Hoffman research group

Michael M. Hoffman

We develop 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.

Software

  • Segway: semi-automated genomic annotation
  • Segtools: segmentation analysis and graphics
  • Genomedata: efficient storage and retrieval
  • Umap and Bismap: tools for quantifying mappability of the genome and methylome
  • BEHST: biological enrichment of hidden sequence targets
  • Virchip: predicting transcription factor binding by learning from the transcriptome

Databases

  • DNAmod: the DNA modification database

People

Meet the team

  • Michael Hoffman
  • Eric Roberts
  • Coby Viner
  • Mehran Karimzadeh
  • Jai Sood
  • Mickael Mendez
  • Rachel Chan
  • Danielle Denisko
  • Francis Nguyen
  • Lee Zamparo
  • Samantha Wilson
  • Matthew McNeil

News

  • 2019-01-03: Michael is an invited speaker at Pacific Symposium on Biocomputing (PSB) 2019 in Kohala Coast, Hawaii, USA. His talk covers: "Modeling methyl-sensitive transcription factor motifs with an expanded epigenetic alphabet".
  • 2018-11-26: Michael is an invited speaker at a special seminar jointly hosted by the School of Computing and the Department of Biomedical and Molecular Sciences at Queen's University, Kingston, Ontario. His talk covers: "Identifying transcription factor binding using open chromatin, transcriptome, and methylation data".
  • 2018-11-07: Michael is an invited speaker and co-chair of the Biological Data Science conference at Cold Spring Harbor Laboratory, New York, USA. His talk covers: "Virtual ChIP-seq: predicting transcription factor binding by learning from the transcriptome".
  • 2018-11-04: Michael is an invited speaker and co-chair of the Probabilistic Modeling in Genomics conference at Cold Spring Harbor Laboratory, New York, USA. His talk covers: "Segway and the Graphical Models Toolkit: a framework for probabilistic genomic inference".
  • 2018-09-26: Eric releases Segway 2.0.3.
  • 2018-09-26: Eric releases Genomedata 1.4.4.
  • News archive

Contact

  •  
  • Twitter: @michaelhoffman
  • LinkedIn: michaelmhoffman