 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 19 32 1408 84525 HOP homeodomain-only protein tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 up 1 0 1/0 0 0 0 0 0 ATGACAGATG ATGACAGATG SMAP31/homeodomain only protein (HOP) up 0.0001 FVPTC Norm 1 1 publication 14715705 18 31 1358 84864 MINA MYC induced nuclear antigen clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 91 -4.63 down 2 0 0/2 -2.315 2 91 -2.23 -2.40 W27666 W27666 Mina53, a novel Myc target gene MINA53 2.4 -2.40 down FTC;PTC;FVPTC FA;HN 33 26 publication NOTE: This study seems very similar to Study #7 and may contain overlap in the tissue samples used. Waiting for author response on this matter. 15319714 24 33 1532 84864 MINA MYC induced nuclear antigen Gene_symbol_2_NCBI_Synonym_2_Entrez 2 2 91 -4.63 down 2 0 0/2 -2.315 2 91 -2.23 -2.40 Myc-induced nuclear antigen, 53 kDa MINA53 -1.16 -2.23 down PTC Norm 16 16 publication 15735049 17 25 1257 84992 MGC14156 hypothetical protein MGC14156 tag_2_refseq_or_mgc_2_Entrez 1 2 4 0 down 2 0 0/2 0 0 0 0 0 TTGACACTTT TTGACACTTT down FTC ATC 1 1 publication 11076659 17 28 1281 84992 MGC14156 hypothetical protein MGC14156 tag_2_refseq_or_mgc_2_Entrez 1 2 4 0 down 2 0 0/2 0 0 0 0 0 TTGACACTTT TTGACACTTT down PTC ATC 1 1 publication 11076659 4 7 258 89927 C16orf45 chromosome 16 open reading frame 45 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 35742_at 35742_at hypothetical gene BC008967_BC008967 BC008967 down FTC PTC;Norm 9 19 provided by authors 15337802 15 23 1184 90411 MCFD2 multiple coagulation factor deficiency 2 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 Neural stem cell derived neuronal survival protein SDNSF 2 2.00 up FVPTC PTC 3 2 publication 15475448 25 34 1712 90627 STARD13 START domain containing 13 affy_probe_2_Entrez 1 1 55 -3.46 down 1 0 0/1 -3.46 1 55 -3.46 -3.46 213103_at 213103_at START domain containing 13 STARD13 -3.463 -3.46 down 3.5504E-06 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 19 32 1437 91746 YT521 splicing factor YT521-B tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 up 1 0 1/0 0 0 0 0 0 TAGTTGCACA TAGTTGCACA NoMatch B59 up 0.0245 FVPTC Norm 1 1 publication 14715705 25 34 1758 91851 CHRDL1 chordin-like 1 affy_probe_2_Entrez 1 1 55 -6.52 down 1 0 0/1 -6.52 1 55 -6.52 -6.52 209763_at 209763_at chordin-like 1 CHRDL1 -6.519 -6.52 down 0.001912108 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 24 33 1534 92104 FLJ13946 hypothetical protein FLJ13946 Gene_symbol_2_NCBI_Entrez 1 1 32 -2.45 down 1 0 0/1 -2.45 1 32 -2.45 -2.45 Hypothetical protein FLJ13946 FLJ13946 -1.295 -2.45 down PTC Norm 16 16 publication 15735049 11 18 841 93659 CGB5 chorionic gonadotropin, beta polypeptide 5 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 AI160936 AI160936 IMAGE:1715637 30 similar to gb:J00117 choriogonadotropin b chain precursor down ACL;ATC Norm 21 10 publication 15613457 19 32 1440 94239 H2AFV H2A histone family, member V tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 down 1 0 0/1 0 0 0 0 0 TGGTGAAAAA TGGTGAAAAA NoMatch B44 down 0.0006 FVPTC Norm 1 1 publication 14715705 25 34 1677 114876 OSBPL1A oxysterol binding protein-like 1A affy_probe_2_Entrez 1 1 55 -2.73 down 1 0 0/1 -2.73 1 55 -2.73 -2.73 209485_s_at 209485_s_at oxysterol binding protein-like 1A OSBPL1A -2.726 -2.73 down 0.000496751 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 19 32 1418 114926 C8orf40 chromosome 8 open reading frame 40 tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 up 1 0 1/0 0 0 0 0 0 AACAGCTTTA AACAGCTTTA hypothetical protein BC013035 up 0.0245 FVPTC Norm 1 1 publication 14715705 11 18 755 114971 