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Michael M. Hoffman
Michael M. Hoffman
Chair and Senior Scientist, University Health Network/Associate 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
170712012
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
2946*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
22862012
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
21232018
A user's guide to the encyclopedia of DNA elements (ENCODE)
ENCODE Project Consortium
PLoS biology 9 (4), e1001046, 2011
8672011
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
7622018
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
7342012
A user's guide to the encyclopedia of DNA elements (ENCODE)
RM Myers, J Stamatoyannopoulos, M Snyder, I Dunham, RC Hardison, ...
PLoS biology 9 (4), 2011
6782011
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
6132013
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
5532019
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
4232014
Transparency and reproducibility in artificial intelligence
B Haibe-Kains, GA Adam, A Hosny, F Khodakarami, ...
Nature 586 (7829), E14-E16, 2020
3842020
Classification and interaction in random forests
D Denisko, MM Hoffman
Proceedings of the National Academy of Sciences 115 (8), 1690-1692, 2018
2592018
Metrics reloaded: recommendations for image analysis validation
L Maier-Hein, A Reinke, P Godau, MD Tizabi, F Buettner, E Christodoulou, ...
Nature methods 21 (2), 195-212, 2024
226*2024
Extending reference assembly models
DM Church, VA Schneider, KM Steinberg, MC Schatz, AR Quinlan, ...
Genome Biol 16, 13, 2015
1922015
Reproducibility standards for machine learning in the life sciences
BJ Heil, MM Hoffman, F Markowetz, SI Lee, CS Greene, SC Hicks
Nature Methods 18 (10), 1132-1135, 2021
1792021
Common limitations of image processing metrics: A picture story
A Reinke, MD Tizabi, CH Sudre, M Eisenmann, T Rädsch, M Baumgartner, ...
arXiv preprint arXiv:2104.05642, 2021
1742021
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
1672004
GA4GH: International policies and standards for data sharing across genomic research and healthcare
HL Rehm, AJH Page, L Smith, JB Adams, G Alterovitz, LJ Babb, ...
Cell genomics 1 (2), 2021
1642021
Umap and Bismap: quantifying genome and methylome mappability
M Karimzadeh, C Ernst, A Kundaje, MM Hoffman
Nucleic acids research 46 (20), e120-e120, 2018
1492018
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