Genome Biology

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This article is part of the supplement: Quantitative inference of gene function from diverse large-scale datasets

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A critical assessment of Mus musculus gene function prediction using integrated genomic evidence

Lourdes Peña-Castillo, Murat Tasan, Chad L Myers, Hyunju Lee, Trupti Joshi, Chao Zhang, Yuanfang Guan, Michele Leone, Andrea Pagnani, Wan K Kim, Chase Krumpelman, Weidong Tian, Guillaume Obozinski, Yanjun Qi, Sara Mostafavi, Guan N Lin, Gabriel F Berriz, Francis D Gibbons, Gert Lanckriet, Jian Qiu, Charles Grant, Zafer Barutcuoglu, David P Hill, David Warde-Farley, Chris Grouios, Debajyoti Ray, Judith A Blake, Minghua Deng, Michael I Jordan, William S Noble, Quaid Morris, Judith Klein-Seetharaman, Ziv Bar-Joseph, Ting Chen, Fengzhu Sun, Olga G Troyanskaya, Edward M Marcotte, Dong Xu, Timothy R Hughes* and Frederick P Roth*

Genome Biology 2008, 9(Suppl 1):S2 doi:10.1186/gb-2008-9-s1-s2

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Proceedings   Open Access

Predicting gene ontology from a global meta-analysis of 1-color microarray experiments

Mikhail G Dozmorov, Cory B Giles, Jonathan D Wren BMC Bioinformatics 2011, 12(Suppl 10):S14 (18 October 2011)

Methodology article   Open Access Highly Accessed

Integrative approaches to the prediction of protein functions based on the feature selection

Seokha Ko, Hyunju Lee BMC Bioinformatics 2009, 10:455 (31 December 2009)

Research   Open Access Highly Accessed

Gene networks in Drosophila melanogaster: integrating experimental data to predict gene function

James C Costello, Mehmet M Dalkilic, Scott M Beason, Jeff R Gehlhausen, Rupali Patwardhan, Sumit Middha, Brian D Eads, Justen R Andrews Genome Biology 2009, 10:R97 (16 September 2009)

The first computational interaction network built from Drosophila melanogaster protein-protein and genetic interaction data allows the functional annotation of orphan genes and reveals clusters of functionally-related genes.

Research article   Open Access Highly Accessed

An integrated approach for the systematic identification and characterization of heart-enriched genes with unknown functions

Shizuka Uchida, André Schneider, Marion Wiesnet, Benno Jungblut, Polina Zarjitskaya, Katharina Jenniches, Karsten Kreymborg, Werner Seeger, Thomas Braun BMC Genomics 2009, 10:100 (6 March 2009)

Research   Open Access

An en masse phenotype and function prediction system for Mus musculus

Murat Taşan, Weidong Tian, David P Hill, Francis D Gibbons, Judith A Blake, Frederick P Roth Genome Biology 2008, 9(Suppl 1):S8 (27 June 2008)

Method   Open Access

Consistent probabilistic outputs for protein function prediction

Guillaume Obozinski, Gert Lanckriet, Charles Grant, Michael I Jordan, William Noble Genome Biology 2008, 9(Suppl 1):S6 (27 June 2008)

Method   Open Access

Inferring mouse gene functions from genomic-scale data using a combined functional network/classification strategy

Wan Kim, Chase Krumpelman, Edward M Marcotte Genome Biology 2008, 9(Suppl 1):S5 (27 June 2008)

Method   Open Access

GeneMANIA: a real-time multiple association network integration algorithm for predicting gene function

Sara Mostafavi, Debajyoti Ray, David Warde-Farley, Chris Grouios, Quaid Morris Genome Biology 2008, 9(Suppl 1):S4 (27 June 2008)

Research   Open Access

Predicting gene function in a hierarchical context with an ensemble of classifiers

Yuanfang Guan, Chad L Myers, David C Hess, Zafer Barutcuoglu, Amy A Caudy, Olga G Troyanskaya Genome Biology 2008, 9(Suppl 1):S3 (27 June 2008)

Introduction   Free

A race through the maze of genomic evidence

Timothy R Hughes, Frederick P Roth Genome Biology 2008, 9(Suppl 1):S1 (27 June 2008)