PTPMT1 protein tyrosine phosphatase, mitochondrial 1 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 up 1 0 1/0 0 0 0 0 0 AK096680 AK096680 FLJ39361 fis, clone PEBLM 2004733 up ACL;ATC Norm 21 10 publication 15613457 5 10 382 116496 C1orf24 chromosome 1 open reading frame 24 tag_2_refseq_or_mgc_2_Entrez 1 1 3 0 up 1 0 1/0 0 0 0 0 0 TATTTACTCT TATTTACTCT C1orf24 up yes FTC FA;Norm 1 2 publication 15085203 19 32 1429 121053 MGC40397 hypothetical protein MGC40397 tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 down 1 0 0/1 0 0 0 0 0 GCAAGCCCCA GCAAGCCCCA hypothetical protein MGC40397 down 0.0186 FVPTC Norm 1 1 publication 14715705 11 18 812 126208 LOC126208 hypothetical protein LOC126208 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 31 0 down 1 0 0/1 0 0 0 0 0 AF000560 AF000560 TTF-I interacting peptide 20 down ACL;ATC Norm 21 10 publication 15613457 5 9 377 129080 EMID1 EMI domain containing 1 tag_2_refseq_or_mgc_2_Entrez 1 1 3 0 up 1 0 1/0 0 0 0 0 0 GAGAGGAAGG GAGAGGAAGG NM_133455.1 up no FA FTC;Norm 1 2 publication 15085203 15 23 1077 130497 OSR1 odd-skipped related 1 (Drosophila) Gene_symbol_2_NCBI_Entrez 1 1 5 6 up 1 0 1/0 6 1 5 6.00 6.00 Oxidative-stress responsive 1 OSR1 6 6.00 up FVPTC PTC 3 2 publication 15475448 4 7 304 131544 DKFZp667G2110 hypothetical protein DKFZp667G2110 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 41274_at 41274_at myc-induced nuclear antigen, 53 kDa_MINA53 MINA53 down FTC PTC;Norm 9 19 provided by authors 15337802 9 14 685 140597 TCEAL2 transcription elongation factor A (SII)-like 2 affy_probe_2_Entrez 1 1 24 -4.29 down 1 0 0/1 -4.29 1 24 -4.29 -4.29 211276_at 211276_at my048 protein -4.29 -4.29 down 0.003021 FA FTC 12 12 provided by authors 15713710 19 32 1428 146556 MGC45438 hypothetical protein MGC45438 tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 down 1 0 0/1 0 0 0 0 0 CCAGCTGCCT CCAGCTGCCT hypothetical protein MGC45438 down 0.0186 FVPTC Norm 1 1 publication 14715705 15 23 1159 153090 DAB2IP DAB2 interacting protein Gene_symbol_2_NCBI_Entrez 1 1 5 2 up 1 0 1/0 2 1 5 2.00 2.00 DAB2 interacting protein DAB2IP 2 2.00 up FVPTC PTC 3 2 publication 15475448 2 2 68 159013 CXorf38 chromosome X open reading frame 38 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 -8 down 1 0 0/1 -8 1 2 -8.00 -8.00 NM_144970 NM_144970 Hypothetical protein MGC39350 MGC39350 8 -8.00 down FCL Norm 1 1 publication 15785240 25 34 1726 166647 GPR125 G protein-coupled receptor 125 affy_probe_2_Entrez 1 1 55 -3.91 down 1 0 0/1 -3.91 1 55 -3.91 -3.91 210473_s_at 210473_s_at G protein-coupled receptor 125 GPR125 -3.908 -3.91 down 1.21446E-05 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 13 20 942 169611 OLFML2A olfactomedin-like 2A clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 down 1 0 0/1 0 0 0 0 0 AL050002 AL050002 IMAGE clone 3140802 down FTC FA 9 10 publication 12738736 4 7 272 171220 LOC171220 destrin-2 pseudogene affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 31605_at 31605_at similar to 60S ribosomal protein L13 (A52)_na na down FTC PTC;Norm 9 19 provided by authors 15337802 2 2 83 197320 FLJ31875 hypothetical protein FLJ31875 clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 2 3.44 up 1 0 1/0 3.44 1 2 3.44 3.44 NM_182531 NM_182531 Hypothetical protein FLJ31875 FLJ31875 3.44 3.44 up FCL Norm 1 1 publication 15785240 19 32 1411 197370 NSMCE1 non-SMC element 1 homolog (S. cerevisiae) tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 up 1 0 1/0 0 0 0 0 0 ACCGCAGTGC ACCGCAGTGC insulin-like growth factor binding protein 4 up 0.0245 FVPTC Norm 1 1 publication 14715705 9 14 624 220988 HNRPA3 heterogeneous