Software

Human and Animals

Homo sapiens	Mus musculus	Danio rerio	Drosophila melanogaster	Caenorhabditis elegans

Plants

Arabidopsis thaliana	Oryza sativa	Glycine max

Fungi

Saccharomyces cerevisiae	Cryptococcus neoformans

Bacteria

Pseudomonas aeruginosa	Escherichia coli

Network Medicine Tools for Disease Research

COEXPEDIA: exploring biomedical hypotheses via co-expressions associated with medical subject headings (MeSH)

MUFFINN (MUtations For Functional Impact on Network Neighbors): cancer gene discovery via network analysis of somatic mutation data

MORPHIN (Model Organisms Projected on a Human Integrated Gene Network): Network-assisted prediction of disease pathways in model organisms

Other Network Biology tools

TRRUST (Transcriptional Regulatory relationships Unraveled by Sentence-based Text mining): A reference database of human TF-target interactions

JiffyNet:Instant gene network building server for newly sequenced species

RIDDLE (Reflective diffusion and local extension): Network-assisted Gene Set Analysis (human only)

Domain-based PPI networks by Weighted Mutual Information (WMI)

Project Page