Huttenhower, Curtis, Matthew A Hibbs, Chad L Myers, Amy A Caudy, David C Hess, and Olga G Troyanskaya. (2009) 2009. “The Impact of Incomplete Knowledge on Evaluation: An Experimental Benchmark for Protein Function Prediction.”. Bioinformatics 25 (18): 2404-10.

Sealfon, Rachel S G, Matthew A Hibbs, Curtis Huttenhower, Chad L Myers, and Olga G Troyanskaya. 2006. “GOLEM: An Interactive Graph-Based Gene-Ontology Navigation and Analysis Tool.”. BMC Bioinformatics 7: 443.

Guan, Yuanfang, Cheryl L Ackert-Bicknell, Braden Kell, Olga G Troyanskaya, and Matthew A Hibbs. 2010. “Functional Genomics Complements Quantitative Genetics in Identifying Disease-Gene Associations.”. PLoS Comput Biol 6 (11): e1000991.

Myers, Chad L, Daniel R Barrett, Matthew A Hibbs, Curtis Huttenhower, and Olga G Troyanskaya. 2006. “Finding Function: Evaluation Methods for Functional Genomic Data.”. BMC Genomics 7: 187.

Huttenhower, Curtis, Erin M Haley, Matthew A Hibbs, Vanessa Dumeaux, Daniel R Barrett, Hilary A Coller, and Olga G Troyanskaya. (2009) 2009. “Exploring the Human Genome With Functional Maps.”. Genome Res 19 (6): 1093-106.

Hibbs, Matthew A, David C Hess, Chad L Myers, Curtis Huttenhower, Kai Li, and Olga G Troyanskaya. (2007) 2007. “Exploring the Functional Landscape of Gene Expression: Directed Search of Large Microarray Compendia.”. Bioinformatics 23 (20): 2692-9.

Myers, Chad L, Drew Robson, Adam Wible, Matthew A Hibbs, Camelia Chiriac, Chandra L Theesfeld, Kara Dolinski, and Olga G Troyanskaya. 2005. “Discovery of Biological Networks from Diverse Functional Genomic Data.”. Genome Biol 6 (13): R114.

Hibbs, Matthew A, Chad L Myers, Curtis Huttenhower, David C Hess, Kai Li, Amy A Caudy, and Olga G Troyanskaya. (2009) 2009. “Directing Experimental Biology: A Case Study in Mitochondrial Biogenesis.”. PLoS Comput Biol 5 (3): e1000322.

Hess, David C, Chad L Myers, Curtis Huttenhower, Matthew A Hibbs, Alicia P Hayes, Jadine Paw, John J Clore, et al. (2009) 2009. “Computationally Driven, Quantitative Experiments Discover Genes Required for Mitochondrial Biogenesis.”. PLoS Genet 5 (3): e1000407.

Huttenhower, Curtis, Chad L Myers, Matthew A Hibbs, and Olga G Troyanskaya. 2009. “Computational Analysis of the Yeast Proteome: Understanding and Exploiting Functional Specificity in Genomic Data.”. Methods Mol Biol 548: 273-93.

Hibbs, Matthew A, Nathaniel C Dirksen, Kai Li, and Olga G Troyanskaya. 2005. “Visualization Methods for Statistical Analysis of Microarray Clusters.”. BMC Bioinformatics 6: 115.

Guan, Yuanfang, Dmitriy Gorenshteyn, Margit Burmeister, Aaron K Wong, John C Schimenti, Mary Ann Handel, Carol J Bult, Matthew A Hibbs, and Olga G Troyanskaya. 2012. “Tissue-Specific Functional Networks for Prioritizing Phenotype and Disease Genes.”. PLoS Comput Biol 8 (9): e1002694.

Huttenhower, Curtis, Avi I Flamholz, Jessica N Landis, Sauhard Sahi, Chad L Myers, Kellen L Olszewski, Matthew A Hibbs, Nathan O Siemers, Olga G Troyanskaya, and Hilary A Coller. 2007. “Nearest Neighbor Networks: Clustering Expression Data Based on Gene Neighborhoods.”. BMC Bioinformatics 8: 250.