Complete Publications

Updated February 22, 2017.
  1. Krzywinski M and Hirst M. SnapShot: Epigenomic Assays. Cell. 2016 Nov 17;167(5):1430-1430. E1. doi: 10.1016/j.cell.2016.11.015. PMID: 27863253

  2. Stunnenberg HG, The International Human Epigenome Consortium, and Hirst M. The International Human Epigenome Consortium: A Blueprint for Scientific Collaboration and Discovery. Cell. 2016 Nov 17;167(5):1145-1149. doi: 10.1016/j.cell.2016.11.007. PMID: 27863232

  3. Pellacani D, Bilenky M, Kannan N, Heravi-Moussavi A, Knapp DJ, Gakkhar S, Moksa M, Carles A, Moore R, Mungall AJ, Marra MA, Jones SJ, Aparicio S, Hirst M and Eaves CJ. Analysis of Normal Human Mammary Epigenomes Reveals Cell-Specific Active Enhancer States and Associated Transcription Factor Networks. Cell Rep. 2016 Nov 15;17(8):2060-2074. doi: 10.1016/j.celrep.2016.10.058. PMID: 27851968

  4.  Lorzadeh A, Bilenky M, Hammond C, Knapp DJ, Li L, Miller PH, Carles A, Heravi-Moussavi A, Gakkhar S, Moksa M, Eaves CJ and Hirst MNucleosome Density ChIP-Seq Identifies Distinct Chromatin Modification Signatures Associated with MNase Accessibility. Cell Rep. 2016 Nov 15;17(8):2112-2124. doi: 10.1016/j.celrep.2016.10.055. PMID: 27851972           

  5.  Leung K, Klaus A, Lin BK, Laks E, Biele J, Lai D, Bashashati A, Huang YF, Aniba R, Moksa M, Steif A, Mes-Masson AM, Hirst M, Shah SP, Aparicio S, Hansen CL. Robust high-performance nanoliter-volume single-cell multiple displacement amplification on planar substrates. Proc Natl Acad Sci USA. 2016 Jul 26;113(30):8484-9. doi: 10.1073/pnas.1520964113. Epub 2016 Jul 13. PMID: 27412862  

  6.  Chun HJ, Lim EL, Heravi-Moussavi A, Saberi S, Mungall KL, Bilenky M, Carles A, Tse K, Shlafman I, Zhu K, Qian JQ, Palmquist DL, He A, Long W, Goya R, Ng M, LeBlanc VG, Pleasance E, Thiessen N, Wong T, Chuah E, Zhao YJ, Schein JE, Gerhard DS, Taylor MD, Mungall AJ, Moore RA, Ma Y, Jones SJ, Perlman EJ, Hirst M, Marra MA. Genome-Wide Profiles of Extra-cranial Malignant Rhabdoid Tumors Reveal Heterogeneity and Dysregulated Developmental Pathways. Cancer Cell. 2016 Mar 14;29(3):394-406. doi: 10.1016/j.ccell.2016.02.009. PMID: 26977886

  7. Katayoon Kasaian, Sam M Wiseman, Blair A Walker, Jacqueline E Schein, Martin Hirst, Richard A Moore, Andrew J Mungall, Marco A Marra, Steven JM Jones. Putative BRAF Activating Fusion in a Medullary Thyroid Cancer. Molecular Case Studies. 2015 Dec 23, doi: 10.1101/mcs.a000729.

  8. Katayoon Kasaian, Sam M Wiseman, Blair A Walker, Jacqueline E Schein, Yongjun Zhao, Martin Hirst, Richard A Moore, Andrew J Mungall, Marco A Marra, Steven JM Jones. The Genomic Landscape of Anaplastic Thyroid Cancer: Implications for Therapy. BMC Cancer.  2015 Dec 18;15(1):984. doi: 10.1186/s12885-015-1955-9.

  9. Nguyen LV, Pellacani D, Lefort S, Kannan N, Osako T, Makarem M, Cox CL, Kennedy W, Beer P, Carles A, Moksa M, Bilenky M, Balani S, Babovic S, Sun I, Rosin M, Aparicio S, Hirst M, Eaves CJ. Barcoding reveals complex clonal dynamics of de novo transformed human mammary cells. Nature. 2015 Dec 10;528(7581):267-71. doi: 10.1038/nature15742. Epub 2015 Dec 2.

  10. Lussier A, Comeau W, Bodnar T, Mingay M, Hirst M, Kobor MS, Weinberg J. Prenatal alcohol exposure alters the developmental methylation profile of the rat hypothalamus. Int J Dev Neurosci. 2015 Dec;47(Pt A):109. doi: 10.1016/j.ijdevneu.2015.04.298

  11. Linehan WM, Cancer Genome Atlas Research Network, et al. Comprehensive Molecular Characterization of Papillary Renal-Cell Carcinoma. N Engl J Med. 2016 Jan 14;374(2):135-45. doi: 10.1056/NEJMoa1505917. Epub 2015 Nov 4.

  12. Long V. Nguyen, Davide Pellacani, Nagarajan Kannan, Maisam Makarem, Tomo Osako, Claire L. Cox, William Kennedy, Philip Beer, Annaick Carles, Michelle Moksa, Sonja Babovic, Samuel Aparicio, Martin Hirst and Connie J. Eaves. Barcoding reveals an unexpected sequence of malignant change by normal human mammary cells. Nature,  2015 Dec 10;528(7581):267-71. doi: 10.1038/nature15742. Epub 2015 Dec 2.

  13. Julia Pon, Jackson Wong, Saeed Saberi ,Olivia Alder , Michelle Moksa, Grace Cheng, Gregg B. Morin , Pamela A. Hoodless, Martin Hirst, Marco Marra. MEF2B Mutations in Non-Hodgkin Lymphoma Dysregulate Cell Migration by Decreasing Transcriptional Activation of MEF2B Target Genes. Nature Communications. 2015 Aug 6;6:7953. doi: 10.1038/ncomms8953.

  14. Dyke SO, Cheung WA, Joly Y, Ammerpohl O, Lutsik P, Rothstein MA, Caron M, Busche S, Bourque G, Rönnblom L, Flicek P, Beck S, Hirst M, Stunnenberg H, Siebert R, Walter J, Pastinen T. Epigenome data release: a participant-centered approach to privacy protection. Genome Biol. 2015 Jul 17;16:142. doi: 10.1186/s13059-015-0723-0.

