Anna Goldenberg

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Benjamin Haibe-KainsScientist (Principal Investigator), Princess Margaret Cancer Centre, University Health NetworkVerified email at uhnresearch.ca
Bo WangChief AI Scientist,UHN; CIFAR AI Chair, Vector Institute; Assistant Professor, U of TorontoVerified email at vectorinstitute.ai
Petr SmirnovPostdoctoral Fellow, EMBLVerified email at embl.de
Michael BrudnoProfessor of Computer Science, University of Toronto; Chief Data Scientist, UHNVerified email at cs.toronto.edu
John QuackenbushHarvard T.H. Chan School of Public Health, Channing Division of Network Medicine, and Dana-FarberVerified email at hsph.harvard.edu
Stephen E Fienberg 1942-2016Maurice Falk University Professor of Statistics and Social ScienceVerified email at cs.cmu.edu
Marc FiumeUniversity of TorontoVerified email at cs.toronto.edu
Sara MostafaviUniversity of WashingtonVerified email at cs.washington.edu
Edoardo M AiroldiProfessor of Statistics & Data Science Temple University & PI, Harvard UniversityVerified email at fas.harvard.edu
Quaid MorrisComputational and Systems Biology Program, Memorial Sloan Kettering Cancer CenterVerified email at mskcc.org
Zhuowen TuProfessor, Cognitive Science, Computer Science&Engineering, UC San DiegoVerified email at ucsd.edu
Andrew MooreDean, School of Computer Science, Carnegie MellonVerified email at cs.cmu.edu
Gary BaderProfessor of Molecular Genetics and Computer Science, The Donnelly Centre, University of TorontoVerified email at utoronto.ca
Sohrab ShahMemorial Sloan Kettering Cancer CenterVerified email at mskcc.org
Galit ShmueliChair Professor, National Tsing Hua UniversityVerified email at iss.nthu.edu.tw
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
Mohammed AlshalalfaBioinformatician and Genomic AnalystVerified email at ucalgary.ca
David BleiProfessor of Statistics and Computer Science, Columbia UniversityVerified email at columbia.edu
Gerald QuonAssociate 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	1890	2014
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	1697	2017
A survey of statistical network models A Goldenberg, AX Zheng, SE Fienberg, EM Airoldi Foundations and Trends® in Machine Learning 2 (2), 129-233, 2010	1172	2010
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	1130	2017
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	799	2019
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	771	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	568	2019
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	509	2019
Transparency and reproducibility in artificial intelligence B Haibe-Kains, GA Adam, A Hosny, F Khodakarami, ... Nature 586 (7829), E14-E16, 2020	398	2020
Unsupervised representation learning for time series with temporal neighborhood coding S Tonekaboni, D Eytan, A Goldenberg arXiv preprint arXiv:2106.00750, 2021	314	2021
Machine learning approaches to drug response prediction: challenges and recent progress G Adam, L Rampášek, Z Safikhani, P Smirnov, B Haibe-Kains, ... NPJ precision oncology 4 (1), 19, 2020	307	2020
Explaining image classifiers by counterfactual generation CH Chang, E Creager, A Goldenberg, D Duvenaud arXiv preprint arXiv:1807.08024, 2018	292	2018
TensorFlow: biology’s gateway to deep learning? L Rampasek, A Goldenberg Cell systems 2 (1), 12-14, 2016	291	2016
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	275	2016
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	258	2002
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	247	2020
Applying machine learning in liver disease and transplantation: a comprehensive review A Spann, A Yasodhara, J Kang, K Watt, BO Wang, A Goldenberg, M Bhat Hepatology 71 (3), 1093-1105, 2020	179	2020
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	176	2019
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	173	2019
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	165	2013

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