Biological pathway analysis software tools and databases

Pathway analysis applications

Most recent bioinformatics tools

diffuStats
Desktop

diffuStats

Contains a collection of diffusion kernels and scoring approaches that…

Contains a collection of diffusion kernels and scoring approaches that facilitates their computation and benchmarking. diffuStats is a package that consists of functions (i) to compute graph kernels,…

BiCAMWI
Desktop

BiCAMWI

Permits to extract dynamic protein-protein interaction (PPI) subnetworks from…

Permits to extract dynamic protein-protein interaction (PPI) subnetworks from time series gene expression data. BiCAMWI applies a genetic-based biclustering algorithm on gene expression data, to…

DyCluster
Desktop

DyCluster

Detects protein complexes in dynamic protein interaction networks. DyCluster…

Detects protein complexes in dynamic protein interaction networks. DyCluster uses gene expression data to model protein-protein interaction (PPI) networks. It was tested using several biclustering…

NeuroDNet
Dataset

NeuroDNet

Contains comprehensive information about the twelve neurodegenerative diseases…

Contains comprehensive information about the twelve neurodegenerative diseases under one portal. NeuroDNet offers to user a bouquet of tools and features to analyze the information by creating…

Most popular analytical software and databases

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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