Biological pathway analysis software tools and databases

Pathway analysis applications

Biological pathway analysis software tools and databases

Most Recent Tools

PAIRS
Desktop

PAIRS Prediction of Activation/Inhibition Regulation Signaling Pathway

Takes protein interaction pairs as input and gives both known and predicted…

Takes protein interaction pairs as input and gives both known and predicted result of the human protein regulation relationship in terms of activation and inhibition. PAIRS is a method developed to…

GEOMI
Desktop

GEOMI Geometry for Maximum Insight

Uses as a visual analysis tool for the visualisation and analysis of large and…

Uses as a visual analysis tool for the visualisation and analysis of large and complex networks. GEOMI provides a collection of network analysis methods, graph layout algorithms and several graph…

Cyclone
Desktop

Cyclone

Aims at facilitating the use of BioCyc, a collection of Pathway/Genome…

Aims at facilitating the use of BioCyc, a collection of Pathway/Genome Databases (PGDBs). Cyclone can read and write PGDBs, and can write its own data in the CycloneML format. It interfaces easily…

RegCyanoDB
Dataset

RegCyanoDB

Provides regulatory interactions in cyanobacteria. RegCyanoDB contains 20,280…

Provides regulatory interactions in cyanobacteria. RegCyanoDB contains 20,280 interactions with confidence levels for 30 cyanobacterial strains. It provides the computationally predicted regulatory…

Most Popular Tools

CMGRN
Web

CMGRN Constructing Multilevel Gene Regulatory Networks

An integrative web server to unravel hierarchical interactive networks at…

An integrative web server to unravel hierarchical interactive networks at different regulatory levels. The developed method used the Bayesian network modeling to infer causal interrelationships among…

ProteinLounge
Web

ProteinLounge

Develops many interactive web-based databases and software to help the…

Develops many interactive web-based databases and software to help the life-scientists understand the complexity of systems biology. Systems biology efforts focus on understanding cellular networks,…

BiGG Models
Dataset

BiGG Models

A completely redesigned Biochemical, Genetic and Genomic knowledge base. BiGG…

A completely redesigned Biochemical, Genetic and Genomic knowledge base. BiGG Models contains more than 75 high-quality, manually-curated genome-scale metabolic models. On the website, users can…

NCG
Dataset

NCG Network of Cancer Genes

A manually curated repository of cancer genes derived from the scientific…

A manually curated repository of cancer genes derived from the scientific literature. NCG release 5.0 (August 2015) collects 1571 cancer genes from 175 published studies that describe 188 mutational…

Curators for Pathway analysis

  • Gary Bader's avatar image
    Gary Bader
    Department of Computer Science,…
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