List of Faculty Publications

Below is a list of Faculty publications imported from PubMed or manually added. By default, publications are sorted by year with titles displayed in ascending alphabetical order.
Shortcuts: Wühr, Martin | Wingreen, Ned | Wieschaus, Eric | Troyanskaya, Olga | Tilghman, Shirley | Storey, John | Singh, Mona | Shvartsman, Stanislav | Shaevitz, Joshua | Rabinowitz, Joshua | Murphy, Coleen | Levine, Michael {Levine, Michael S.} | Gregor, Thomas | Botstein, David | Bialek, William | Ayroles, Julien | Andolfatto, Peter | Akey, Joshua

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User-Computer Interface
C. L. Myers, Chen, X., and Troyanskaya, O. G., Visualization-based discovery and analysis of genomic aberrations in microarray data., BMC Bioinformatics, vol. 6, p. 146, 2005.
M. A. Hibbs, Dirksen, N. C., Li, K., and Troyanskaya, O. G., Visualization methods for statistical analysis of microarray clusters., BMC Bioinformatics, vol. 6, p. 115, 2005.
G. Wallace, Anshus, O. J., Bi, P., Chen, H., Chen, Y., Clark, D., Cook, P., Finkelstein, A., Funkhouser, T., Gupta, A., Hibbs, M., Li, K., Liu, Z., Samanta, R., Sukthankar, R., and Troyanskaya, O., Tools and applications for large-scale display walls., IEEE Comput Graph Appl, vol. 25, no. 4, pp. 24-33, 2005.
C. Huttenhower, Schroeder, M., Chikina, M. D., and Troyanskaya, O. G., The Sleipnir library for computational functional genomics., Bioinformatics, vol. 24, no. 13, pp. 1559-61, 2008.
O. G. Troyanskaya, Putting microarrays in a context: integrated analysis of diverse biological data., Brief Bioinform, vol. 6, no. 1, pp. 34-43, 2005.
S. Heinicke, Livstone, M. S., Lu, C., Oughtred, R., Kang, F., Angiuoli, S. V., White, O., Botstein, D., and Dolinski, K., The Princeton Protein Orthology Database (P-POD): a comparative genomics analysis tool for biologists., PLoS One, vol. 2, no. 8, p. e766, 2007.
C. S. Greene and Troyanskaya, O. G., PILGRM: an interactive data-driven discovery platform for expert biologists., Nucleic Acids Res, vol. 39, no. Web Server issue, pp. W368-74, 2011.
E. I. Boyle, Weng, S., Gollub, J., Jin, H., Botstein, D., J Cherry, M., and Sherlock, G., GO::TermFinder--open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes., Bioinformatics, vol. 20, no. 18, pp. 3710-5, 2004.
R. S. G. Sealfon, Hibbs, M. A., Huttenhower, C., Myers, C. L., and Troyanskaya, O. G., GOLEM: an interactive graph-based gene-ontology navigation and analysis tool., BMC Bioinformatics, vol. 7, p. 443, 2006.
Y. Guan, Myers, C. L., Lu, R., Lemischka, I. R., Bult, C. J., and Troyanskaya, O. G., A genomewide functional network for the laboratory mouse., PLoS Comput Biol, vol. 4, no. 9, p. e1000165, 2008.
J. E. Hirschman, Balakrishnan, R., Christie, K. R., Costanzo, M. C., Dwight, S. S., Engel, S. R., Fisk, D. G., Hong, E. L., Livstone, M. S., Nash, R., Park, J., Oughtred, R., Skrzypek, M., Starr, B., Theesfeld, C. L., Williams, J., Andrada, R., Binkley, G., Dong, Q., Lane, C., Miyasato, S., Sethuraman, A., Schroeder, M., Thanawala, M. K., Weng, S., Dolinski, K., Botstein, D., and J Cherry, M., Genome Snapshot: a new resource at the Saccharomyces Genome Database (SGD) presenting an overview of the Saccharomyces cerevisiae genome., Nucleic Acids Res, vol. 34, no. Database issue, pp. D442-5, 2006.
The Gene Ontology in 2010: extensions and refinements., Nucleic Acids Res, vol. 38, no. Database issue, pp. D331-5, 2010.
E. L. Hong, Balakrishnan, R., Dong, Q., Christie, K. R., Park, J., Binkley, G., Costanzo, M. C., Dwight, S. S., Engel, S. R., Fisk, D. G., Hirschman, J. E., Hitz, B. C., Krieger, C. J., Livstone, M. S., Miyasato, S. R., Nash, R. S., Oughtred, R., Skrzypek, M. S., Weng, S., Wong, E. D., Zhu, K. K., Dolinski, K., Botstein, D., and J Cherry, M., Gene Ontology annotations at SGD: new data sources and annotation methods., Nucleic Acids Res, vol. 36, no. Database issue, pp. D577-81, 2008.
R. Nash, Weng, S., Hitz, B., Balakrishnan, R., Christie, K. R., Costanzo, M. C., Dwight, S. S., Engel, S. R., Fisk, D. G., Hirschman, J. E., Hong, E. L., Livstone, M. S., Oughtred, R., Park, J., Skrzypek, M., Theesfeld, C. L., Binkley, G., Dong, Q., Lane, C., Miyasato, S., Sethuraman, A., Schroeder, M., Dolinski, K., Botstein, D., and J Cherry, M., Expanded protein information at SGD: new pages and proteome browser., Nucleic Acids Res, vol. 35, no. Database issue, pp. D468-71, 2007.