  15. Adam Deveau, A. Forrester, Andrew Coombs, Gretchen Wagner, Clemens Grabher, Ian Chute, Daniel Léger, Matthew Mingay, Gabriela Alexe, Vinothkumar Rajan, Robert Liwski, Martin Hirst, Kimberly Stegmaier, Stephen Lewis, Thomas Look, and Jason Berman. Epigenetic therapy restores normal hematopoiesis in a zebrafish model of NUP98-HOXA9-induced myeloid disease. Leukemia. 2015 May 28. doi: 10.1038/leu.2015.126.

  16. Anglesio MS, Bashashati A, Wang YK, Senz J, Ha G, Yang W, Aniba MR, Prentice LM, Farahani H, Li Chang H, Karnezis AN, Marra MA, Yong PJ, Hirst M, Gilks B, Shah SP, Huntsman DG. Multifocal endometriotic lesions associated with cancer are clonal and carry a high mutation burden. Journal of Pathology. 2015 Feb 18. doi: 10.1002/path.4516.

  17. Roadmap Epigenomics Consortium et al.; Integrative analysis of 111 reference human epigenomes. Nature, 2015 Feb 19;518(7539):317-30. doi: 10.1038/nature14248.

  18. Philippe Gascard, Mikhail Bilenky, Mahvash Sigaroudinia, Jianxin Zhao, Stephanie Cho, Angela Tam, Baljit Kamoh , Malachi Griffith , Andy Chu, Andrew Robertson, Dorothy Cheung, Haiyan Li, Allen Delaney, Luolan Li, Annaick Carles, Alireza Heravi-Moussavi, Raman Nagarajan, Chibo Hong, Lorigail Echipare, Henriette O'Geen, Matthew Hangauer , Jeffrey Cheng , Dana Neel , Michael McManus , Richard Moore , Andrew Mungall , Elad Ziv , Ting Wang , Peggy Farnham , Steven Jones , Marco Marra , Thea Tlsty , Joseph Costello, Martin Hirst. Epigenetic and transcriptional determinants of mammary gland development. Nature Communications, Article number: 6351. Doi: 10.1038/ncomms7351. Received 05 Nov 2014. Accepted 22 Jan 2015. Published 18 Feb 2015.

  19. GiNell Elliott, Chibo Hong, Xin Zhou, Daofeng Li, Cristian Coarfa, Robert JA Bell, Cecile L   Maire, Keith L Ligon, Mahvash Sigaroudinia, Philippe Gascard, Thea D Tlsty, R Alan Harris, Leonard C Schalkwyk, Misha Bilenky, Jonathan Mill, Peggy J Farnham, Manolis Kellis, Marco A Marra, Aleksandar Milosavljevic, Martin Hirst, Gary D Stormo, Ting Wang, Joseph F Costello. Intermediate DNA Methylation is a Conserved Signature of Genome RegulationNature Communications, 2015 Feb 18;6:6363. Doi: 10.1038/ncomms7363.
  20. Kulic I, Robertson G, Chang L, Baker J.H.E, Lockwood W, Mok W, Fuller M, Fournier M, Wong N, Chou V, Robinson M.D, Chun H.J, Gilks B, Kempkes B, Thomson T.A, Hirst M, Minchinton A.I, Lam W.L, Jones S, Marra M, Karsan A.  Loss of the Notch effector RBPJ promotes tumorigenesis. The Journal of Experimental Medicine (JEM). 2014 Dec 15. pii: jem.20121192
  21. Rebecca F. Lowdon, Bo Zhang, Misha Bilenky, Thea Mauro, Daofeng Li, Philippe Gascard, Mahvash Sigaroudinia, Peggy J. Farnham, Boris Bastian, Thea D. Tlsty, Marco A. Marra, Martin Hirst, Joseph F. Costello, Ting Wang, Jeffrey B. Cheng.   Regulatory Network Decoded from Epigenomes of Surface Ectoderm-Derived Cell Types. Nature Communications. 2014 Nov 25;5:5442. doi: 10.1038/ncomms6442.

  22. Berg T1, Thoene S, Yap D, Wee T, Schoeler N, Rosten P, Lim E, Bilenky M, Mungall AJ, Oellerich T, Lee S, Lai CK, Umlandt P, Salmi A, Chang H, Yue L, Lai D,Cheng G, Morin RD, Hirst M, Serve HS, Marra MA, Morin GB, Gascoyne RD, Aparicio SA, Humphries RK. A transgenic mouse model demonstrating the oncogenic role of mutations in the polycomb-group gene EZH2 in lymphomagenesis. Blood. 2014 Jun 19; 123(25):3914-24.

