Anna Goldenberg

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Benjamin Haibe-KainsScientist (Principal Investigator), Princess Margaret Cancer Centre, University Health NetworkVerified email at uhnresearch.ca
Petr SmirnovPhD Candidate, Medical Biophysics, University of TorontoVerified email at utoronto.ca
Bo WangLead AI Scientist, PMCC UHN; CIFAR AI Chair, Vector Institute; Assistant Professor, U of TorontoVerified email at vectorinstitute.ai
Michael BrudnoProfessor of Computer Science, University of Toronto; Chief Data Scientist, UHNVerified email at cs.toronto.edu
Stephen E Fienberg 1942-2016Maurice Falk University Professor of Statistics and Social ScienceVerified email at cs.cmu.edu
John QuackenbushHarvard T.H. Chan School of Public Health, Channing Division of Network Medicine, and Dana-FarberVerified email at hsph.harvard.edu
Marc FiumeUniversity of TorontoVerified email at cs.toronto.edu
Edoardo M AiroldiProfessor of Statistics & Data Science Temple University & PI, Harvard UniversityVerified email at fas.harvard.edu
Andrew MooreDean, School of Computer Science, Carnegie MellonVerified email at cs.cmu.edu
sara mostafaviUniversity of WashingtonVerified email at cs.washington.edu
Zhuowen TuProfessor, Cognitive Science, Computer Science&Engineering, UC San DiegoVerified email at ucsd.edu
Quaid MorrisComputational and Systems Biology Program, Memorial Sloan Kettering Cancer CenterVerified email at mskcc.org
Sohrab ShahMemorial Sloan Kettering Cancer CenterVerified email at mskcc.org
Galit ShmueliDistinguished Professor, National Tsing Hua UniversityVerified email at iss.nthu.edu.tw
Gary BaderProfessor of Molecular Genetics and Computer Science, The Donnelly Centre, University of TorontoVerified email at utoronto.ca
Zhaolei Zhang, ProfessorUniversity of Toronto, Donnelly Centre, Dept of Molecular Genetics, Dept of Computer ScienceVerified email at utoronto.ca
Yue LiMcGill UniversityVerified email at cs.mcgill.ca
David BleiProfessor of Statistics and Computer Science, Columbia UniversityVerified email at columbia.edu
Mohammed AlshalalfaBioinformatician and Genomic AnalystVerified email at ucalgary.ca
Gerald QuonAssistant Professor, University of California, DavisVerified email at ucdavis.edu

Anna Goldenberg

Scientist, SickKids Research Institute; Assistant Professor Department of Computer Science, University of Toronto

Verified email at utoronto.ca - Homepage

machine learning computational biology network modeling disease heterogeneity data integration


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Similarity network fusion for aggregating data types on a genomic scale B Wang, AM Mezlini, F Demir, M Fiume, Z Tu, M Brudno, B Haibe-Kains, ... Nature methods 11 (3), 333-337, 2014	946	2014
A survey of statistical network models A Goldenberg, AX Zheng, SE Fienberg, EM Airoldi Now Publishers Inc, 2010	904	2010
Integrated genomic characterization of pancreatic ductal adenocarcinoma BJ Raphael, RH Hruban, AJ Aguirre, RA Moffitt, JJ Yeh, C Stewart, ... Cancer cell 32 (2), 185-203. e13, 2017	772	2017
Intertumoral heterogeneity within medulloblastoma subgroups FMG Cavalli, M Remke, L Rampasek, J Peacock, DJH Shih, B Luu, ... Cancer cell 31 (6), 737-754. e6, 2017	547	2017
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	299	2018
Early statistical detection of anthrax outbreaks by tracking over-the-counter medication sales A Goldenberg, G Shmueli, RA Caruana, SE Fienberg Proceedings of the National Academy of Sciences 99 (8), 5237-5240, 2002	259	2002
TensorFlow: biology’s gateway to deep learning? L Rampasek, A Goldenberg Cell systems 2 (1), 12-14, 2016	196	2016
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	175	2019
Do no harm: a roadmap for responsible machine learning for health care J Wiens, S Saria, M Sendak, M Ghassemi, VX Liu, F Doshi-Velez, K Jung, ... Nature medicine 25 (9), 1337-1340, 2019	168	2019
PharmacoGx: an R package for analysis of large pharmacogenomic datasets P Smirnov, Z Safikhani, N El-Hachem, D Wang, A She, C Olsen, ... Bioinformatics 32 (8), 1244-1246, 2016	144	2016
iReckon: simultaneous isoform discovery and abundance estimation from RNA-seq data AM Mezlini, EJM Smith, M Fiume, O Buske, GL Savich, S Shah, S Aparicio, ... Genome research 23 (3), 519-529, 2013	130	2013
Explaining image classifiers by counterfactual generation CH Chang, E Creager, A Goldenberg, D Duvenaud arXiv preprint arXiv:1807.08024, 2018	87	2018
What clinicians want: contextualizing explainable machine learning for clinical end use S Tonekaboni, S Joshi, MD McCradden, A Goldenberg Machine learning for healthcare conference, 359-380, 2019	79	2019
Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis SK Sieberts, F Zhu, J García-García, E Stahl, A Pratap, G Pandey, ... Nature communications 7 (1), 1-10, 2016	78	2016
Subtyping: What it is and its role in precision medicine S Saria, A Goldenberg IEEE Intelligent Systems 30 (4), 70-75, 2015	78	2015
Tractable learning of large Bayes net structures from sparse data A Goldenberg, A Moore Proceedings of the twenty-first international conference on Machine learning, 44, 2004	73	2004
Recurrent noncoding U1 snRNA mutations drive cryptic splicing in SHH medulloblastoma H Suzuki, SA Kumar, S Shuai, A Diaz-Navarro, A Gutierrez-Fernandez, ... Nature 574 (7780), 707-711, 2019	68	2019
Revisiting inconsistency in large pharmacogenomic studies Z Safikhani, P Smirnov, M Freeman, N El-Hachem, A She, Q Rene, ... F1000Research 5, 2016	65	2016
To embed or not: network embedding as a paradigm in computational biology W Nelson, M Zitnik, B Wang, J Leskovec, A Goldenberg, R Sharan Frontiers in genetics 10, 381, 2019	53	2019
Biological embedding of experience: A primer on epigenetics MJ Aristizabal, I Anreiter, T Halldorsdottir, CL Odgers, TW McDade, ... Proceedings of the National Academy of Sciences 117 (38), 23261-23269, 2020	51	2020

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