Michael M. Hoffman

Cited by

	All	Since 2016
Citations	20131	12296
h-index	22	20
i10-index	29	27

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20052006200720082009201020112012201320142015201620172018201920202021160 218 219 181 180 202 259 502 1520 1996 2181 2065 2147 2293 2454 2858 469

Co-authors

William Stafford NobleProfessor of Genome Sciences, University of WashingtonVerified email at uw.edu
Jeffrey A. BilmesProfessor of Electrical Engineering and Computer Science, University of Washington SeattleVerified email at uw.edu
Maxwell W LibbrechtAssistant Professor, Computing Science, Simon Fraser UniversityVerified email at sfu.ca
Orion BuskePhenoTipsVerified email at cs.toronto.edu
Ewan BirneyDirector, EMBL-EBIVerified email at ebi.ac.uk
Anshul KundajeAssistant Professor, Dept. of Genetics, Dept. of Computer Science, Stanford UniversityVerified email at stanford.edu
Zhiping WengDirector, Professor of Program in Bioinformatics and Integrative Biology, University ofVerified email at umassmed.edu
Mehran KarimzadehVector Institute and UCSFVerified email at vectorinstitute.ai
Jie WangAssistant Professor of Oncology, Roswell Park Comprehensive Cancer CenterVerified email at roswellpark.org
Ross C. HardisonProfessor of Biochemistry and Molecular Biology, The Pennsylvania State UniversityVerified email at psu.edu
Manolis KellisProfessor of Computer Science, MIT and Broad InstituteVerified email at mit.edu
Jason ErnstAssociate Professor, University of California, Los AngelesVerified email at ucla.edu
Ian DunhamEMBL-EBIVerified email at ebi.ac.uk
Paul EllenbogenPrinceton UniversityVerified email at cs.princeton.edu
Belinda Giardinecomputer programmer, Penn State UniversityVerified email at bx.psu.edu
Robert S HarrisAssistant Research Professor, Pennsylvania State UniversityVerified email at bx.psu.edu
Coby VinerGraduate Student, Department of Computer Science, University of TorontoVerified email at cs.toronto.edu
Jay R HesselberthAssociate Professor of Biochemistry & Molecular Genetics, University of Colorado School of MedicineVerified email at cuanschutz.edu
Francis NguyenUniversity of TorontoVerified email at mail.utoronto.ca
Jure LeskovecProfessor of Computer Science, Stanford UniversityVerified email at cs.stanford.edu

Michael M. Hoffman

Scientist, Princess Margaret Cancer Centre/Associate Professor, University of Toronto

Verified email at utoronto.ca - Homepage

Epigenomics Computational Genomics Machine Learning Computational Biology Bioinformatics


Title Sort by citations Sort by year Sort by 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	11605	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	2414	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	1564	2012
A user's guide to the encyclopedia of DNA elements (ENCODE) ENCODE Project Consortium PLoS biol 9 (4), e1001046, 2011	1216	2011
Opportunities and obstacles for deep learning in biology and medicine T Ching, DS Himmelstein, BK Beaulieu-Jones, AA Kalinin, BT Do, ... Journal of The Royal Society Interface 15 (141), 20170387, 2018	762	2018
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	559	2012
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	487	2013
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	307	2014
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	234	2018
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	144	2019
Extending reference assembly models DM Church, VA Schneider, KM Steinberg, MC Schatz, AR Quinlan, ... Genome Biol 16, 13, 2015	134	2015
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	133	2004
Classification and interaction in random forests D Denisko, MM Hoffman Proceedings of the National Academy of Sciences 115 (8), 1690-1692, 2018	57	2018
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	57	2016
Umap and Bismap: quantifying genome and methylome mappability M Karimzadeh, C Ernst, A Kundaje, MM Hoffman Nucleic acids research 46 (20), e120-e120, 2018	55	2018
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	54	2015
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	52	2010
Estimating the neutral rate of nucleotide substitution using introns MM Hoffman, E Birney Molecular Biology and Evolution 24 (2), 522-531, 2007	44	2007
An effective model for natural selection in promoters MM Hoffman, E Birney Genome Research 20 (5), 685-692, 2010	35	2010
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	27	2016

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