  23. Matthew Mingay, Martin Hirst. The Epigenomic Tool kit. Drug Discovery Today: Disease Models. DOI: 10.1016/j.ddmod.2014.05.004. Epub 2014 August 22.
  24. Mack SC, Witt H, Piro RM, Gu L, Zuyderduyn S, Stütz AM, Wang X, Gallo M, Garzia L, Zayne K, Zhang X, Ramaswamy V, Jäger N, Jones DT, Sill M, Pugh TJ, Ryzhova M, Wani KM, Shih DJ, Head R, Remke M, Bailey SD, Zichner T, Faria CC, Barszczyk M, Stark S, Seker-Cin H, Hutter S, Johann P, Bender S, Hovestadt V3, Tzaridis T, Dubuc AM, Northcott PA, Peacock J, Bertrand KC, Agnihotri S, Cavalli FM, Clarke I, Nethery-Brokx K, Creasy CL, Verma SK, Koster J, Wu X, Yao Y, Milde T, Sin-Chan P, Zuccaro J, Lau L, Pereira S, Castelo-Branco P, Hirst M, Marra MARoberts SS, Fults D, Massimi L, Cho YJ, Van Meter T, Grajkowska W, Lach B, Kulozik AE, von Deimling A, Witt O, Scherer SW, Fan X, Muraszko KM, Kool M, Pomeroy SL, Gupta N, Phillips J,Huang A, Tabori U, Hawkins C, Malkin D, Kongkham PN, Weiss WA, Jabado N, Rutka JT, Bouffet E, Korbel JO, Lupien M, Aldape KD, Bader GD, Eils R, Lichter P, Dirks PB, Pfister SM, Korshunov A, Taylor MD. Epigenomic alterations define lethal CIMP-positive ependymomas of infancy. Nature. 2014 Feb 27; 506(7489):445-50. doi: 10.1038/nature13108. Epub 2014 Feb 19. 
  25. Ding H, Moksa MM, Hirst M, Beatty JT. Draft Genome Sequences of Six Rhodobacter capsulatus Strains, YW1, YW2, B6, Y262, R121, and DE442. Genome Announc. 2014 Feb 13;2(1). pii: e00050-14. doi: 10.1128/genomeA.00050-14.
  26. Nguyen LV, Makarem M, Carles A, Moksa M, Kannan N, Pandoh P, Eirew P, Osako T, Kardel M, Cheung AM, Kennedy W, Tse K, Zeng T, Zhao Y, Humphries RK, Aparicio S, Eaves CJ, Hirst M. Clonal Analysis via Barcoding Reveals Diverse Growth and Differentiation of Transplanted Mouse and Human Mammary Stem Cells. Cell Stem Cell. 2014 Feb 6;14(2):253-63. doi: 10.1016/j.stem.2013.12.011. Epub 2014 Jan 16.
  27. Xiang P, Wei W, Lo C, Rosten P, Hou J, Hoodless PA, Bilenky M, Bonifer C, Cockerill PN, Kirkpatrick A, Gottgens B, Hirst M,Humphries KR. Delineating MEIS1 cis-regulatory elements active in hematopoietic cells. Leukemia. 2014 Feb; 28(2):433-6. doi: 10.1038/leu.2013.287. Epub 2013 Oct 7.
  28. Johnson BE, Mazor T, Hong C, Barnes M, Aihara K, McLean CY, Fouse SD, Yamamoto S, Ueda H, Tatsuno K, Asthana S, Jalbert LE, Nelson SJ, Bollen AW, Gustafson WC, Charron E, Weiss WA, Smirnov IV, Song JS, Olshen AB, Cha S, Zhao Y, Moore RA, Mungall AJ, Jones SJ, Hirst M, Marra MA, Saito N, Aburatani H, Mukasa A, Berger MS, Chang SM, Taylor BS, Costello JF. Mutational analysis reveals the origin and therapy-driven evolution of recurrent glioma. Science. 2014 Jan 10;343(6167):189-93. doi: 10.1126/science.1239947. Epub 2013 Dec 12.
  29. Bosdet IE, Docking T Roderick, Butterfield YS, Mungall A, Zeng T, Coope R, Yorida E, Chow K, Bala M, Young S, Hirst M, Birol I, Moore RA, Jones S, Marra M, Holt R, Karsan A. A Clinically Validated Diagnostic Second-Generation Sequencing Assay for Detection of Hereditary BRCA1 and BRCA2 Mutations. Journal of Molecular Diagnostics. 2013 Nov,15(6):796-809. DOI: 10.1016/j.jmoldx.2013.07.004 (Epub 2013 Oct 04).
  30. Cheung AM, Nguyen LV, Carles A, Beer P, Miller PH, Knapp DJ, Dhillon K, Hirst M, Eaves CJ. Analysis of the clonal growth and differentiation dynamics of primitive barcoded human cord blood cells in NSG mice. Blood. 2013 Oct 31;122(18):3129-37. doi: 10.1182/blood-2013-06-508432. Epub 2013 Sep 12.
  31. Shah NR, Moksa M, Novikov A, Perry MB, Hirst M, Caroff M, Fernandez RC. Draft Genome Sequences of Bordetella hinzii and Bordetella trematum. Genome Announc. 2013 Oct 24;1(5). pii: e00838-13. doi: 10.1128/genomeA.00838-13.
  32. Novikov A, Shah NR, Albitar-Nehme S, Basheer SM, Trento I, Tirsoaga A, Moksa M, Hirst M, Perry MB, Hamidi AE, Fernandez RC, Caroff M. Complete Bordetella avium, Bordetella hinzii and Bordetella trematum lipid A structures and genomic sequence analyses of the loci involved in their modifications. Innate Immun. 2013 Oct 14. 20(6):659-672. [Epub ahead of print].
  33. Chang, K and The Cancer Genome Atlas Network. The Cancer Genome Atlas Pan-Cancer analysis project. Nature Genetics. 2013 Oct;45(10):1113-20. doi: 10.1038/ng.2764.
  34. Zhang B,  Zhou Y, Lin N, Lowdon RF, Hong CB, Nagarajan RP, Cheng JB, Li DF, Stevens M, Lee HJ, Xing XY, Zhou J, Sundaram V, Elliot G, Gu JC, Shi TP, Gascard P, Sigaroudinia M, Tisty TD, Kadlecek T, Weiss A, O’Geen H, Farnham PJ, Maire CL, Ligon KL, Madden PAF, Tam A, Moore R, Hirst M, Marra MA, Zhang B, Costello JF, Wang T. Functional DNA methylation differences between tissues, cell types, and across individuals discovered using the M&M algorithm. Genome Research. 2013 Sep;23(9):1522-40. doi: 10.1101/gr.156539.113. Epub 2013 Jun 26. 
  35. Stevens M, Cheng JB, Li DF, Xie MC, Hong CB, Maire CL, Ligon KL,  Hirst M, Marra MA, Costello JF, Wang T. Estimating absolute methylation levels at single-CpG resolution from methylation enrichment and restriction enzyme sequencing methods. Genome Research. Sep 2013 23(9):1541-1553. Doi: 10.1101/gr. 152231.112.
