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Olga Troyanskaya, PhD

Publications since 2011

Zhu, Q. Wong, A. K. Krishnan, A. Aure, M. R. Tadych, A. Zhang, R. Corney, D. C. Greene, C. S. Bongo, L. A. Kristensen, V. N. Charikar, M. Li, K. Troyanskaya, O. G. Targeted exploration and analysis of large cross-platform human transcriptomic compendia. Nat Methods, In process, . (PMID: 25581801)

Park, C. Y. Krishnan, A. Zhu, Q. Wong, A. K. Lee, Y. S. Troyanskaya, O. G. Tissue-aware data integration approach for the inference of pathway interactions in metazoan organisms. Bioinformatics, In process, . (PMID: 25431329)

Quigley, D. Silwal-Pandit, L. Dannenfelser, R. Langerod, A. Vollan, H. K. Vaske, C. Ursini-Siegel, J. Troyanskaya, O. Chin, S. F. Caldas, C. Balmain, A. Borresen-Dale, A. L. Kristensen, V. Lymphocyte invasion in IC10/Basal-like breast tumors is associated with wild-type TP53. Mol Cancer Res, In process, . (PMID: 25351767)

Zhou, J. Troyanskaya, O. G. Global quantitative modeling of chromatin factor interactions. PLoS Comput Biol, 10:e1003525, . (PMID: 24675896, PMCID: PMC3967939)

Vandersluis, B. Hess, D. C. Pesyna, C. Krumholz, E. W. Syed, T. Szappanos, B. Nislow, C. Papp, B. Troyanskaya, O. G. Myers, C. L. Caudy, A. A. Broad metabolic sensitivity profiling of a prototrophic yeast deletion collection. Genome Biol, 15:R64, . (PMID: 24721214, PMCID: PMC4053978)

Lee, Y. S. Krishnan, A. Zhu, Q. Troyanskaya, O. G. Ontology-aware classification of tissue and cell-type signals in gene expression profiles across platforms and technologies. Bioinformatics, 29:3036-3044, . (PMID: 24037214, PMCID: PMC3834796)

Aure, M. R. Leivonen, S. K. Fleischer, T. Zhu, Q. Overgaard, J. Alsner, J. Tramm, T. Louhimo, R. Alnaes, G. I. Perala, M. Busato, F. Touleimat, N. Tost, J. Borresen-Dale, A. L. Hautaniemi, S. Troyanskaya, O. G. Lingjaerde, O. C. Sahlberg, K. K. Kristensen, V. N. Individual and combined effects of DNA methylation and copy number alterations on miRNA expression in breast tumors. Genome Biol, In process, . (PMID: 24257477, PMCID: PMC4053776)

Ju, W. Greene, C. S. Eichinger, F. Nair, V. Hodgin, J. B. Bitzer, M. Lee, Y. S. Zhu, Q. Kehata, M. Li, M. Jiang, S. Rastaldi, M. P. Cohen, C. D. Troyanskaya, O. G. Kretzler, M. Defining cell-type specificity at the transcriptional level in human disease. Genome Res, 23:1862-1873, . (PMID: 23950145, PMCID: PMC3814886)

Caudy, A. A. Guan, Y. Jia, Y. Hansen, C. Desevo, C. Hayes, A. P. Agee, J. Alvarez-Dominguez, J. R. Arellano, H. Barrett, D. Bauerle, C. Bisaria, N. Bradley, P. H. Breunig, J. S. Bush, E. Cappel, D. Capra, E. Chen, W. Clore, J. Combs, P. A. Doucette, C. Demuren, O. Fellowes, P. Freeman, S. Frenkel, E. Gadala-Maria, D. Gawande, R. Glass, D. Grossberg, S. Gupta, A. Hammonds-Odie, L. Hoisos, A. Hsi, J. Hsu, Y. H. Inukai, S. Karczewski, K. J. Ke, X. Kojima, M. Leachman, S. Lieber, D. Liebowitz, A. Liu, J. Liu, Y. Martin, T. Mena, J. Mendoza, R. Myhrvold, C. Millian, C. Pfau, S. Raj, S. Rich, M. Rokicki, J. Rounds, W. Salazar, M. Salesi, M. Sharma, R. Silverman, S. Singer, C. Sinha, S. Staller, M. Stern, P. Tang, H. Weeks, S. Weidmann, M. Wolf, A. Young, C. Yuan, J. Crutchfield, C. McClean, M. Murphy, C. T. Llinas, M. Botstein, D. Troyanskaya, O. G. Dunham, M. J. A new system for comparative functional genomics of Saccharomyces yeasts. Genetics, 195:275-287, . (PMID: 23852385, PMCID: PMC3761308)

Park, C. Y. Wong, A. K. Greene, C. S. Rowland, J. Guan, Y. Bongo, L. A. Burdine, R. D. Troyanskaya, O. G. Functional knowledge transfer for high-accuracy prediction of under-studied biological processes. PLoS Comput Biol, 9:e1002957, . (PMID: 23516347, PMCID: PMC3597527)

Guan, Y. Dunham, M. J. Troyanskaya, O. G. Caudy, A. A. Comparative gene expression between two yeast species. BMC Genomics, 14:33, . (PMID: 23324262, PMCID: PMC3556494)

Wong, A. K. Park, C. Y. Greene, C. S. Bongo, L. A. Guan, Y. Troyanskaya, O. G. IMP: a multi-species functional genomics portal for integration, visualization and prediction of protein functions and networks. Nucleic Acids Res, 40:W484-W490, . (PMID: 22684505, PMCID: PMC3394282)

Chikina, M. D. Troyanskaya, O. G. An effective statistical evaluation of ChIPseq dataset similarity. Bioinformatics, 28:607-613, . (PMID: 22262674, PMCID: PMC3339511)

Greene, C. S. Troyanskaya, O. G. Chapter 2: Data-driven view of disease biology. PLoS Comput Biol, 8:e1002816, . (PMID: 23300408, PMCID: PMC3531282)

Guan, Y. Gorenshteyn, D. Burmeister, M. Wong, A. K. Schimenti, J. C. Handel, M. A. Bult, C. J. Hibbs, M. A. Troyanskaya, O. G. Tissue-specific functional networks for prioritizing phenotype and disease genes. PLoS Comput Biol, 8:e1002694, . (PMID: 23028291, PMCID: PMC3459891)