Michael M. Hoffman
Michael M. Hoffman
Scientist, Princess Margaret Cancer Centre/Assistant Professor, University of Toronto
Verified email at utoronto.ca - Homepage
TitleCited byYear
An integrated Encyclopedia of DNA Elements in the human genome
ENCODE Project Consortium
Nature 489 (7414), 57-74, 2012
89252012
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
22092004
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
10862012
A user's guide to the encyclopedia of DNA elements (ENCODE)
ENCODE Project Consortium
PLoS biology 9 (4), e1001046, 2011
10792011
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
4302012
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
3752013
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
292*2017
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
2412014
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
1252004
Extending reference assembly models
DM Church, VA Schneider, KM Steinberg, MC Schatz, AR Quinlan, ...
Genome Biol 16, 13, 2015
1052015
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, 2018
512018
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
512010
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
392015
Estimating the neutral rate of nucleotide substitution using introns
MM Hoffman, E Birney
Molecular Biology and Evolution 24 (2), 522-531, 2007
382007
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
362016
An effective model for natural selection in promoters
MM Hoffman, E Birney
Genome Research 20 (5), 685-692, 2010
312010
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
282019
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
212016
Exploratory analysis of genomic segmentations with Segtools
OJ Buske, MM Hoffman, N Ponts, KG Le Roch, WS Noble
BMC Bioinformatics 12 (1), 415, 2011
182011
The Genomedata format for storing large-scale functional genomics data
MM Hoffman, OJ Buske, WS Noble
Bioinformatics 26 (11), 1458-1459, 2010
142010
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