  36. Blaschke K, Ebata KT,  Karimi M.M, Zepeda-Martínez J.A, Goyal P, Mahapatra S, Tam A, Laird D.J, Hirst M, Rao A, Lorincz M.C, Ramalho-Santos M. Vitamin C induces Tet-mediated DNA demethylation in ES cells to promote a blastocyst-like methylome. Nature. 2013 Aug 8;500(7461):222-6. doi: 10.1038/nature12362. Epub 2013 Jun 30
  37. Xie M, Hong C, Zhang B, Lowdon RF, Xing X, Li D, Zhou X, Lee HJ, Maire CL, Ligon KL, Gascard P, Sigaroudinia M, Tlsty TD, Kadlecek T, Weiss A, O'Geen H, Farnham PJ, Madden PA, Mungall AJ, Tam A, Kamoh B, Cho S, Moore R, Hirst M, Marra MA, Costello JF, Wang T. DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape. Nat Genet. 2013 Jul;45(7):836-41. doi: 10.1038/ng.2649. Epub 2013 May 26.
  38. Kasaian K, Wiseman SM, Thiessen N, Mungall KL, Corbett RD, Qian JQ, Nip KM, He A, Tse K, Chuah E, Varhol RJ, Pandoh P, McDonald H, Zeng T, Tam A, Schein J, Birol I, Mungall AJ, Moore RA, Zhao Y, Hirst M, Marra MA, Walker BA, Jones SJ. Complete Genomic Landscape of a Recurring Sporadic Parathyroid Carcinoma. J Pathol. 2013 Jul;230(3):249-60. doi: 10.1002/path.4203.
  39. Cancer Genome Atlas Research Network. Genomic and epigenomic landscapes of adult de novo acute myeloid leukemia. N Engl J Med. 2013 May 30;368(22):2059-74. doi: 10.1056/NEJMoa1301689. Epub 2013 May 1.
  40. Dvinge H, Git A, Gräf S, Salmon-Divon M, Curtis C, Sottoriva A, Zhao Y, Hirst M, Armisen J, Miska EA, Chin SF, Provenzano E, Turashvili G, Green A, Ellis I, Aparicio S, Caldas C. The shaping and functional consequences of the microRNA landscape in breast cancer. Nature 2013 May 16;497(7449):378-82. doi: 10.1038/nature12108. Epub 2013 May 5..
  41. Pugh TJ, Morozova O, Attiyeh EF, Asgharzadeh S, Wei JS, Auclair D, Carter SL, Cibulskis K, Hanna M, Kiezun A, Kim J, Lawrence MS, Lichenstein L, McKenna A, Pedamallu CS, Ramos AH, Shefier E, Sivachenko A, Sougnez C, Stewart C, Ally A, Birol I, Chiu R, Corbett RD, Hirst M, Jackman SD, Kamoh B, Khodabakshi AH, Krzywinski M, Lo A, Moore RA, Mungall KL, Qian J, Tam A, Thiessen N, Zhao YJ, Cole KA, Diamond M, Diskin SJ, Mosse YP, Wood AC, Ji L, Sposto R, Badgett T, London WB, Moyer Y, Gastier-Foster JM, Smith MA, Auvil JM, Gerhard DS, Hogarty MD, Jones SJ, Lander ES, Gabriel SB, Getz G, Seeger RC, Khan J, Marra MA, Meyerson M, Maris JM. The genomic landscape of high-risk neuroblastoma.  Nature Genetics. 2013 Mar;45(3):279-84. doi: 10.1038/ng.2529. Epub 2013 Jan 20.
  42. Hirst M. Epigenomics: sequencing the methylome. Methods Mol Biol. 2013;973:39-54. doi: 10.1007/978-1-62703-281-0_3.
  43. Falconer E, Hills M, Naumann U, Poon SSS, Chavez EA, Sanders AD,  Zhao Y, Hirst M, Lansdorp PM. DNA template strand sequencing of single-cells maps genomic rearrangements at high resolution. Nature Methods. 2012 Nov;9(11):1107-12. doi: 10.1038/nmeth.2206. Epub 2012 Oct 7.
  44. Nielsen, C B; Younesy, H; O'Geen, H; Xu, X; Jackson, AR; Milosavljevic, Ar; Wang, T; Costello, J F; Hirst, M; Farnham, PJ; Jones, S J M. Spark: A navigational paradigm for genomic data exploration. Genome research. 2012Nov 22(11): 2262-9 doi: 10.1101/gr.140665.112.
  45. Koboldt DC, Fulton RS, McLellan MD, Schmidt H, Kalicki-Veizer J, McMichael JF, Fulton LL, Dooling DJ, Ding L, Mardis ER, Wilson RK, Ally A, Balasundaram M, Butterfield YS, Carlsen R, Carter C, Chu A, Chuah E, Chun HJ, Coope RJ, Dhalla N, Guin R, Hirst C,Hirst, M, Holt RA, Lee D et al. Comprehensive molecular portraits of human breast tumours. Nature. 2012Oct4; 490(7418):61-70   Doi: 10.1038/nature11412.
  46. Ha, G; Roth, A; Lai, D; Bashashati, A; Ding, JR; Goya,R; Giuliany, R; Rosner, J; Oloumi, A; Shumansky, K; Chin, SF; Turashvili, G; Hirst, M ; Caldas, C; Marra, M; Aparicio, S; Shah, SP.  Integrative analysis of genome-wide loss of heterozygosity and monoallelic expression at nucleotide resolution reveals disrupted pathways in triple-negative breast cancer. Genome Research. 2012Oct;22(10):1995-2007. 10.1101/gr.137570.112.
  47. Hammerman PS and The Cancer Genome Atlas Network. Comprehensive genomic characterization of squamous cell lung cancers. Nature 2012 Sep 27;489(7417):519-25. doi: 10.1038/nature11404.
  48. McConechy MK, Ding J, Cheang MC, Wiegand KC, Senz J, Tone AA, Yang W, Prentice LM, Tse K, Zeng T, McDonald H, Schmidt AP, Mutch DG, McAlpine JN, Hirst M, Shah SP, Lee CH, Goodfellow PJ, Gilks CB, Huntsman DG. Use of mutation profiles to refine the classification of endometrial carcinomas. J Pathol. 2012 Sep;228(1):20-30. doi: 10.1002/path.4056. Epub 2012 Jul 18.
  49. Roberts KG, Morin R, Zhang J, Hirst M, Zhao Y, Su X, Chen S, Payne-Turner D, Churchman M, Chen X, Harvey R, Kasap C, Yan C, J Becksfort J, Finney R, Teachey D, Maude S, Tse K, Moore R, Jones S, Mungall K,  Birol I, Edmonson M, Hu Y, Buetow K, Chen IM, Carol W, Wei L, Ma J, Kleppe M, Levine R, Garcia-Manero G, Larsen E, Shah N, Devidas M, Reaman G, Smith M, Paugh S, Evans W, Grupp S, Jeha S, Pui CH, Gerhard D, Downing J, Willman C, Loh M, Hunger S, Marra M, Mullighan CG. Genetic alterations activating kinase and cytokine receptor signaling in high risk acute lymphoblastic leukemia. Cancer Cell. 2012 Aug 14;22(2):153-66.
