Adam A. Margolin

Publication Activity (10 Years)

Years Active: 2005-2021
Publications (10 Years): 13

Top Topics

Top Venues

Pacific Symposium on Biocomputing

Publications

Gonzalo López, Laura E. Egolf, Federico M. Giorgi, Sharon J. Diskin, Adam A. Margolin
svpluscnv: analysis and visualization of complex structural variation data. Bioinform. 37 (13) (2021)
Erik A. Burlingame, Adam A. Margolin, Joe W. Gray, Young Hwan Chang
SHIFT: speedy histopathological-to-immunofluorescent translation of whole slide images using conditional generative adversarial networks. Medical Imaging: Digital Pathology (2018)
Dorota H. Sendorek, Cristian Caloian, Kyle Ellrott, J. Christopher Bare, Takafumi N. Yamaguchi, Adam D. Ewing, Kathleen E. Houlahan, Thea C. Norman, Adam A. Margolin, Joshua M. Stuart, Paul C. Boutros
Germline contamination and leakage in whole genome somatic single nucleotide variant detection. BMC Bioinform. 19 (1) (2018)
Christopher I Cooper, Delia Yao, Dorota H. Sendorek, Takafumi N. Yamaguchi, Christine P'ng, Kathleen E. Houlahan, Cristian Caloian, Michael Fraser, Kyle Ellrott, Adam A. Margolin, Robert G. Bristow, Joshua M. Stuart, Paul C. Boutros
Valection: design optimization for validation and verification studies. BMC Bioinform. 19 (1) (2018)
Young Hwan Chang, Guillaume Thibault, Owen Madin, Vahid Azimi, Cole Meyers, Brett Johnson, Jason Link, Adam A. Margolin, Joe W. Gray
Deep learning based Nucleus Classification in pancreas histological images. EMBC (2017)
Young Hwan Chang, Guillaume Thibault, Brett Johnson, Adam A. Margolin, Joe W. Gray
Integrative analysis on histopathological image for identifying cellular heterogeneity. Medical Imaging: Digital Pathology (2017)
Vahid Azimi, Young Hwan Chang, Guillaume Thibault, Jaclyn Smith, Takahiro Tsujikawa, Benjamin Kukull, Bradden Jensen, Christopher Corless, Adam A. Margolin, Joe W. Gray
Breast cancer histopathology image analysis pipeline for tumor purity estimation. ISBI (2017)
Olga Nikolova, Russell Moser, Christopher Kemp, Mehmet Gönen, Adam A. Margolin
Modeling gene-wise dependencies improves the identification of drug response biomarkers in cancer studies. Bioinform. 33 (9) (2017)
Young Hwan Chang, Takahiro Tsujikawa, Adam A. Margolin, Lisa M. Coussens, Joe W. Gray
Multiplexed immunohistochemistry image analysis using sparse coding. EMBC (2017)
Young Hwan Chang, Guillaume Thibault, Vahid Azimi, Brett Johnson, Danielle Jorgens, Jason Link, Adam A. Margolin, Joe W. Gray
Quantitative analysis of histological tissue image based on cytological profiles and spatial statistics. EMBC (2016)
Benedict Paten, Mark Diekhans, Brian J. Druker, Stephen H. Friend, Justin Guinney, Nadine Gassner, Mitchell Guttman, W. James Kent, Patrick Mantey, Adam A. Margolin, Matt Massie, Adam M. Novak, Frank A. Nothaft, Lior Pachter, David A. Patterson, Maciej Smuga-Otto, Joshua M. Stuart, Laura J. van't Veer, Barbara J. Wold, David Haussler
The NIH BD2K center for big data in translational genomics. J. Am. Medical Informatics Assoc. 22 (6) (2015)
Søren Brunak, Francisco M. de la Vega, Adam A. Margolin, Benjamin J. Raphael, Gunnar Rätsch, Joshua M. Stuart
Session Introduction. Pacific Symposium on Biocomputing (2015)
In Sock Jang, Rodrigo Dienstmann, Adam A. Margolin, Justin Guinney
Stepwise Group Sparse Regression (SGSR): Gene-Set-Based Pharmacogenomic Predictive Models with Stepwise Selection of Functional Priors. Pacific Symposium on Biocomputing (2015)
Mehmet Gönen, Adam A. Margolin
Drug susceptibility prediction against a panel of drugs using kernelized Bayesian multitask learning. Bioinform. 30 (17) (2014)
In Sock Jang, Elias Chaibub Neto, Justin Guinney, Stephen H. Friend, Adam A. Margolin
Systematic Assessment of Analytical Methods for Drug Sensitivity Prediction from Cancer Cell Line Data. Pacific Symposium on Biocomputing (2014)
Elias Chaibub Neto, In Sock Jang, Stephen H. Friend, Adam A. Margolin
The Stream Algorithm: Computationally Efficient Ridge-Regression via Bayesian Model Averaging, and Applications to Pharmacogenomic Prediction of Cancer Cell Line Sensitivity. Pacific Symposium on Biocomputing (2014)
Mehmet Gönen, Adam A. Margolin
Kernelized Bayesian Transfer Learning. AAAI (2014)
Mehmet Gönen, Adam A. Margolin
Localized Data Fusion for Kernel k-Means Clustering with Application to Cancer Biology. NIPS (2014)
Erhan Bilal, Janusz Dutkowski, Justin Guinney, In Sock Jang, Benjamin A. Logsdon, Gaurav Pandey, Benjamin A. Sauerwine, Yishai Shimoni, Hans Kristian Moen Vollan, Brigham H. Mecham, Oscar M. Rueda, Jorg Tost, Christina Curtis, Mariano J. Alvarez, Vessela N. Kristensen, Samuel Aparicio, Anne-Lise Børresen-Dale, Carlos Caldas, Andrea Califano, Stephen H. Friend, Trey Ideker, Eric E. Schadt, Gustavo A. Stolovitzky, Adam A. Margolin
Improving Breast Cancer Survival Analysis through Competition-Based Multidimensional Modeling. PLoS Comput. Biol. 9 (5) (2013)
Adam A. Margolin, Teresa Palomero, Adolfo A. Ferrando, Andrea Califano, Gustavo Stolovitzky
ChIP-on-chip significance analysis reveals ubiquitous transcription factor binding. BMC Bioinform. 8 (S-8) (2007)
Adam A. Margolin, Ilya Nemenman, Katia Basso, Chris Wiggins, Gustavo Stolovitzky, Riccardo Dalla Favera, Andrea Califano
ARACNE: An Algorithm for the Reconstruction of Gene Regulatory Networks in a Mammalian Cellular Context. BMC Bioinform. 7 (S-1) (2006)
Kai Wang, Ilya Nemenman, Nilanjana Banerjee, Adam A. Margolin, Andrea Califano
Genome-Wide Discovery of Modulators of Transcriptional Interactions in Human B Lymphocytes. RECOMB (2006)
Adam A. Margolin, Joel Greshock, Tara L. Naylor, Yael Mosse, John M. Maris, Graham Bignell, Alexander I. Saeed, John Quackenbush, Barbara L. Weber
CGHAnalyzer: a stand-alone software package for cancer genome analysis using array-based DNA copy number data. Bioinform. 21 (15) (2005)