Rene L Warren, Gina Choe, Douglas J Freeman, Mauro Castellarin, Sarah Munro, Richard Moore and Robert A Holt*. 2012. Derivation of HLA types from shotgun sequence datasets. Genome Medicine 4:95 *Corr. Author rholt@bcgsc.ca SRA: http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi SRP010181 ************ INX122 ************ LIMS RUN ID = 120614, 120615, 120616 and 119036 FLOWCELL = B0052ABXX (lanes 3,4,5) and 81CMRABXX (lane 7) CYCLES: 101 patientID sample source index sub_library orginal_source upper_protocol lower_protocol taxonomy_id 30 30-2 control TCATTC A02731 RH114 Ribominus RNA Seq Illumina Index 9606 31 31-2 control TGGCGC A02732 RH115 Ribominus RNA Seq Illumina Index 9606 32 32-2 control GTAGAG A02733 RH116 Ribominus RNA Seq Illumina Index 9606 49 49-2 control TTCGAA A02744 RH127 Ribominus RNA Seq Illumina Index 9606 47 47-2 control TCCCGA A02743 RH126 Ribominus RNA Seq Illumina Index 9606 49 49-1 tumor TGCCAT A02708 RH090 Ribominus RNA Seq Illumina Index 9606 57 57-2 control ATCTAT A02750 RH133 Ribominus RNA Seq Illumina Index 9606 56 56-2 control AGAAGA A02749 RH132 Ribominus RNA Seq Illumina Index 9606 59 59-2 control CCTTAG A02752 RH135 Ribominus RNA Seq Illumina Index 9606 58 58-2 control CAGGCG A02751 RH134 Ribominus RNA Seq Illumina Index 9606 52 52-2 control GCCAAT A02746 RH129 Ribominus RNA Seq Illumina Index 9606 47 47-1 tumor TACAGC A02707 RH089 Ribominus RNA Seq Illumina Index 9606 53 53-2 control AAAGCA A02747 RH130 Ribominus RNA Seq Illumina Index 9606 65 65-1 tumor CCGTCC A02721 RH104 Ribominus RNA Seq Illumina Index 9606 64 64-1 tumor TGCTGG A02720 RH103 Ribominus RNA Seq Illumina Index 9606 63 63-1 tumor TATAAT A02719 RH102 Ribominus RNA Seq Illumina Index 9606 62 62-2 control GCTCCA A02754 RH137 Ribominus RNA Seq Illumina Index 9606 60 60-2 control GAATAA A02753 RH136 Ribominus RNA Seq Illumina Index 9606 54 54-2 control AATAGG A02748 RH131 Ribominus RNA Seq Illumina Index 9606 64 64-2 control TTCTCC A02756 RH139 Ribominus RNA Seq Illumina Index 9606 31 31-1 tumor TGAATG A02696 RH078 Ribominus RNA Seq Illumina Index 9606 30 30-1 tumor TAATCG A02695 RH077 Ribominus RNA Seq Illumina Index 9606 32 32-1 tumor AGTTCC A02697 RH079 Ribominus RNA Seq Illumina Index 9606 22 22-2 control GAGTGG A02728 RH111 Ribominus RNA Seq Illumina Index 9606 21 21-2 control-omitted CACGAT A02727 RH110 Ribominus RNA Seq Illumina Index 9606 20 20-2 control ATACGG A02726 RH109 Ribominus RNA Seq Illumina Index 9606 19 19-2 control ACTCTC A02725 RH108 Ribominus RNA Seq Illumina Index 9606 17 17-2 control AAGCGA A02724 RH107 Ribominus RNA Seq Illumina Index 9606 14 14-2 control CTTGTA A02723 RH106 Ribominus RNA Seq Illumina Index 9606 13 13-2 control TGACCA A02722 RH105 Ribominus RNA Seq Illumina Index 9606 44 44-2 control GCCTTA A02742 RH125 Ribominus RNA Seq Illumina Index 9606 40 40-2 control CACTCA A02739 RH122 Ribominus RNA Seq Illumina Index 9606 42 42-2 control CCGCAA A02740 RH123 Ribominus RNA Seq Illumina Index 9606 36 36-2 control ACTGAT A02737 RH120 Ribominus RNA Seq Illumina Index 9606 37 37-2 control ATCCTA A02738 RH121 Ribominus RNA Seq Illumina Index 9606 34 34-2 control AAACAT A02735 RH118 Ribominus RNA Seq Illumina Index 9606 35 35-2 control AAGGAC A02736 RH119 Ribominus RNA Seq Illumina Index 9606 28 28-2 control GCCGCG A02730 RH113 Ribominus RNA Seq Illumina Index 9606 27 27-2 control CTGCTG A02729 RH112 Ribominus RNA Seq Illumina Index 9606 33 33-1 tumor CGATGT A02698 RH080 Ribominus RNA Seq Illumina Index 9606 62 62-1 tumor GCACTT A02718 RH101 Ribominus