  50. Crisan A, Goya R, Ha G, Ding J, Prentice LM, Oloumi A, Senz J, Zeng T, Tse K, Delaney A, Marra MA, Huntsman DG, Hirst M, Aparicio S, Shah S. Mutation Discovery in Regions of Segmental Cancer Genome Amplifications with CoNAn-SNV: A Mixture Model for Next Generation Sequencing of Tumors. PLoS One. 2012;7(8):e41551. Epub 2012 Aug 16.
  51. Kucherlapati R and The Cancer Genome Atlas Network. Comprehensive Molecular Characterization of Human Colon and Rectal tumors. Nature. 2012 Jul 18;487(7407):330-7. doi: 10.1038/nature11252.
  52. Wu C, Wyatt AW, Lapuk AV, McPherson A, McConeghy BJ, Bell RH, Anderson S, Haegert A, Brahmbhatt S, Shukin R, Fazli L, Hurtado-Coll A, Butterfield YS, Boutros PC, Bristow RG, Jones SJ, Hirst M, Marra MA, Maher CA, Chinnaiyan AM, Sahinalp SC, Gleave ME, Volik SV, Collins CC. Integrated genome and transcriptome sequencing identifies a novel case of hybrid and aggressive prostate cancer. J Pathol. Epub 2012 Mar 21. 2012 May;227(1):53-61. doi: 10.1002/path.3987.
  53. Shah SP, Roth A, Goya R, Oloumi A, Ha G, Zhao Y, Turashvili G, Ding J, Tse K, Haffari G, Bashashati A, Prentice L, Khattra J, Burleigh A, Yap D, Bernard V, McPherson A, Shumansky K, Crisan A, Giuliany R, Heravi-Moussavi A, Rosner J, Lai D, Birol I, Varhol R, Tam A, Dhalla N, Zeng T, Ma K, Chan S, Griffith M, Moradian A, Cheng SWG, Morin GB, Watson P, Gelmon K, Chia S, Chin SF, Curtis C, Rueda O, Pharoah P, Damaraju S, Mackey J, Hoon K, Harkins T, Tadigotla V, Sigaroudinia M, Gascard P, Tlsty T, Costello J, Meyer IM, Eaves CJ, Wasserman WW, Jones SJ, Huntsman D, Hirst M, Caldas C, Marra MA, Aparicio S. The clonal and mutational evolution spectrum of primary triple-negative breast cancers. Nature. 2012 Apr 4. [Epub ahead of print] .
  54. Roth A, Morin R, Ding J, Crisan A, Ha G, Giuliany R, Bashashati A, Hirst M, Turashvili G, Oloumi A, Marra MA, Aparicio S, Shah SP. JointSNVMix : A Probabilistic Model For Accurate Detection Of Somatic Mutations In Normal/Tumour Paired Next Generation Sequencing Data. Bioinformatics. 2012 Apr 1;28(7):907-13. Epub 2012 Jan 27.
  55. Collins CC, Volik SV, Lapuk A, Wang Y, Gout PW, Wu C, Xue H, Cheng H, Haegert A, Bell RH, Brahmbhatt S, Anderson S, Fazli L, Hurtado-Coll A, Rubin MA, Demichelis F, Beltran H, Hirst M, Marra MA, Maher CA, Chinnaiyan AM, Gleave ME, Bertino JR, Lubin M, Wang Y. Next Generation Sequencing of Prostate Cancer from a Patient Identifies a Deficiency of Methylthioadenine Phosphorylase (MTAP), an Exploitable Tumor Target. Mol Cancer Ther. 2012 Mar;11(3):775-83. doi: 10.1158/1535-7163.MCT-11-0826. Epub 2012 Jan 17.
  56. Heravi-Moussavi A, Anglesio MS, Cheng SW, Senz J, Yang W, Prentice L, Fejes AP, Chow C, Tone A, Kalloger SE, Hamel N, Roth A, Ha G, Wan AN, Maines-Bandiera S, Salamanca C, Pasini B, Clarke BA, Lee AF, Lee CH, Zhao C, Young RH, Aparicio SA, Sorensen PH, Woo MM, Boyd N, Jones SJ, Hirst M, Marra MA, Gilks B, Shah SP, Foulkes WD, Morin GB, Huntsman DG. Recurrent somatic DICER1 mutations in nonepithelial ovarian cancers. N Engl J Med. 2012 Jan 19;366(3):234-42. doi: 10.1056/NEJMoa1102903. Epub 2011 Dec 21.
  57. Yip S, Butterfield YS, Morozova O, Chittaranjan S, Blough MD, An J, Birol I, Chesnelong C, Chiu R, Chuah E, Corbett R, Docking R, Firme M, Hirst M, Jackman S, Karsan A, Li H, Louis DN, Maslova A, Moore R, Moradian A, Mungall KL, Perizzolo M, Qian J, Roldan G, Smith EE, Tamura-Wells J, Thiessen N, Varhol R, Weiss S, Wu W, Young S, Zhao Y, Mungall AJ, Jones SJ, Morin GB, Chan JA, Cairncross JG, Marra MA. Concurrent CIC mutations, IDH mutations, and 1p/19q loss distinguish oligodendrogliomas from other cancers. J Pathol. 2012 Jan;226(1):7-16. doi: 10.1002/path.2995. Epub 2011 Nov 10.
  58. Ding J, Bashashati A, Roth A, Oloumi A, Tse K, Zeng T, Haffari G, Hirst M, Marra MA, Condon A, Aparicio S, Shah SP. Feature based classifiers for somatic mutation detection in tumour-normal paired sequencing data. Bioinformatics. 2012 Jan 15;28(2):167-75. doi: 10.1093/bioinformatics/btr629. Epub 2011 Nov 13.
  59. Huang Y, Sitwala K, Bronstein J, Sanders D, Dandekar M, Collins C, Robertson G, Macdonald J, Cezard T, Bilenky M, Thiessen N, Zhao Y, Zeng T, Hirst M, Hero A, Jones S, Hess JL. Identification and characterization of Hoxa9 binding sites in hematopoietic cells. Blood. 2012 Jan 12;119(2):388-98. doi: 10.1182/blood-2011-03-341081. Epub 2011 Nov 9.
  60. Zhou X, Maricque B, Xie M, Li D, Sundaram V, Martin EA, Koebbe BC, Nielsen C, Hirst M, Farnham P, Kuhn RM, Zhu J, Smirnov I, Kent WJ, Haussler D, Madden PA, Costello JF, Wang T. The Human Epigenome Browser at Washington University. Nat Methods. 2011 Nov 29;8(12):989-90. doi: 10.1038/nmeth.1772. No abstract available.
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  62. Morin RD, Mendez-Lago M, Mungall AJ, Goya R, Mungall KL, Corbett RD, Johnson NA, Severson TM, Chiu R, Field M, Jackman S, Krzywinski M, Scott DW, Trinh DL, Tamura-Wells J, Li S, Firme MR, Rogic S, Griffith M, Chan S, Yakovenko O, Meyer IM, Zhao EY, Smailus D, Moksa M, Chittaranjan S, Rimsza L, Brooks-Wilson A, Spinelli JJ, Ben-Neriah S, Meissner B, Woolcock B, Boyle M, McDonald H, Tam A, Zhao Y, Delaney A, Zeng T, Tse K, Butterfield Y, Birol I, Holt R, Schein J, Horsman DE, Moore R, Jones SJ, Connors JM, Hirst M, Gascoyne RD, Marra MA. Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma.  Nature 2011 Jul 27;476(7360):298-303
