Abstract
The human Dephosphorylation Database (DEPOD) is a manually curated resource that harbors human phosphatases, their protein and non-protein substrates, dephosphorylation sites and the associated signaling pathways. We report here an update to DEPOD by integrating and/or linking to annotations from 69 other open access databases including disease associations, phosphorylating kinases, protein interactions, and also genome browsers. We also provide tools to visualize protein interactions, protein structures, phosphorylation networks, evolutionary conservation of proteins, dephosphorylation sites, and short linear motifs within various proteins. The updated version of DEPOD contains 254 human phosphatases, 336 protein and 83 non-protein substrates, and 1215 manually curated phosphatase-substrate relationships. In addition, we have improved the data access as all the data in DEPOD can now be easily downloaded in a user-friendly format. With multiple significant improvements, DEPOD continues serving as a key resource for research on phosphatase-kinase networks. Database URL: www.depod.org
Highlights
We report here an update to Dephosphorylation Database (DEPOD) by integrating and/or linking to annotations from 69 other open access databases including disease associations, phosphorylating kinases, protein interactions, and genome browsers
We provide tools to visualize protein interactions, protein structures, phosphorylation networks, evolutionary conservation of proteins, dephosphorylation sites, and short linear motifs within various proteins
DEPOD continues serving as a key resource for research on phosphatase-kinase networks
Summary
Many of them rely on DEPOD for information on the phosphatase genes in humans and their substrates, We have updated and improved DEPOD significantly on the following three fronts: A. compilation, by adding new phosphatases and substrates; B. annotations, by integrating annotations from 69 other open access databases, and including two new modules on disease associations and protein kinases that are experimentally known to phosphorylate a given protein in DEPOD; and C. data access and visualization, by better organizing and interlinking the information and incorporating new visualization tools to facilitate data navigation.
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