Babak Alipanahi

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Brendan FreyFounder & CEO, Deep Genomics; Co-Founder, Vector Institute; Professor, University of TorontoVerified email at psi.toronto.edu
Andrew DelongAssistant Professor, Concordia UniversityVerified email at concordia.ca
Benjamin J. BlencoweProfessor, University of TorontoVerified email at utoronto.ca
Daniele MericoDeep Genomics Inc.Verified email at deepgenomics.com
Hannes BretschneiderDonnelly Centre and Department of Molecular Genetics, University of TorontoVerified email at utoronto.ca
Hui Yuan XiongRenaissance TechnologiesVerified email at psi.toronto.edu
Leo J. LeeSenior Research Scientist, University of TorontoVerified email at psi.toronto.edu
Scherer, Stephen W.The Hospital for Sick Children, Genetics and Genome Biology Program, University of TorontoVerified email at sickkids.ca
Ryan K.C. YuenScientist, Hospital for Sick ChildrenVerified email at sickkids.ca
Ming LiUniversity Professor, University of WaterlooVerified email at uwaterloo.ca
Matthew T. WeirauchAssociate Professor, Cincinnati Children's HospitalVerified email at cchmc.org
Ali GhodsiProfessor of Statistics and Computer Science, University of WaterlooVerified email at uwaterloo.ca
Logan DonaldsonProfessor of Biology, York UniversityVerified email at yorku.ca
Manuel IrimiaCentre for Genomic RegulationVerified email at crg.eu
Nuno Barbosa-MoraisResearch Group Leader, Instituto de Medicina Molecular - LisbonVerified email at medicina.ulisboa.pt
Michael K.K. LeungPhD, University of TorontoVerified email at mail.utoronto.ca
Hamed S. NajafabadiAssistant Professor at McGill UniversityVerified email at mcgill.ca
Timothy R. HughesUniversity of TorontoVerified email at utoronto.ca
Quaid MorrisComputational and Systems Biology Program, Memorial Sloan Kettering Cancer CenterVerified email at mskcc.org
Serge GueroussovPostdoctoral associate, Broad InstituteVerified email at broadinstitute.org

Babak Alipanahi

Google AI, Genomics

Verified email at google.com

Computational Biology Machine Learning


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Predicting the sequence specificities of DNA-and RNA-binding proteins by deep learning B Alipanahi, A Delong, MT Weirauch, BJ Frey Nature biotechnology 33 (8), 831-838, 2015	2016	2015
The human splicing code reveals new insights into the genetic determinants of disease HY Xiong, B Alipanahi, LJ Lee, H Bretschneider, D Merico, RKC Yuen, ... Science 347 (6218), 2015	1063	2015
Identification of novel risk loci, causal insights, and heritable risk for Parkinson's disease: a meta-analysis of genome-wide association studies MA Nalls, C Blauwendraat, CL Vallerga, K Heilbron, S Bandres-Ciga, ... The Lancet Neurology 18 (12), 1091-1102, 2019	564	2019
Widespread intron retention in mammals functionally tunes transcriptomes U Braunschweig, NL Barbosa-Morais, Q Pan, EN Nachman, B Alipanahi, ... Genome research 24 (11), 1774-1786, 2014	499	2014
MBNL proteins repress ES-cell-specific alternative splicing and reprogramming H Han, M Irimia, PJ Ross, HK Sung, B Alipanahi, L David, A Golipour, ... Nature 498 (7453), 241-245, 2013	285	2013
Whole-genome sequencing expands diagnostic utility and improves clinical management in paediatric medicine DJ Stavropoulos, D Merico, R Jobling, S Bowdin, N Monfared, ... NPJ genomic medicine 1 (1), 1-9, 2016	267	2016
Machine learning in genomic medicine: a review of computational problems and data sets MKK Leung, A Delong, B Alipanahi, BJ Frey Proceedings of the IEEE 104 (1), 176-197, 2015	220	2015
Genome-wide characteristics of de novo mutations in autism RKC Yuen, D Merico, H Cao, G Pellecchia, B Alipanahi, ... NPJ genomic medicine 1 (1), 1-10, 2016	177	2016
Underspecification presents challenges for credibility in modern machine learning A D'Amour, K Heller, D Moldovan, B Adlam, B Alipanahi, A Beutel, ... arXiv preprint arXiv:2011.03395, 2020	176	2020
Brain-expressed exons under purifying selection are enriched for de novo mutations in autism spectrum disorder M Uddin, K Tammimies, G Pellecchia, B Alipanahi, P Hu, Z Wang, D Pinto, ... Nature genetics 46 (7), 742-747, 2014	144	2014
Identification of novel risk loci for restless legs syndrome in genome-wide association studies in individuals of European ancestry: a meta-analysis B Schormair, C Zhao, S Bell, E Tilch, AV Salminen, B Pütz, Y Dauvilliers, ... The Lancet Neurology 16 (11), 898-907, 2017	139	2017
Are random forests truly the best classifiers? M Wainberg, B Alipanahi, BJ Frey The Journal of Machine Learning Research 17 (1), 3837-3841, 2016	135	2016
A genetic investigation of sex bias in the prevalence of attention-deficit/hyperactivity disorder J Martin, RK Walters, D Demontis, M Mattheisen, SH Lee, E Robinson, ... Biological psychiatry 83 (12), 1044-1053, 2018	117	2018
PICKY: a novel SVD-based NMR spectra peak picking method B Alipanahi, X Gao, E Karakoc, L Donaldson, M Li Bioinformatics 25 (12), i268-i275, 2009	76	2009
Distance metric learning vs. fisher discriminant analysis B Alipanahi, M Biggs, A Ghodsi Proceedings of the 23rd national conference on Artificial intelligence 2 …, 2008	69	2008
Common variant burden contributes to the familial aggregation of migraine in 1,589 families P Gormley, MI Kurki, ME Hiekkala, K Veerapen, P Häppölä, AA Mitchell, ... Neuron 98 (4), 743-753. e4, 2018	57	2018
The effect of LRRK2 loss-of-function variants in humans N Whiffin, IM Armean, A Kleinman, JL Marshall, EV Minikel, JK Goodrich, ... Nature medicine 26 (6), 869-877, 2020	50	2020
Determining protein structures from NOESY distance constraints by semidefinite programming B Alipanahi, N Krislock, A Ghodsi, H Wolkowicz, L Donaldson, M Li Journal of Computational Biology 20 (4), 296-310, 2013	46	2013
Whole-genome sequencing suggests schizophrenia risk mechanisms in humans with 22q11. 2 deletion syndrome D Merico, M Zarrei, G Costain, L Ogura, B Alipanahi, MJ Gazzellone, ... G3: Genes, Genomes, Genetics 5 (11), 2453-2461, 2015	44	2015
Systems and methods for classifying, prioritizing and interpreting genetic variants and therapies using a deep neural network B Frey, MKK Leung, AT Delong, HY Xiong, B Alipanahi, LJ Lee, ... US Patent 10,185,803, 2019	43	2019

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