  63. Schrader KA, Heravi-Moussavi A, Waters PJ, Senz J, Whelan J, Ha G, Eydoux P, Nielsen T, Gallagher B, Oloumi A, Boyd N, Fernandez BA, Young TL, Jones SJ, Hirst M, Shah SP, Marra MA, Green J, Huntsman DG. Using next-generation sequencing for the diagnosis of rare disorders: a family with retinitis pigmentosa and skeletal abnormalities. J Pathol. 2011 Sep;225(1):12-8
  64. Heuser M, Yun H, Berg T, Yung E, Argiropoulos B, Kuchenbauer F, Park G, Hamwi I, Palmqvist L, Lai CK, Leung M, Lin G, Chaturvedi A, Thakur BK, Iwasaki M, Bilenky M, Thiessen N, Robertson G, Hirst M, Kent D, Wilson NK, Göttgens B, Eaves C, Cleary ML, Marra M, Ganser A, Humphries RK. Cell of Origin in AML: Susceptibility to MN1-Induced Transformation Is Regulated by the MEIS1/AbdB-like HOX Protein Complex. Cancer Cell. 2011 Jul 12;20(1):39-52
  65. O'Connor MD, Wederell E, Robertson G, Delaney A, Morozova O, Poon SS, Yap D, Fee J, Zhao Y, McDonald H, Zeng T, Hirst M, Marra MA, Aparicio SA, Eaves CJ. Retinoblastoma-binding proteins 4 and 9 are important for human pluripotent stem cell maintenance. Exp Hematol. 2011 Aug;39(8):866-879.e1.
  66. McPherson A, Hormozdiari F, Zayed A, Giuliany R, Ha G, Sun MG, Griffith M, Heravi Moussavi A, Senz J, Melnyk N, Pacheco M, Marra MA, Hirst M, Nielsen TO, Sahinalp SC, Huntsman D, Shah SP. deFuse: an algorithm for gene fusion discovery in tumor RNA-Seq data. PLoS Comput Biol. 2011 May;7(5):e1001138.
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  68. Blahnik KR, Dou L, Echipare L, Iyengar S, O'Geen H, Sanchez E, Zhao YJ, Marra MA, Hirst M, Costello JF, Korf I, Farnham PJ.  Characterization of the contradictory chromatin signatures at the 3' exons of zinc finger genes. PLoS One. 2011 Feb 15;6(2):e17121.
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  79. Griffith M, Griffith O, Mwenifumbo J, Goya R, Morrissy S, Morin RD, Corbett R, Tang MJ, Hou YC, Pugh TJ, Robertson G, Chittaranjan S, Ally A, Asano JK, Chan SY, Li HI, McDonald H, Teague K, Zhao Y, Zeng T, Delaney A, Hirst M, Morin GB, Jones SJM, Tai IT, Marra MA. Alternative expression analysis by RNA sequencing.  Nature Methods. 2010;7(10), 843-847.
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  81. Morozova O, Vojvodic M, Grinshtein N, Hansford LM, Blakely KM, Maslova A, Hirst M, Cezard T, Morin RD, Moore R, Smith KM, Miller F, Taylor P, Thiessen N, Varhol R, Zhao Y, Jones SJ, Moffat J, Kislinger T, Moran MF, Kaplan D, Marra MA. Systems-level analysis of neuroblastoma tumor-initiating cells implicates AURKB as a novel drug target for neuroblastoma. Clin Cancer Res. 2010 Jul 22. Epub ahead of print
  82. Morin RD, Zhao Y, Prabhu AL, Dhalla N, McDonald H, Pandoh P, Tam A, Zeng T, Hirst M, Marra M. Preparation and Analysis of MicroRNA Libraries Using the Illumina Massively Parallel Sequencing Technology. Methods Mol Biol. 2010;650:173-199.
  83. Jones SJM, Laskin J, Li YY, Griffith OL, An J, Bilenky M, Butterfield YS, Cezard T, Chuah E, Corbett R, Fejes A, Griffith M, Yee J, Martin M, Mayo M, Melnyk N, Morin RD, Pugh TJ, Severson T, Shah SP, Sutcliffe M, Tam A, Terry J, Thiessen N, Thomson T, Varhol R, Zeng T, Zhao YJ, Moore RA, Huntsman DG, Birol I, Hirst M, Holt RA, Marra MA.  Evolution of an adenocarcinoma in response to selection by targeted kinase inhibitors. Genome Biology 2010, 11:R82 9Aug2010. (Nominated for the Biology Prize at Biomed Central’s 5th Annual Research Awards).
  84. Hoffman B, Robertson G, Zavaglia B, Beach M, Cullum R, Lee S, Soukhatcheva G, Li L, Wederell ED, Thiessen N, Bilenky M, Cezard T, Tam A, Kamoh B, Birol I, Dai D, Zhai YJ, Hirst M, Verchere B, Helgason CD, Marra MA, Jones SJM, Hoodless PA.  Identifying functional Foxa2, Hnf4a and Pdx1 sites.  Genome Res. 2010 Aug:1037-1051. Epub 2010 Jun 15.
  85. Flibotte S, Edgley ML, Chaudhry I, Taylor J, Neil SE, Rogula A, Zapf R, Hirst M, Butterfied Y, Jones SJ, Marra MM, Barstead RJ, Moerman DG. Whole-Genome Profiling of Mutagenesis in Caenorhabditis elegans. Genetics. 2010 Jun;185(2):431-41. Epub 2010 May 3.
  86. Atanur SS, Birol I, Guryev V, Hirst M, Hummel O, Morrissey C, Behmoaras J, Fernandez-Suarez X, Johnson M, McLaren W, Patone G, Petretto E, Plessy C, Rockland K, Rockland K, Saar K, Zhao Y, Carninci P, Flicek P, Kurtz T, Cuppen E, Pravencec M, Hubner N, Jones SJ, Birney E, Aitman T.  The genome sequence of the spontaneously hypertensive rat: Analysis and functional significance.  Genome Res. 2010 Jun;20(6):791-803. Epub 2010 Apr 29.
  87. Hudson TJ,Hirst M, etal.  International network of cancer genome projects.  International Cancer genome consortium.  Nature. 2010 Apr 15;464(7291):993-8.
  88. Goya R, Sun MG, Morin RD, Leung G, Ha G, Wiegand KC, Senz J, Crisan A, Marra MA, Hirst M, Huntsman D, Murphy KP, Aparicio S, Shah SP.  SNVMix:  predicting single nucleotide variants from next generation sequencing of tumors.  Bioinformatics. 2010 Mar 15;26(6):730-6., Feb 3