nuclear ribonucleoprotein A3 affy_probe_2_Entrez 1 1 24 -2.82 down 1 0 0/1 -2.82 1 24 -2.82 -2.82 211930_at 211930_at Homo sapiens mRNA; cDNA DKFZp686N1377 (from clone DKFZp686N1377) -2.82 -2.82 down 0.00002 FA FTC 12 12 provided by authors 15713710 13 20 950 221395 GPR116 G protein-coupled receptor 116 clone_accession_2_NCBI_rna_accession_2_Entrez 2 2 43 -3.08 down 2 0 0/2 -3.08 1 24 -3.08 -3.08 AB018301 AB018301 KIAA0758 protein KIAA0758 down FTC FA 9 10 publication 12738736 9 14 636 221395 GPR116 G protein-coupled receptor 116 affy_probe_2_Entrez 2 2 43 -3.08 down 2 0 0/2 -3.08 1 24 -3.08 -3.08 212950_at 212950_at KIAA0758 protein -3.08 -3.08 down 0.000297 FA FTC 12 12 provided by authors 15713710 25 34 1695 223117 SEMA3D sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D affy_probe_2_Entrez 1 1 55 -3.06 down 1 0 0/1 -3.06 1 55 -3.06 -3.06 215643_at 215643_at sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D SEMA3D -3.057 -3.06 down 2.98547E-07 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 4 7 188 259230 TMEM23 transmembrane protein 23 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 31881_at 31881_at mob protein_MOB MOB down FTC PTC;Norm 9 19 provided by authors 15337802 13 20 885 283131 TncRNA trophoblast-derived noncoding RNA clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 19 0 up 1 0 1/0 0 0 0 0 0 AW006742 AW006742 Human clone 137308 mRNA partial cds up FTC FA 9 10 publication 12738736 25 34 1662 284244 LOC284244 hypothetical protein LOC284244 affy_probe_2_Entrez 1 1 55 -2.47 down 1 0 0/1 -2.47 1 55 -2.47 -2.47 214162_at 214162_at hypothetical protein LOC284244 LOC284244 -2.469 -2.47 down 0.013913616 PTC Norm 51 4 suppl. Materials Performed calculation of differential expression between PTC and Normal myself in excel. Included all 2fold changes with bonferonni corrected pvalue > 0.5 16007166 24 33 1526 375056 UNQ6077 AAAP6077 Gene_symbol_2_NCBI_Synonym_2_Entrez 1 1 32 -1.68 down 1 0 0/1 -1.68 1 32 -1.68 -1.68 C219-reactive peptide FLJ39207 -0.75 -1.68 down PTC Norm 16 16 publication 15735049 4 7 212 375790 AGRN agrin affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 33454_at 33454_at agrin_AGRN AGRN down FTC PTC;Norm 9 19 provided by authors 15337802 10 16 725 399563 FLJ43806 hypothetical protein FLJ43806 affy_probe_2_Entrez 1 1 14 -2.56 down 1 0 0/1 -2.56 1 14 -2.56 -2.56 37151_at 37151_at Clone 23836 mRNA sequence 20 -2.56 -2.56 down no PTC GT 8 6 publication 15515157 9 14 645 439921 MXRA7 matrix-remodelling associated 7 affy_probe_2_Entrez 1 1 24 -3.15 down 1 0 0/1 -3.15 1 24 -3.15 -3.15 212509_s_at 212509_s_at ESTs, Weakly similar to hypothetical protein FLJ22184 [Homo sapiens] [H.sapiens] -3.15 -3.15 down 0.000001 FA FTC 12 12 provided by authors 15713710 10 16 720 439957 LOC439957 similar to Ig kappa chain V region (Z4) - human affy_probe_2_Entrez 1 1 14 -2.23 down 1 0 0/1 -2.23 1 14 -2.23 -2.23 31386_at 31386_at Human kappa immunoglobulin IGK -2.23 -2.23 down yes PTC GT 8 6 publication 15515157 19 32 1405 440270 LOC440270 golgin-67 tag_2_refseq_or_mgc_2_Entrez 1 1 2 0 up 1 0 1/0 0 0 0 0 0 ATCCTTTTAT ATCCTTTTAT golgin-67 up 0.0001 FVPTC Norm 1 1 publication 14715705 14 21 980 442472 LOC442472 similar to H2A-Bbd clone_accession_2_NCBI_rna_accession_2_Entrez 1 1 14 2.8 up 1 0 1/0 2.8 1 14 2.80 2.80 AA703660 AA703660 H2A histone family 2.8 2.80 up PTC Norm 7 7 publication 15041723 4 7 273 442871 C11orf32 chromosome 11 open reading frame 32 affy_probe_2_Entrez 1 1 28 0 down 1 0 0/1 0 0 0 0 0 38411_at 38411_at sortilin-related receptor, L(DLR class) A repeats-containing_SORL1 SORL1 down FTC PTC;Norm 9 19 provided by authors 15337802