RNA Seq Illumina Index 9606 35 35-1 tumor AACTTG A02700 RH082 Ribominus RNA Seq Illumina Index 9606 34 34-1 tumor TAGCTT A02699 RH081 Ribominus RNA Seq Illumina Index 9606 37 37-1 tumor AGGCCG A02702 RH084 Ribominus RNA Seq Illumina Index 9606 36 36-1 tumor ACCGGC A02701 RH083 Ribominus RNA Seq Illumina Index 9606 42 42-1 tumor CCACGC A02704 RH086 Ribominus RNA Seq Illumina Index 9606 40 40-1 tumor CAACTA A02703 RH085 Ribominus RNA Seq Illumina Index 9606 65 65-2 control GTGAAA A02757 RH140 Ribominus RNA Seq Illumina Index 9606 43 43-1 tumor CTATAC A02705 RH087 Ribominus RNA Seq Illumina Index 9606 63 63-2 control TCGAAG A02755 RH138 Ribominus RNA Seq Illumina Index 9606 54 54-1 tumor AAGACT A02712 RH094 Ribominus RNA Seq Illumina Index 9606 56 56-1 tumor ACGATA A02713 RH095 Ribominus RNA Seq Illumina Index 9606 57 57-1 tumor ATAATT A02714 RH096 Ribominus RNA Seq Illumina Index 9606 58 58-1 tumor CACCGG A02715 RH097 Ribominus RNA Seq Illumina Index 9606 59 59-1 tumor CCCATG A02716 RH098 Ribominus RNA Seq Illumina Index 9606 60 60-1 tumor CTCAGA A02717 RH099 Ribominus RNA Seq Illumina Index 9606 27 27-1 tumor CTAGCT A02693 RH075 Ribominus RNA Seq Illumina Index 9606 28 28-1 tumor GATGCT A02694 RH076 Ribominus RNA Seq Illumina Index 9606 53 53-1 tumor GGCTAC A02711 RH093 Ribominus RNA Seq Illumina Index 9606 43 43-2 control GAAACC A02741 RH124 Ribominus RNA Seq Illumina Index 9606 17 17-1 tumor AACCCC A02688 RH070 Ribominus RNA Seq Illumina Index 9606 13 13-1 tumor ATCACG A02686 RH068 Ribominus RNA Seq Illumina Index 9606 50 50-2 control GTCCGC A02745 RH128 Ribominus RNA Seq Illumina Index 9606 22 22-1 tumor CCAACA A02692 RH074 Ribominus RNA Seq Illumina Index 9606 19 19-1 tumor ACCCAG A02689 RH071 Ribominus RNA Seq Illumina Index 9606 20 20-1 tumor AGCGCT A02690 RH072 Ribominus RNA Seq Illumina Index 9606 14 14-1 tumor GATCAG A02687 RH069 Ribominus RNA Seq Illumina Index 9606 52 52-1 tumor TTAGGC A02710 RH092 Ribominus RNA Seq Illumina Index 9606 33 33-2 control ACAGTG A02734 RH117 Ribominus RNA Seq Illumina Index 9606 50 50-1 tumor ATGTCA A02709 RH091 Ribominus RNA Seq Illumina Index 9606 44 44-1 tumor GCAAGG A02706 RH088 Ribominus RNA Seq Illumina Index 9606 21 21-1 tumor-omitted CAAAAG A02691 RH073 Ribominus RNA Seq Illumina Index 9606 ************ INX198 ************ LIMS RUN ID = 120617,120618,120619 and 119993 FLOWCELL = B0052ABXX (lanes 6,7,8) and 81MH9ABXX (lane 7) CYCLES = 101 patientID sample source index sub_library orginal_source upper_protocol lower_protocol taxonomy_id 85 85-2 control TCATTC A04453 RH192 Ribominus RNA Seq Illumina Index 9606 86 86-2 control TGGCGC A04454 RH193 Ribominus RNA Seq Illumina Index 9606 87 87-2 control GTAGAG A04455 RH194 Ribominus RNA Seq Illumina Index 9606 98 98-2 control TTCGAA A04466 RH205 Ribominus RNA Seq Illumina Index 9606 97 97-2 control TCCCGA A04465 RH204 Ribominus RNA Seq Illumina Index 9606 101 101-2 control AAAGCA A04469 RH208 Ribominus RNA Seq Illumina Index 9606 94 94-1 tumor ATGTCA A04431 RH170 Ribominus RNA Seq Illumina Index 9606 92 92-1 tumor TACAGC A04429 RH168 Ribominus RNA Seq Illumina Index 9606 93 93-1 tumor TGCCAT A04430 RH169 Ribominus RNA Seq Illumina Index 9606 70 70-2 control CCGTCC A04443 RH182 Ribominus RNA Seq Illumina Index 9606 69 69-2 control TGCTGG A04442 RH181 Ribominus RNA Seq Illumina Index 9606 68 68-2 control TATAAT A04441 RH180 Ribominus RNA Seq Illumina Index 9606 78 78-1 tumor-omitted TGAATG A04418 RH157 Ribominus RNA Seq Illumina Index 9606 76 76-1 tumor TAATCG A04417 RH156 Ribominus