  89. Morin RD, Johnson NA, Severson TM, Mungall AJ, An J, Paul JE, Uyar B, Boyle M, Kuchenbauer F, Petriv OI, Humphries RK, Griffith O, Shah S, Corbett R, Tam A, Varhol R, Zhao YJ, Delaney A, Qian H, Birol I, Aparicio S, Schein J, Moore R, Holt R, Horsman DE, Connors JM, Jones S, Hirst M, Gascoyne RD, Marra MA. EZH2 (Y641) is Frequently Mutated in Follicular and Diffuse Large B-cell Lymphomas of Germinal Center Origin. Nat Genet. 2010, Feb;42(2):181-5 Epub 2010 Jan 17.
  90. Starczynowski D, Kuchenbauer F, Argiropoulos B, Sung S, Morin R, Muranyi A, Hirst M, Hogge D, Marra M, Wells R, Lam W, Humphries K, Karsan A.  Identification of miR-145 and miR-146a as mediators of the 5q-syndrome phenotype.  Nature Methods. 2010 Jan;16(1):49-58. Epub 2009 Nov 8.
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  92. Morozova O, Hirst M, Marra MA. Applications of new sequencing technologies fortranscriptome analysis. Annu Rev Genomics Hum Genet. 2009 Sept;10:135-51.
  93. The MGC Project Teams (incl Hirst M, Zeng T, Tse K, Moksa M, Deng M, Ma K, Mah D, Pang J, Taylor G, Chuah E, Deng A, Fichter K, Go A, Lee S, Wang J, Griffith M, Morin R, Moore RA, Mayo M, Munro S, Wagner S, Jones SJM, Holt RA, Marra MA). The Completion of the Mammalian Gene Collection (MGC). Genome Res. 2009 Oct 28. 19: 2324-2333
  94. Diguistini S, Liao NY, Platt D, Robertson G, Seidel M, Chan SK, Docking TR, Birol I, Holt RA, Hirst M, Mardis E, Marra MA, Hamelin RC, Bohlmann J, Breuil C,  Jones SJ. De novo genome sequence assembly of a filamentous fungus using Sanger, 454 and Illumina sequence data. Genome Biol. 2009 Sep 11;10(9):R94. [Epub ahead of print]
  95. Friedländer MR, Adamidi C, Han T, Lebedeva S, Isenbarger TA, Hirst M, Marra M, Nusbaum C, Lee WL, Jenkin JC, Alvarado AS, Kim JK, Rajewsky N. High-resolution profiling and discovery of planarian small RNAs. Proc Natl Acad Sci U S A. 2009 Jul 14;106(28):11546-51.
  96. Morrissy AS, Morin RD, Delaney A, Zeng T, McDonald H, Jones SJ, Zhao Y, Hirst M, Marra MA.  Next-generation tag sequencing for cancer gene expression profiling.  Genome Res.  2009 Oct;19(10):1825-35 [Epub 2009 June 18]
  97. Birol I, Jackman SD, Nielsen C, Qian JQ, Varhol R, Stazyk G, Morin RD, Zhao Y, Hirst M, Schein JE, Horsman DE, Connors JM, Gascoyne RD, Marra MA, Jones SJ.  De novo Transcriptome Assembly with ABySS.  Bioinformatics.  2009 Nov 1;25(21):2872-7. Epub 2009 Jun 15.
  98. Shah S, Köbel M, Senz J, Morin RD, Clarke BA, Wiegand K, Leung G, Zayed A, Mehl E, Kalloger S, Sun M, Guiliany R, Yorida E, Jones S, Varhol R, Swenerton KD, Miller D, Clement PB, Crane C, Madore J, Provencher D, Leung P, DeFazio A, Khattra J, Turashvili G, Zhao YJ, Zeng T, Glover JNM, Vanderhyden B, Zhao C, Parkinson CA, Jimenez-Linan M, Mes-Masson AM, Brenton JD, Aparicio SA, Boyd N, Hirst M, Gilks CB, Marra MA, Huntsman DG.  Mutation of the FOXL2 Gene in Granulosa Cell tumors of the Ovary.  New England JMedicine. 2009 Jun 25;360(26):2719-29. Epub 2009 Jun 10.
  99. Hillier LW, Reinke V, Green P, Hirst M, Marra MA, Waterston RH. Massively parallel sequencing of the poly-adenylated transcriptome of C. elegans. Genome Res. 2009 Apr 19(4):657-666 Epub 2009 Jan 30.
  100. McGhee JD, Fukushige T, Krause MW, Minnema SE, Goszczynski B, Gaudet J, Kohara Y, Bossinger O, Zhao Y, Khattra J, Hirst M, Jones SJ, Marra MA, Ruzanov P, Warner A, Zapf R, Moerman DG, and Kalb JM.  ELT-2 is the predominant transcription factor controlling differentiation and function of the C. elegans intestine, from embryo to adult.  Dev Biol. 2009 Mar 15;327(2):551-565.  Epub 2008 Dec 9.
  101. Kuchenbauer F, Morin RD, Argiropoulos B, Petriv OI, Griffith M, Heuser M, Yung E, Piper J, Delaney A, Prabhu A-L, Zhao Y, McDonald H, Zeng T, Hirst M, Hansen CL, Marra MA and Humphries RK. In depth characterization of the microRNA transcriptome in a leukemia progression model. Genome Res. 2008 Nov;18(11):1787-1797. Epub 2008 Oct 10.
  102. Robertson AG, Bilenky M, Tam A, Zhao Y, Zeng T, Thiessen N, Cezard T, Fejes AP, Wederell ED, Cullum R, Euskirchen G, Krzywinski M, Birol I, Snyder M, Hoodless PA, Hirst M, Marra MA, Jones SJM. (first two are first co-authors) Genome-wide relationship between histone H3 lysine 4 mono- and tri-methylation and transcription factor binding. Genome Res. 2008 Dec;18(12):1906-17. Epub 2008 Sep 11.
  103. Hirst M and Marra MA. Epigenetics and Human Disease. Int J Biochem Cell Biol. 2009 Jan;41(1):136-46. Epub 2008 Sep 24.
  104. Wederell ED, Bilenky M, Cullum R, Thiessen N, Dagpinar M, Delaney A, Varhol R, Zhao Y, Zeng T, Bernier B, Ingham M, Hirst M, Robertson G, Marra MA, Jones SJM and Hoodless PA. Global analysis of in vivo Foxa2-binding sites in mouse adult liver using massively parallel sequencing. Nucleic Acids Res. 2008 Aug;36(14):4549-4564.   Epub 2008 Jul 8.
  105. Morin RD, Bainbridge M,Fejes A, Hirst M, Krzywinski M, Pugh TJ, McDonald H, Varhol R, Jones SJM and Marra MA.   Profiling the HeLa S3 transcriptome using randomly primed cDNA and massively parallel short-read sequencing. BioTechniques. 2008 Jul; 45(1):81-94.
