Research Accomplishments & Interests

Dr. Malachi Griffith is a bioinformatics Research Faculty member and Genome Fellow at the Genome Institute. Dr. Griffith's research is focused on the development of genomics, bioinformatics and statistical methods as they apply to the study of cancer biology and medicine. A particular focus of his work is in the translation of genomics data from whole genome, exome and transcriptome sequencing into clinically actionable observations and personalized cancer therapies.

Dr. Griffith is also an instructor for the Canadian Bioinformatics Workshops series. He has received scholarships from the Natural Sciences and Engineering Research Council and was a Junior and Senior Scholar of the Michael Smith Foundation for Health Research. He has also received a Research Studentship from the National Cancer Institute of Canada and Terry Fox Foundation and was ranked #2 nationally in the Biomedical Research Category.

Other Biographical Information

Before coming to Washington University Dr. Griffith was a bioinformatics post-doctoral fellow at the BC Cancer Agency Genome Sciences center in Vancouver, British Columbia. He received his Ph.D. (Medical Genetics, 2009) from the University of British Columbia and B.S. (Biochemistry and Biology with Honors, 2002) from the University of Winnipeg.

Selected Publications

Griffith M, Griffith OL, Mwenifumbo J, Morin RD, Goya R, Tang MJ, Hou YC, Pugh TJ, Robertson G, Chittaranjan S, Ally A, Asano JK, Chan SY, Li I, McDonald H, Teague K, Zhao Y, Zeng T, Delaney AD, Hirst M, Morin GB, Jones SJM, Tai IT, Marra MA. Alternative expression analysis by RNA sequencing. Nature Methods. 2010 Oct;7(10):843-847. PMID: 20835245.

Griffith M, Tang MJ, Griffith OL, Morin RD, Chan SY, Asano JK, Zeng T, Flibotte S, Ally A, Baross A, Hirst M, Jones SJM, Morin GB, Tai IT and Marra MA. ALEXA – A microarray design platform for alternative expression analysis. Nature Methods. 2008 Feb. 5(2):118. PMID: 18235430.

Griffith M and Marra MA. Alternative expression analysis: experimental and bioinformatic approaches for the analysis of transcript diversity. 2007. Chapter 12. Genes Genomes and Genomics, Volume 2. p201-242. Regency Publications. New Delhi.

Morrissy AS, Griffith M, Marra MA. Extensive relationship between antisense transcription and alternative splicing in the human genome. Genome Research. 2011 Aug;21(8):1203-12. Epub 2011 Jun 30. PMID: 21719572.

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. doi: 10.1038/nature10351. PMID: 21796119.

Robertson G, Schein J, Chiu R, Corbett R, Field M, Jackman SD, Mungall K, Lee S, Okada HM, Qian JQ, Griffith M, Raymond A, Thiessen N, Cezard T, Butterfield Y, Newsome R, Chan SK, Varhol R, Kamoh B, Prabhu A, Tam A, Zhao Y, Moore R, Hirst M, Marra MA, Jones SJM, Hoodless PA, Birol I. De novo assembly and analysis of RNA-seq data. Nature Methods. 2010 Nov;7(11):909-12. Epub 2010 Oct 10. PMID: 20935650.

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. Epub 2011 May 19. PMID: 21625565.

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 Y, Moore RA, Huntsman DG, Birol I, Hirst M, Holt RA and Marra MA. Evolution of an adenocarcinoma in response to selection by targeted kinase inhibitors. Genome Biology. 2010, 11:R82. PMID: 20696054

Kuchenbauer F, Morin RD, Argiropoulos B, Griffith M, Heuser M, Yung E, Piper J, Delaney A, Prabhu A, Zhao Y, McDonald H, Zeng T, Hirst M, Marra MA and Humphries RK. In depth characterization of the microRNA transcriptome in a leukemia progression model. Genome Res. 2008 Nov;18(11):1787-97. Epub 2008 Oct 10. PMID: 18849523.

Morin RD, O'Connor MD, Griffith M, Kuchenbauer F, Delaney A, Prabhu A, Zhao Y, McDonald H, Zeng T, Hirst M, Eaves CJ and Marra MA. Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells. Genome Research. 2008. Apr; 18(4):610-21. PMID: 18285502

Bainbridge MN, Warren RL, Hirst M, Romanuik T, Zeng T, Go A, Delany 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(1):246. PMID: 17010196.

   

Publications