Michael M. Hoffman
Michael M. Hoffman
Scientist, Princess Margaret Cancer Centre/Assistant Professor, University of Toronto
Verified email at utoronto.ca - Homepage
Title
Cited by
Cited by
Year
An integrated Encyclopedia of DNA Elements in the human genome
ENCODE Project Consortium
Nature 489 (7414), 57-74, 2012
9863*2012
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution
International Chicken Genome Sequencing Consortium
Nature 432 (7018), 695-716, 2004
2260*2004
ChIP-seq guidelines and practices used by the ENCODE and modENCODE consortia
SG Landt, GK Marinov, A Kundaje, P Kheradpour, F Pauli, S Batzoglou, ...
Genome Research 22 (9), 1813-31, 2012
12322012
A user's guide to the encyclopedia of DNA elements (ENCODE)
ENCODE Project Consortium
PLoS biology 9 (4), 2011
11192011
Unsupervised pattern discovery in human chromatin structure through genomic segmentation
MM Hoffman, OJ Buske, J Wang, Z Weng, JA Bilmes, WS Noble
Nature Methods 9 (5), 473, 2012
4722012
Opportunities And Obstacles For Deep Learning In Biology And Medicine. bioRxiv (2017)
T Ching, DS Himmelstein, BK Beaulieu-Jones, AA Kalinin, BT Do, ...
Retrieved from, 2017
446*2017
Integrative annotation of chromatin elements from ENCODE data
MM Hoffman, J Ernst, SP Wilder, A Kundaje, RS Harris, M Libbrecht, ...
Nucleic Acids Res 41 (2), 827-841, 2013
4232013
Comparative analysis of metazoan chromatin organization
JWK Ho, YL Jung, T Liu, BH Alver, S Lee, K Ikegami, KA Sohn, A Minoda, ...
Nature 512 (7515), 449-452, 2014
2702014
AANT: the Amino Acid–Nucleotide Interaction Database
MM Hoffman, MA Khrapov, JC Cox, J Yao, L Tong, AD Ellington
Nucleic Acids Research 32 (Database issue), D174-D181, 2004
1302004
Extending reference assembly models
DM Church, VA Schneider, KM Steinberg, MC Schatz, AR Quinlan, ...
Genome Biol 16, 13, 2015
1192015
Sensitive tumour detection and classification using plasma cell-free DNA methylomes
SY Shen, R Singhania, G Fehringer, A Chakravarthy, MHA Roehrl, ...
Nature 563 (7732), 579-583, 2018
992018
Machine learning for integrating data in biology and medicine: Principles, practice, and opportunities
M Zitnik, F Nguyen, B Wang, J Leskovec, A Goldenberg, MM Hoffman
Information Fusion 50, 71-91, 2019
562019
A dynamic Bayesian network for identifying protein-binding footprints from single molecule-based sequencing data
X Chen, MM Hoffman, JA Bilmes, JR Hesselberth, WS Noble
Bioinformatics 26 (12), i334-i342, 2010
532010
Joint annotation of chromatin state and chromatin conformation reveals relationships among domain types and identifies domains of cell type-specific expression
MW Libbrecht, F Ay, MM Hoffman, DM Gilbert, JA Bilmes, WS Noble
Genome Res 25 (4), 544-557, 2015
462015
Statistical Inference, Learning and Models in Big Data
B Franke, JF Plante, R Roscher, A Lee, C Smyth, A Hatefi, F Chen, E Gil, ...
Int Stat Rev, in press, 2016
452016
Estimating the neutral rate of nucleotide substitution using introns
MM Hoffman, E Birney
Molecular Biology and Evolution 24 (2), 522-531, 2007
412007
An effective model for natural selection in promoters
MM Hoffman, E Birney
Genome Research 20 (5), 685-692, 2010
332010
ChromNet: learning the human chromatin network from all ENCODE ChIP-seq data
SM Lundberg, WB Tu, B Raught, LZ Penn, MM Hoffman, SI Lee
Genome Biol 17, 82, 2016
242016
Classification and interaction in random forests
D Denisko, MM Hoffman
Proceedings of the National Academy of Sciences 115 (8), 1690-1692, 2018
222018
Umap and Bismap: quantifying genome and methylome mappability
M Karimzadeh, C Ernst, A Kundaje, MM Hoffman
Nucleic acids research 46 (20), e120-e120, 2018
202018
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