Resources

Pathway

KEGG

A collection of manually drawn pathway maps representing our knowledge on the molecular interaction and reaction networks.

Nature Pathway Interaction Database

Biomolecular interactions and cellular processes assembled into authoritative human signaling pathways.

BioCarta

An open source pathway database to depict molecular relationships from areas of active research. In an "open source" approach.

Reactome

A curated knowledgebase of biological pathways.

Panther DB

Consists of over 165, primarily signaling, pathways.

Protein Interaction Database

IntAct

IntAct provides a freely available, open source database system and analysis tools for protein interaction data. All interactions are derived from literature curation or direct user submissions and are freely available.

Biomolecular Interaction Network Database (BIND)

BIND include high-throughput data submissions and hand-curated information gathered from the scientific literature.

Molecular INTeraction database (MINT)

MINT focuses on experimentally verified protein-protein interactions mined from the scientific literature by expert curators.

Microarray Database

Gene Expression Omnibus

Gene Expression Omnibus is a gene expression/molecular abundance repository supporting MIAME compliant data submissions, and a curated, online resource for gene expression data browsing, query and retrieval.

ArrayExpress

ArrayExpress is a public repository for transcriptomics data, which is aimed at storing MIAME- and MINSEQE- compliant data in accordance with MGED recommendations. The ArrayExpress Warehouse stores gene-indexed expression profiles from a curated subset of experiments in the repository.

Stanford MicroArray Database

SMD stores raw and normalized data from microarray experiments, as well as their corresponding image files. In addition, SMD provides interfaces for data retrieval, analysis and visualization.

Oncomine

Oncomine Research Platform is a suite of products for online cancer gene expression analysis dedicated to the academic and non-profit research community.

Genomics Tools

Cytoscape

Cytoscape is an open source bioinformatics software platform for visualizing molecular interaction networks and biological pathways and integrating these networks with annotations, gene expression profiles and other state data.

Bioconductor

Bioconductor is an open source and open development software project for the analysis and comprehension of genomic data. It runs on R platform.

TIGR Tools

A collection of tools for microarray, proteomics, genomics and sequence analysis.

List of tools from ExPASy

It has a large callection of tools in all the fields of biological reasearch.