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Banks, Eric, Elena Nabieva, Ryan Peterson, and Mona Singh. 2008. “NetGrep: Fast Network Schema Searches in Interactomes.”. Genome Biol 9 (9): R138.

Markowetz, Florian, Dennis Kostka, Olga G Troyanskaya, and Rainer Spang. (2007) 2007. “Nested Effects Models for High-Dimensional Phenotyping Screens.”. Bioinformatics 23 (13).

Pop, Ana, Curtis Huttenhower, Anjali Iyer-Pascuzzi, Philip N Benfey, and Olga G Troyanskaya. 2010. “Integrated Functional Networks of Process, Tissue, and Developmental Stage Specific Interactions in Arabidopsis Thaliana.”. BMC Syst Biol 4: 180.

Song, Jimin, and Mona Singh. (2009) 2009. “How and When Should Interactome-Derived Clusters Be Used to Predict Functional Modules and Protein Function?”. Bioinformatics 25 (23): 3143-50.

Huttenhower, Curtis, Sajid O Mehmood, and Olga G Troyanskaya. 2009. “Graphle: Interactive Exploration of Large, Dense Graphs.”. BMC Bioinformatics 10: 417.

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.

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Song, Jimin, and Mona Singh. 2013. “From Hub Proteins to Hub Modules: The Relationship Between Essentiality and Centrality in the Yeast Interactome at Different Scales of Organization.”. PLoS Comput Biol 9 (2): e1002910.

Ghersi, Dario, and Mona Singh. 2013. “Disentangling Function from Topology to Infer the Network Properties of Disease Genes.”. BMC Syst Biol 7: 5.

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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.

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Huttenhower, Curtis, and Olga G Troyanskaya. 2006. “Bayesian Data Integration: A Functional Perspective.”. Comput Syst Bioinformatics Conf, 341-51.

Pritykin, Yuri, and Mona Singh. 2013. “Simple Topological Features Reflect Dynamics and Modularity in Protein Interaction Networks.”. PLoS Comput Biol 9 (10): e1003243.

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