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DegraBase specifications

Information


Unique identifier OMICS_11637
Name DegraBase
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Not allowed
Version 1.0
Maintained No

Taxon


  • Primates
    • Homo sapiens

Maintainer


This tool is not available anymore.

Publication for DegraBase

DegraBase citations

 (3)
library_books

Quantitative peptidomics of endogenous peptides involved in TGF β1 induced epithelial mesenchymal transition of renal epithelial cells

2018
PMCID: 5841401
PMID: 29531806
DOI: 10.1038/s41420-017-0001-x

[…] mation of the identified peptides were acquired using various peptidase/peptidome databases, including MEROPS (http://merops.sanger.ac.uk), TopFINDer (http://clipserve.clip.ubc.ca/topfind/topfinder), DegraBase (https://wellslab.ucsf.edu/degrabase), and SProtP (http://reprod.njmu.edu.cn/sprotp),–. STRING tool (http://string-db.org) was used to classify protein precursors according to their biologic […]

library_books

An Unbiased Proteomic Screen Reveals Caspase Cleavage Is Positively and Negatively Regulated by Substrate Phosphorylation*

2014
PMCID: 4014278
PMID: 24556848
DOI: 10.1074/mcp.M113.037374

[…] f protein N termini contain a P1 Asp, reinforcing the conclusion that the majority of the P1 Asp peptides we identified were caspase substrates. As well, when our P1 Asp dataset was compared with the DegraBase repository of apoptotic N termini, we found that there was a 42% overlap, further substantiating the finding of bona fide caspase substrates in our data (supplemental Table S1) (). Analysis […]

library_books

Global cellular response to chemotherapy induced apoptosis

2013
eLife
PMCID: 3808542
PMID: 24171104
DOI: 10.7554/eLife.01236.036

[…] RM assays were developed in a similar manner as described above, again using SkyLine software. In this case, however, targeted parent/fragment ion transitions were extracted from MS/MS spectra in the DegraBase. This publicly available database lists N-terminally labeled peptides found in human cell culture under both apoptotic and non-apoptotic conditions (wellslab.ucsf.edu/degrabase). b-ion fragm […]


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DegraBase institution(s)
Department of Pharmaceutical Chemistry, UCSF, San Francisco, CA, USA; Department of Cellular and Molecular Pharmacology, UCSF, San Francisco, CA, USA

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