PPI Related Links


Databases for PPI

DIP Database of Interacting Protein

ProNet Online

BIND

BRITE

Protein-Protein Interaction Server

ProMesh

MINT A molecular interaction database

PIMdbDrosophila Protein Interaction Map(PIM) database

FlyNets An annotated database for molecular interactions in D. melanogaster

Interactive Fly A cyberspace guide to D.melanogaster genes and their roles in development

Protein Interaction Facility

INTERACT

Proteome WormPD, YPD

YEAST protein complex database

Predictome Tool for visualizing the predicted functional associations among genes and proteins in many different organisms

Protein Interaction Databases

InAct Project

DNA-protein interaction database

DPInteract

Human Protein Reference Database

Miscellaneous databases

Database Collection

WormBase

SCPD The Promoter Database of Saccharomyces cerevisiae

GenoBase

Research Institutes working on PPI

Fields Lab

Murphy Lab

CURAGEN

Vidal Laboratory

Kanazawa University

Proteomics & Bioinformatics at the Samuel Lunenfeld Research Institute

Miscellaneous projects

The C.elegans Genome Project

Virtual Library of Cell Biology

Protein Structure Prediction Center

Pathway

SPAD Signal Pathway Database

KEGG

MIPS Yeast

Cell Signaling Network Database

A Database of Sensory Signal Transduction Proteins

WIT/MPW The metabolic pathway database

ECOCYC Encyclopedia of E.coli Genes and Metabolism

MetaCyc Metabolic encyclopedia

TRANSPATH

TRANSFAC The Transcription factor database

BSD Biodegradative strain database

ExPASy Biochemical pathways

GeneNet Computer analysis and modeling of gene networks

Metabolic pathway of biochemistry

PathDB A metabolic pathway database

Signal transduction

Mammalian MAPK signalling pathway

UM-BBD Biocatalysis/Biodegradation database

SoyBase a soybean genetic database of the USDA Plant Genome Project

stke Signal Transduction Knowledge Environment

SENTRA A Database of Sensory Signal Transduction Proteins

Enzyme Nomenclature

Reactome

Motif & Domain

PROSITE

Pfam

Blocks

InterPro

Brutlag Bioinformatics Group

MEME

Meta-MEME Motif-based hidden Markov modeling of biological sequences

WISE2

HMMER

Microarray

Public source for microarray

Stanford Genomic Resources (Follow published datasets)

INCYTE

Tools related to protein-protein interactions

daVinci X-Window visualization tool for drawing directed graphs

VCGVisualization of Compiler Graphs

LEDA

Graphviz Graph drawing software

CUtenet Graphic editor for analyzing signal-transduction pathways

Workbench System for Support of Gene Regulatory Network Construction

A Java Applet for Visualizing protein-protein interaction

Cytoscape

PIMRider

Pajek

LION piScout

HUPO Proteomics Standards Initiative

Literature Search

FACTS(Functional Association/Annotation of cDNA Clones from Text/Sequence Sources)

PubMed

Grateful Med

Health Gate


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