Publications

Found 18 results

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2010
Guan Y, Ackert-Bicknell CL, Kell B, Troyanskaya OG, Hibbs MA.  2010.  Functional genomics complements quantitative genetics in identifying disease-gene associations. PLoS Computational Biology. 6:e1000991. Abstract
Baryshnikova A, Costanzo M, Kim Y, Ding H, Koh J, Toufighi K, Youn J, Ou J, Luis B, Bandyopadhyay S, Hibbs MA, Hess DC, Gingras A, Bader GD, Troyanskaya OG, Brown GW, Andrews B, Boone C, Myers CL.  2010.  Quantitative analysis of fitness and genetic interactions in yeast on a genome scale. Nature Methods. 7:1017–24. Abstract
Gehlenborg N, O'Donoghue SI, Baliga NS, Goesmann A, Hibbs MA, Kitano H, Kohlbacher O, Neuweger H, Schneider R, Tenenbaum D, Gavin A.  2010.  Visualization of omics data for systems biology. Nature Methods. 7:S56-S68. Abstract
2009
Hess DC, Myers CL, Huttenhower C, Hibbs MA, Hayes AP, Paw J, Clore JJ, Mendoza RM, Luis B, Nislow C, Giaever G, Costanzo M, Troyanskaya OG, Caudy AA.  2009.  Computationally driven, quantitative experiments discover genes required for mitochondrial biogenesis. PLoS Genetics. 5:e1000407. Abstract
Hibbs MA, Myers CL, Huttenhower C, Hess DC, Li K, Caudy AA, Troyanskaya OG.  2009.  Directing experimental biology: a case study in mitochondrial biogenesis. PLoS Computational Biology. 5:e1000322. Abstract
Huttenhower C, Haley EM, Hibbs MA, Dumeaux V, Barrett DR, Coller HA, Troyanskaya OG.  2009.  Exploring the human genome with functional maps. Genome Research. 19:1093–106. Abstract
Huttenhower C, Hibbs MA, Myers CL, Caudy AA, Hess DC, Troyanskaya OG.  2009.  The impact of incomplete knowledge on evaluation: an experimental benchmark for protein function prediction. Bioinformatics. Abstract
Hibbs MA.  2009.  The Effects of Pre-processing and Parameter Choices on Searches Through Large Gene Expression Data Collections. IEEE Int Conf on Genomic Signal Processing and Statistics (GENSiPs). Abstract
2007
Hibbs MA, Hess DC, Myers CL, Huttenhower C, Li K, Troyanskaya OG.  2007.  Exploring the functional landscape of gene expression: directed search of large microarray compendia. Bioinformatics. 23:2692–9. Abstract
Haarer B, Viggiano S, Hibbs MA, Troyanskaya OG, Amberg DC.  2007.  Modeling complex genetic interactions in a simple eukaryotic genome: actin displays a rich spectrum of complex haploinsufficiencies. Genes & Development. 21:148–59. Abstract
Huttenhower C, Flamholz AI, Landis JN, Sahi S, Myers CL, Olszewski KL, Hibbs MA, Siemers NO, Troyanskaya OG, Coller HA.  2007.  Nearest Neighbor Networks: clustering expression data based on gene neighborhoods. BMC Bioinformatics. 8:250. Abstract
Hibbs MA, Wallace G, Dunham M, Li K, Troyanskaya OG.  2007.  Viewing the Larger Context of Genomic Data through Horizontal Integration. 11th International Conference Information Visualization (IV07). :326–334. Abstract
2006
Huttenhower C, Hibbs MA, Myers CL, Troyanskaya OG.  2006.  A scalable method for integration and functional analysis of multiple microarray datasets. Bioinformatics. 22:2890–7. Abstract
Myers CL, Barrett DR, Hibbs MA, Huttenhower C, Troyanskaya OG.  2006.  Finding function: evaluation methods for functional genomic data. BMC Genomics. 7:187. Abstract
Sealfon RSG, Hibbs MA, Huttenhower C, Myers CL, Troyanskaya OG.  2006.  GOLEM: an interactive graph-based gene-ontology navigation and analysis tool. BMC Bioinformatics. 7:443. Abstract
2005
Myers CL, Robson D, Wible A, Hibbs MA, Chiriac C, Theesfeld CL, Dolinski K, Troyanskaya OG.  2005.  Discovery of biological networks from diverse functional genomic data. Genome Biology. 6:R114. Abstract
Wallace G, Anshus OJ, Bi P, Chen H, Chen Y, Clark D, Cook P, Finkelstein A, Funkhouser T, Gupta A, Hibbs MA, Li K, Liu Z, Samanta R, Sukthankar R, Troyanskaya OG.  2005.  Tools and applications for large-scale display walls. IEEE computer graphics and applications. 25:24–33.
Hibbs MA, Dirksen NC, Li K, Troyanskaya OG.  2005.  Visualization methods for statistical analysis of microarray clusters. BMC Bioinformatics. 6:115. Abstract