News:Pathway Commons 2 - Search And Visualize Public Biological Pathway Information. Single Point Of Access.
0
7
Entering edit mode
11.0 years ago
B. Arman Aksoy ★ 1.2k

A completely new version of Pathway Commons is now available at http://www.pathwaycommons.org

Pathway Commons is a collection of publicly available pathways, currently containing 6 pathway and interaction databases, focused on human. These are: Reactome, NCI Pathway Interaction Database, PhosphoSitePlus, HumanCyc, HPRD and PANTHER. We will add more databases in the future.

What’s new? Lots!

  • Completely rewritten software system three years in the making.
  • Supports metabolism, gene regulation, molecular and genetic interactions, and signaling, including molecular states (e.g. phosphorylation TP53), generic molecules (e.g. Wnt family of proteins) with BioPAX Level 3
  • Visualize pathways and networks in your web browser using the new PCViz system. At http://www.pathwaycommons.org/pcviz/
  • Download pathways and networks from Pathway Commons in Cytoscape for analysis using the new CyPath2 app for Cytoscape 3
  • Pathway viewer and editor linked to Pathway Commons, called ChiBE, at https://code.google.com/p/chibe/

Also for computational biologists and software developers:

Send us your feedback at http://www.pathwaycommons.org/pc/get_feedback.do

Follow us on Twitter for updates: http://twitter.com/PathwayCommons

Thanks!

Pathway Commons web site

The Pathway Commons Team

api cytoscape • 4.8k views
ADD COMMENT
0
Entering edit mode

any publication ?! how can one cite this ?

ADD REPLY
0
Entering edit mode

Publication on the way; but might take a while to get this one out. In the meantime, please feel free to cite the first Pathway Commons paper:

http://nar.oxfordjournals.org/content/39/suppl_1/D685

ADD REPLY
0
Entering edit mode

Hi, Pathway Commons is a great database for gene associations. I have a simple question: can I extract interactions supported by experimental data? Thanks!

ADD REPLY

Login before adding your answer.

Traffic: 1596 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6