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- Homo sapiens
Publication for DegraBase
Quantitative peptidomics of endogenous peptides involved in TGF β1 induced epithelial mesenchymal transition of renal epithelial cells
[…] 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 […]
An Unbiased Proteomic Screen Reveals Caspase Cleavage Is Positively and Negatively Regulated by Substrate Phosphorylation*
[…] 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 […]
Global cellular response to chemotherapy induced apoptosis
[…] 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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