Michael M Hoffman

Michael M Hoffman, PhD

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Michael Hoffman creates predictive computational models to understand interactions between genome, epigenome, and phenotype in human cancers. He implemented the genome annotation method Segway, which simplifies interpretation of large multivariate genomic datasets, and was a linchpin of the NIH ENCODE Project analysis. He is a principal investigator at the Princess Margaret Cancer Centre and Assistant Professor in the Departments of Medical Biophysics and Computer Science, University of Toronto. He was named a CIHR New Investigator and has received several awards for his academic work, including the NIH K99/R00 Pathway to Independence Award, and the Ontario Early Researcher Award. 

The Hoffman group develops machine learning techniques to better understand chromatin biology. These models and algorithms transform high-dimensional functional genomics data into interpretable patterns and lead to new biological insight.


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Bioinformatics. 2017 Sep 22;:
Chan RCW, Libbrecht MW, Roberts EG, Bilmes JA, Noble WS, Hoffman MM
Genome Biol. 2017 Jan 16;18(1):5
Chicco D, Hoffman MM
Brief Bioinform. 2017 Jan 14;:
Karimzadeh M, Hoffman MM
Genome Biol. 2016;17(1):82
Lundberg SM, Tu WB, Raught B, Penn LZ, Hoffman MM, Lee SI
Nat Methods. 2015 Feb 26;12(3):191-2
Viner C, Hoffman MM
Genome Biol. 2015;16(1):13
Church DM, Schneider VA, Steinberg KM, Schatz MC, Quinlan AR, Chin CS, Kitts PA, Aken B, Marth GT, Hoffman MM, Herrero J, Mendoza ML, Durbin R, Flicek P
Nature. 2014 Aug 28;512(7515):449-52
Ho JW, Jung YL, Liu T, Alver BH, Lee S, Ikegami K, Sohn KA, Minoda A, Tolstorukov MY, Appert A, Parker SC, Gu T, Kundaje A, Riddle NC, Bishop E, Egelhofer TA, Hu SS, Alekseyenko AA, Rechtsteiner A, Asker D, Belsky JA, Bowman SK, Chen QB, Chen RA, Day...
Nucleic Acids Res. 2013 Jan;41(2):827-41
Hoffman MM, Ernst J, Wilder SP, Kundaje A, Harris RS, Libbrecht M, Giardine B, Ellenbogen PM, Bilmes JA, Birney E, Hardison RC, Dunham I, Kellis M, Noble WS
Genome Res. 2012 Sep;22(9):1813-31
Landt SG, Marinov GK, Kundaje A, Kheradpour P, Pauli F, Batzoglou S, Bernstein BE, Bickel P, Brown JB, Cayting P, Chen Y, DeSalvo G, Epstein C, Fisher-Aylor KI, Euskirchen G, Gerstein M, Gertz J, Hartemink AJ, Hoffman MM, Iyer VR, Jung YL, Karmakar S,...



Assistant Professor, Department of Medical Biophysics, University of Toronto
Assistant Professor, Department of Computer Science, University of Toronto
Member, Collaborative Graduate Program in Genome Biology and Bioinformatics, University of Toronto