GO functional similarity clustering depends on similarity measure, clustering method, and annotation completeness

Using the Gene Ontology tool to produce de novo protein-protein interaction networks with IS_A relationship

(2016) G.S. Oliveira et al.   GENETICS AND MOLECULAR RESEARCH

Gogadget: An R Package for Interpretation and Visualization of GO Enrichment Results

(2016) Benjamin Nota   Molecular Informatics

PANTHER version 11: expanded annotation data from Gene Ontology and Reactome pathways, and data analysis tool enhancements

(2016) Huaiyu Mi et al.   NUCLEIC ACIDS RESEARCH

Modeling biochemical pathways in the gene ontology

(2016) David P. Hill et al.   Database-The Journal of Biological Databases and Curation

Inferring gene ontologies from pairwise similarity data

(2014) M. Kramer et al.   BIOINFORMATICS

Gene Ontology Consortium: going forward

(2014)   NUCLEIC ACIDS RESEARCH

Functional-Network-Based Gene Set Analysis Using Gene-Ontology

(2013) Billy Chang et al.   PLoS One

CAFA and the Open World of protein function predictions

(2013) Christophe Dessimoz et al.   TRENDS IN GENETICS

An integrative approach to inferring biologically meaningful gene modules

(2011) Ji-Hoon Cho et al.   BMC Systems Biology

REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms

(2011) Fran Supek et al.   PLoS One

A shortest-path graph kernel for estimating gene product semantic similarity

(2011) Marco A Alvarez et al.   Journal of Biomedical Semantics

GOSemSim: an R package for measuring semantic similarity among GO terms and gene products

(2010) G. Yu et al.   BIOINFORMATICS

Semantic Similarity in Biomedical Ontologies

(2009) Catia Pesquita et al.   PLoS Computational Biology

Fast Gene Ontology based clustering for microarray experiments

(2009) Kristian Ovaska et al.   BioData Mining

A relation based measure of semantic similarity for Gene Ontology annotations

(2008) Brendan Sheehan et al.   BMC BIOINFORMATICS