Difference between revisions of "Software"
From Bioinformatics Lab
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=='''Co-functional networks: Organism-specific network-assisted hypothesis generation servers'''== | =='''Co-functional networks: Organism-specific network-assisted hypothesis generation servers'''== | ||
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==''Human and Animal models''== | ==''Human and Animal models''== | ||
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|align="center"|''Escherichia coli'' | |align="center"|''Escherichia coli'' | ||
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=='''TRRUST: A reference database of human TF-target interactions'''== | =='''TRRUST: A reference database of human TF-target interactions'''== | ||
[[File:TRRUST_logo.jpg |150px|link=http://www.grnpedia.org/trrust/]] TRRUST (Transcriptional Regulatory relationships Unraveled by Sentence-based Text mining) is currently available for only human genes. | [[File:TRRUST_logo.jpg |150px|link=http://www.grnpedia.org/trrust/]] TRRUST (Transcriptional Regulatory relationships Unraveled by Sentence-based Text mining) is currently available for only human genes. | ||
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=='''MUFFINN: cancer gene discovery via network analysis of somatic mutation data'''== | =='''MUFFINN: cancer gene discovery via network analysis of somatic mutation data'''== | ||
[[File:Cover title muffinn.png |150px|link=http://www.inetbio.org/muffinn/]] MUFFINN (MUtations For Functional Impact on Network Neighbors). | [[File:Cover title muffinn.png |150px|link=http://www.inetbio.org/muffinn/]] MUFFINN (MUtations For Functional Impact on Network Neighbors). | ||
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=='''MORPHIN: Network-assisted prediction of disease pathways in model organisms'''== | =='''MORPHIN: Network-assisted prediction of disease pathways in model organisms'''== | ||
[[File:Logo morphin.png|150px|link=http://www.inetbio.org/morphin/]] Morphin (Model Organisms Projected on a Human Integrated Gene Network) is currently available. | [[File:Logo morphin.png|150px|link=http://www.inetbio.org/morphin/]] Morphin (Model Organisms Projected on a Human Integrated Gene Network) is currently available. | ||
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=='''JiffyNet:Instant gene network building server for newly sequenced species'''== | =='''JiffyNet:Instant gene network building server for newly sequenced species'''== | ||
[[File:Jiffynetlogo4 small.jpg |150px|link=http://www.jiffynet.org]] Jiffy (instant) gene network modeler for newly sequenced species | [[File:Jiffynetlogo4 small.jpg |150px|link=http://www.jiffynet.org]] Jiffy (instant) gene network modeler for newly sequenced species | ||
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=='''RIDDLE: Network-assisted Gene Set Analysis (human only)'''== | =='''RIDDLE: Network-assisted Gene Set Analysis (human only)'''== | ||
[[File:Cover title riddle.jpg|150px|link=http://www.functionalnet.org/riddle]] RIDDLE (Reflective diffusion and local extension) is currently available for only human genes. | [[File:Cover title riddle.jpg|150px|link=http://www.functionalnet.org/riddle]] RIDDLE (Reflective diffusion and local extension) is currently available for only human genes. | ||
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=='''Domain-based PPI networks by Weighted Mutual Information (WMI) '''== | =='''Domain-based PPI networks by Weighted Mutual Information (WMI) '''== | ||
[[WMI|<big>'''Project Page'''</big>]] | [[WMI|<big>'''Project Page'''</big>]] | ||
Revision as of 08:07, 4 September 2016
Co-functional networks: Organism-specific network-assisted hypothesis generation servers
Human and Animal models
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| Homo sapiens | Mus musculus | Danio rerio | Drosophila melanogaster | Caenorhabditis elegans |
Reference plant and Crops
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| Arabidopsis thaliana | Oryza sativa | Glycine max |
Fungi and Bacteria
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| Saccharomyces cerevisiae | Cryptococcus neoformans | 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.
