NetVenn: an integrated network analysis web platform for gene lists

mentha: a resource for browsing integrated protein-interaction networks

(2013) Alberto Calderone et al.   NATURE METHODS

PlantGSEA: a gene set enrichment analysis toolkit for plant community

(2013) Xin Yi et al.   NUCLEIC ACIDS RESEARCH

ANAP: An Integrated Knowledge Base for Arabidopsis Protein Interaction Network Analysis

(2012) C. Wang et al.   PLANT PHYSIOLOGY

A Gene Regulatory Network for Root Epidermis Cell Differentiation in Arabidopsis

(2012) Angela Bruex et al.   PLoS Genetics

GeneSetDB: A comprehensive meta-database, statistical and visualisation framework for gene set analysis

(2012) Hiromitsu Araki et al.   FEBS Open Bio

PRIN: a predicted rice interactome network

(2011) Haibin Gu et al.   BMC BIOINFORMATICS

VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R

(2011) Hanbo Chen et al.   BMC BIOINFORMATICS

Cytoscape Web: an interactive web-based network browser

(2010) Christian T. Lopes et al.   BIOINFORMATICS

Lists2Networks: Integrated analysis of gene/protein lists

(2010) Alexander Lachmann et al.   BMC BIOINFORMATICS

R spider: a network-based analysis of gene lists by combining signaling and metabolic pathways from Reactome and KEGG databases

(2010) A. V. Antonov et al.   NUCLEIC ACIDS RESEARCH

A general modular framework for gene set enrichment analysis

(2009) Marit Ackermann et al.   BMC BIOINFORMATICS

SNOW, a web-based tool for the statistical analysis of protein–protein interaction networks

(2009) Pablo Minguez et al.   NUCLEIC ACIDS RESEARCH

VennMaster: Area-proportional Euler diagrams for functional GO analysis of microarrays

(2008) Hans A Kestler et al.   BMC BIOINFORMATICS

BioVenn – a web application for the comparison and visualization of biological lists using area-proportional Venn diagrams

(2008) Tim Hulsen et al.   BMC GENOMICS

Unraveling Protein Networks with Power Graph Analysis

(2008) Loïc Royer et al.   PLoS Computational Biology