Software
From Bioinformatics Lab
Co-functional networks: Organism-specific network-assisted hypothesis generation servers
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 |
TRRUST: A reference database of human TF-target interactions
TRRUST (Transcriptional Regulatory relationships Unraveled by Sentence-based Text mining) is currently available for only human genes.
MUFFINN: cancer gene discovery via network analysis of somatic mutation data
MUFFINN (MUtations For Functional Impact on Network Neighbors).
MORPHIN: Network-assisted prediction of disease pathways in model organisms
Morphin (Model Organisms Projected on a Human Integrated Gene Network) is currently available.
JiffyNet:Instant gene network building server for newly sequenced species
Jiffy (instant) gene network modeler for newly sequenced species
RIDDLE: Network-assisted Gene Set Analysis (human only)
RIDDLE (Reflective diffusion and local extension) is currently available for only human genes.