The human DEPhOsphorylation Database DEPOD: 2019 update.

Area of Science:

• Biochemistry
• Molecular Biology
• Bioinformatics

Background:

• The human Dephosphorylation Database (DEPOD) is a vital resource for studying human phosphatases, their substrates, and dephosphorylation sites.
• Understanding these interactions is crucial for elucidating cellular signaling pathways.

Purpose of the Study:

• To update and enhance the DEPOD resource with integrated data from external databases.
• To provide improved tools for visualizing and analyzing phosphatase-related biological information.
• To facilitate research on phosphatase-kinase networks and their role in human health.

Main Methods:

• Manual curation of human phosphatases, protein/non-protein substrates, and dephosphorylation sites.
• Integration and linking of annotations from 69 open-access databases (e.g., disease associations, kinases, protein interactions, genome browsers).
• Development of visualization tools for protein interactions, structures, networks, conservation, and motifs.

Main Results:

• The updated DEPOD includes 254 human phosphatases, 336 protein and 83 non-protein substrates, and 1215 curated phosphatase-substrate relationships.
• Enhanced data accessibility with user-friendly download formats.
• Expanded data scope through integration with diverse biological databases.

Conclusions:

• DEPOD serves as a key, continuously updated resource for research on human phosphatase-kinase networks.
• The enhanced database facilitates deeper investigation into dephosphorylation events and associated signaling pathways.
• Improved data accessibility and visualization tools empower researchers in the field.