Assessing identity, redundancy and confounds in Gene Ontology annotations over time

Accurate evaluation and analysis of functional genomics data and methods

(2012) Casey S. Greene et al.   Annals of the New York Academy of Sciences

Impact of ontology evolution on functional analyses

(2012) Anika Groß et al.   BIOINFORMATICS

Sporadic autism exomes reveal a highly interconnected protein network of de novo mutations

(2012) Brian J. O’Roak et al.   NATURE

HIPPIE: Integrating Protein Interaction Networks with Experiment Based Quality Scores

(2012) Martin H. Schaefer et al.   PLoS One

Inferring novel gene-disease associations using Medical Subject Heading Over-representation Profiles

(2012) Warren A Cheung et al.   Genome Medicine

Quality of Computationally Inferred Gene Ontology Annotations

(2012) Nives Škunca et al.   PLoS Computational Biology

On the Use of Gene Ontology Annotations to Assess Functional Similarity among Orthologs and Paralogs: A Short Report

(2012) Paul D. Thomas et al.   PLoS Computational Biology

“Guilt by Association” Is the Exception Rather Than the Rule in Gene Networks

(2012) Jesse Gillis et al.   PLoS Computational Biology

The role of indirect connections in gene networks in predicting function

(2011) Jesse Gillis et al.   BIOINFORMATICS

GO-Module: functional synthesis and improved interpretation of Gene Ontology patterns

(2011) Xinan Yang et al.   BIOINFORMATICS

The Impact of Multifunctional Genes on "Guilt by Association" Analysis

(2011) Jesse Gillis et al.   PLoS One

Proteins Encoded in Genomic Regions Associated with Immune-Mediated Disease Physically Interact and Suggest Underlying Biology

(2011) Elizabeth J. Rossin et al.   PLoS Genetics

The GeneMANIA prediction server: biological network integration for gene prioritization and predicting gene function

(2010) David Warde-Farley et al.   NUCLEIC ACIDS RESEARCH

Annotation Error in Public Databases: Misannotation of Molecular Function in Enzyme Superfamilies

(2009) Alexandra M. Schnoes et al.   PLoS Computational Biology

Gene Ontology term overlap as a measure of gene functional similarity

(2008) Meeta Mistry et al.   BMC BIOINFORMATICS

Identifying network communities with a high resolution

(2008) Jianhua Ruan et al.   PHYSICAL REVIEW E

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

(2008) Lourdes Peña-Castillo et al.   GENOME BIOLOGY