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  107. Shivaswamy S, Bhinge A, Zhao YJ, Jones SJM, Hirst M and Iyer VR.  Dynamic remodeling of individual nucleosomes across a eukaryotic genome in response to transcriptional perturbation.  PLoS Biology. 2008 Mar 18;6(3):e65.
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  110. Hirst M, Delaney A, Rogers SA, Schnerch A, Persaud DR, O’Connor MD, Zeng T, Moksa M, Fichter K, Mah D, Go A, Morin RD, Baross A, Zhao Y, Khattra J, Prabhu A-L, Pandoh P, McDonald H, Asano J, Dhalla N, Ma K, Lee S, Ally A, Chahal N, Menzies S, Siddiqui A, Holt RA, Jones SJM, Gerhard DS, Thomson JA, Eaves CJ and Marra MA.  LongSAGE profiling of nine human embryonic stem cell lines. Genome Biol. 2007 ;8(6):R113.
  111. Robertson G, Hirst M, Bainbridge M, Bilenky M, Zhao Y, Zeng T, Euskirchen G, Bernier B, Varhol R, Delaney A, Thiessen N, Griffith OL, He A, Marra MA, Snyder M, and Jones SJM. Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing. Nat Methods. 2007 Aug;4(8):651-657. Epub 2007 Jun 11.
  112. Joshi PB, Hirst M, Malcolm T, Parent J, Mitchell D, Lund K and Sadowski I.   Identification of protein interaction antagonists using the repressed transactivator two-hybrid system. Biotechniques. 2007 May;42(5):635-644.
  113. Quayle SN, Hare H, Delaney AD, Hirst M, Hwang D, Schein JE, Jones SJM, Marra MA and Sadar MD.  Novel expressed sequences identified in a model of androgen independent prostate cancer.   BMC Genomics. 2007 Jan 26;8:32.
  114. Khattra J, Delaney AD, Zhao Y, Siddiqui A, Asano J, McDonald H, Pandoh P, Dhalla N, Prabhu AL, Ma K, Lee S, Ally A, Tam A, Sa D, Rogers S, Charest D, Stott J, Zuyderduyn S, Varhol R, Eaves C, Jones S, Holt RA, Hirst M, Hoodless PA and Marra MA. Large scale production of SAGE libraries from microdissected tissues, flow-sorted cells, and cell lines. Genome Res. 2007 Jan;17(1):108-116. Epub 2006 Nov 29.
  115. Bainbridge MN, Warren RL, Hirst M, Romanuik T, Zeng T, Go A, Delaney A, Griffith M, Hickenbotham M, Magrini V, Mardis ER, Sadar MD Siddiqui AS, Marra MA and Jones SJM.  Analysis of the prostate cancer cell line LNCaP transcriptome using a sequencing-by-synthesis approach.  BMC Genomics. 2006 Sep 29;7:246.
  116. Siddiqui AS, Khattra J, Delaney AD, Zhao Y, Astell C, Asano J, Babakaiff R, Barber S, Beland J, Bohacec S, Brown-John M, Chand S, Charest D, Charters AM, Cullum R, Dhalla N, Featherstone R, Gerhard DS, Hoffman B, Holt RA, Hou J, Kuo BY-L, Lee LL, Lee S, Leung D, Ma K, Matsuo C, Mayo M, McDonald H, Pradhu A, Pandoh P, Riggins GJ, de Algara TR, Rupert JL, Smailus D, Stott J, Tsai M, Varhol R, Vrljicak P, Wong D, Wu MK, Xie Y-Y, Yang G, Zhang I, Hirst M, Jones SJM, Helgason CD, Simpson EM, Hoodless PA and Marra MA. A mouse altas of gene expression: Large-scale digital gene expression profiles from precisely defined developing C57BL/6J mouse tissues and cells. Proc Natl Acad Sci USA. 2005 Dec 20;102(51):18485-18490.  Epub 2005 Dec 13.
  117. Hirst M, Astell C, Griffith M, Coughlin SM, Moksa M, Zeng T, Smailus DE, Holt RA, Jones S, Marra MA, Petric M, Krajden M, Lawrence D, Mak A, Chow R, Skowronski DM, Tweed A, Goh S, Brunham RC, Robinson J, Bowes V, Sojonky K, Byrne SK, Li Y, Kobasa D, Booth T and Paetzel M. Novel avian influenza H7N3 strain outbreak, British Columbia. Emerg Infect Dis. 2004 Dec;10(12):2192-2195.
  118. Tweed SA, Skowronski DM, David ST, Larder A, Petric M, Lees W, Li Y, Katz J, Krajden M, Tellier R, Halpert C, Hirst M, Astell C, Lawrence D and Mak A. Human illness from avian influenza H7N3, British Columbia. Emerg. Infect. Dis. 2004 Dec;10(12):2196-2199.
  119. Wafa LA, Cheng H, Rao MA, Nelson CC, Cox M, Hirst M, Sadowski I and Rennie PS. Isolation and identification of L-dopa decarboxylase as a protein that binds to and enhances transcriptional activity of the androgen receptor using the repressed transactivator yeast two-hybrid system. Biochem J. 2003 Oct 15;375(Pt2):373-383.
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  121. Estable MC, Hirst M, Bell B, O'Shaughnessy MV and Sadowski I.  Purification of RBF-2, a transcription factor with specificity for the most conserved cis-element of naturally occurring HIV-1 LTRs.  J Biomed Sci. 1999 Sep-Oct;6(5):320-332.
  122. Hirst M, Kobor MS, Kuriakose N, Greenblatt J and Sadowski I.  GAL4 is regulated by the RNA polymerase II holoenzyme-associated cyclin-dependent protein kinase SRB10/CDK8.  Mol Cell. 1999 May;3(5):673-678.
  123. Yokota H, Nickerson DA, Trask BJ, van den Engh G, Hirst M, Sadowski I and Aebersold R. Mapping a protein-binding site on straightened DNA by atomic force microscopy. Anal Biochem. 1998 Nov 15;264(2):158-164.
  124. Estable MC, Bell B, Hirst M and Sadowski I. Naturally occurring human immunodeficiency virus type 1 long terminal repeats have a frequently observed duplication that binds RBF-2 and represses transcription. J Virol. 1998 Aug;72(8):6465-6474.
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