Assessing the functional coherence of modules found in multiple-evidence networks from Arabidopsis

Improving the quality of protein similarity network clustering algorithms using the network edge weight distribution

(2010) Leonard Apeltsin et al.   BIOINFORMATICS

Assessing the functional coherence of gene sets with metrics based on the Gene Ontology graph

(2010) Adam J. Richards et al.   BIOINFORMATICS

SPICi: a fast clustering algorithm for large biological networks

(2010) Peng Jiang et al.   BIOINFORMATICS

Fast integration of heterogeneous data sources for predicting gene function with limited annotation

(2010) Sara Mostafavi et al.   BIOINFORMATICS

AtPIN: Arabidopsis thaliana Protein Interaction Network

(2010) Marcelo M Brandão et al.   BMC BIOINFORMATICS

Functional characterization and topological modularity of molecular interaction networks

(2010) Jayesh Pandey et al.   BMC BIOINFORMATICS

Rational association of genes with traits using a genome-scale gene network for Arabidopsis thaliana

(2010) Insuk Lee et al.   NATURE BIOTECHNOLOGY

GS2: an efficiently computable measure of GO-based similarity of gene sets

(2009) T. Ruths et al.   BIOINFORMATICS

Complex discovery from weighted PPI networks

(2009) Guimei Liu et al.   BIOINFORMATICS

Improving detection of differentially expressed gene sets by applying cluster enrichment analysis to Gene Ontology

(2009) Tao Xu et al.   BMC BIOINFORMATICS

Arabidopsis gene co-expression network and its functional modules

(2009) Linyong Mao et al.   BMC BIOINFORMATICS

Markov clustering versus affinity propagation for the partitioning of protein interaction graphs

(2009) James Vlasblom et al.   BMC BIOINFORMATICS

Data integration for plant genomics--exemplars from the integration of Arabidopsis thaliana databases

(2009) A. Lysenko et al.   BRIEFINGS IN BIOINFORMATICS

Functional coherence in domain interaction networks

(2008) J. Pandey et al.   BIOINFORMATICS

Identifying functional modules in protein-protein interaction networks: an integrated exact approach

(2008) M. T. Dittrich et al.   BIOINFORMATICS

Efficient algorithms for accurate hierarchical clustering of huge datasets: tackling the entire protein space

(2008) Y. Loewenstein et al.   BIOINFORMATICS

Assessment of protein set coherence using functional annotations

(2008) Monica Chagoyen et al.   BMC BIOINFORMATICS

Improving protein function prediction methods with integrated literature data

(2008) Aaron P Gabow et al.   BMC BIOINFORMATICS

Metrics for GO based protein semantic similarity: a systematic evaluation

(2008) Catia Pesquita et al.   BMC BIOINFORMATICS

Regulon organization of Arabidopsis

(2008) Wieslawa I Mentzen et al.   BMC PLANT BIOLOGY