RNA Seq Illumina Index 9606 79 79-1 tumor AGTTCC A04419 RH158 Ribominus RNA Seq Illumina Index 9606 79 79-2 control GAGTGG A04450 RH189 Ribominus RNA Seq Illumina Index 9606 78 78-2 control-omitted CACGAT A04449 RH188 Ribominus RNA Seq Illumina Index 9606 76 76-2 control ATACGG A04448 RH187 Ribominus RNA Seq Illumina Index 9606 75 75-2 control ACTCTC A04447 RH186 Ribominus RNA Seq Illumina Index 9606 74 74-2 control AAGCGA A04446 RH185 Ribominus RNA Seq Illumina Index 9606 73 73-2 control CTTGTA A04445 RH184 Ribominus RNA Seq Illumina Index 9606 71 71-2 control TGACCA A04444 RH183 Ribominus RNA Seq Illumina Index 9606 96 96-2 control GCCTTA A04464 RH203 Ribominus RNA Seq Illumina Index 9606 93 93-2 control CACTCA A04461 RH200 Ribominus RNA Seq Illumina Index 9606 94 94-2 control CCGCAA A04462 RH201 Ribominus RNA Seq Illumina Index 9606 91 91-2 control ACTGAT A04459 RH198 Ribominus RNA Seq Illumina Index 9606 92 92-2 control ATCCTA A04460 RH199 Ribominus RNA Seq Illumina Index 9606 89 89-2 control AAACAT A04457 RH196 Ribominus RNA Seq Illumina Index 9606 90 90-2 control AAGGAC A04458 RH197 Ribominus RNA Seq Illumina Index 9606 83 83-2 control GCCGCG A04452 RH191 Ribominus RNA Seq Illumina Index 9606 81 81-2 control CTGCTG A04451 RH190 Ribominus RNA Seq Illumina Index 9606 81 81-1 tumor CGATGT A04420 RH159 Ribominus RNA Seq Illumina Index 9606 67 67-2 control GCACTT A04440 RH179 Ribominus RNA Seq Illumina Index 9606 85 85-1 tumor AACTTG A04422 RH161 Ribominus RNA Seq Illumina Index 9606 83 83-1 tumor TAGCTT A04421 RH160 Ribominus RNA Seq Illumina Index 9606 87 87-1 tumor AGGCCG A04424 RH163 Ribominus RNA Seq Illumina Index 9606 86 86-1 tumor ACCGGC A04423 RH162 Ribominus RNA Seq Illumina Index 9606 89 89-1 tumor CCACGC A04426 RH165 Ribominus RNA Seq Illumina Index 9606 88 88-1 tumor CAACTA A04425 RH164 Ribominus RNA Seq Illumina Index 9606 91 91-1 tumor GCAAGG A04428 RH167 Ribominus RNA Seq Illumina Index 9606 95 95-1 tumor TTAGGC A04432 RH171 Ribominus RNA Seq Illumina Index 9606 96 96-1 tumor GGCTAC A04433 RH172 Ribominus RNA Seq Illumina Index 9606 97 97-1 tumor AAGACT A04434 RH173 Ribominus RNA Seq Illumina Index 9606 98 98-1 tumor ACGATA A04435 RH174 Ribominus RNA Seq Illumina Index 9606 99 99-1 tumor ATAATT A04436 RH175 Ribominus RNA Seq Illumina Index 9606 100 100-1 tumor CACCGG A04437 RH176 Ribominus RNA Seq Illumina Index 9606 101 101-1 tumor CCCATG A04438 RH177 Ribominus RNA Seq Illumina Index 9606 66 66-2 control CTCAGA A04439 RH178 Ribominus RNA Seq Illumina Index 9606 74 74-1 tumor CTAGCT A04415 RH154 Ribominus RNA Seq Illumina Index 9606 75 75-1 tumor GATGCT A04416 RH155 Ribominus RNA Seq Illumina Index 9606 95 95-2 control GAAACC A04463 RH202 Ribominus RNA Seq Illumina Index 9606 68 68-1 tumor AACCCC A04410 RH149 Ribominus RNA Seq Illumina Index 9606 66 66-1 tumor ATCACG A04408 RH147 Ribominus RNA Seq Illumina Index 9606 99 99-2 control GTCCGC A04467 RH206 Ribominus RNA Seq Illumina Index 9606 73 73-1 tumor CCAACA A04414 RH153 Ribominus RNA Seq Illumina Index 9606 69 69-1 tumor ACCCAG A04411 RH150 Ribominus RNA Seq Illumina Index 9606 70 70-1 tumor AGCGCT A04412 RH151 Ribominus RNA Seq Illumina Index 9606 67 67-1 tumor GATCAG A04409 RH148 Ribominus RNA Seq Illumina Index 9606 88 88-2 control ACAGTG A04456 RH195 Ribominus RNA Seq Illumina Index 9606 100 100-2 control GCCAAT A04468 RH207 Ribominus RNA Seq Illumina Index 9606 71 71-1 tumor CAAAAG A04413 RH152 Ribominus RNA Seq Illumina Index 9606 90 90-1 tumor CTATAC A04427 RH166 Ribominus RNA Seq Illumina Index 9606