Proteomics

Dataset Information

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Retention time as an extra dimension for proteome-wide cross-link identification


ABSTRACT: Chemical crosslinking methods have not been successfully applied to protein-protein interaction discovery mainly due to the computation complexity (O (n2)) issue. In a previous report, we proposed a decision tree searching strategy which can reduce complexity by orders of magnitude. In this study, we found that the mono-linked peptides carry out the information of the retention time of the cross-linked pairs, therefore the retention time of cross-linked peptide pairs can be predicted accurately. By utilizing the obtained retention time information, the false positive rate can be reduced by around 86% with a sensitivity loss of 12%. The method was successfully applied to the identification of inter cross-links obtained from E. coli cell lysate crosslinked by a newly synthesized enrichable crosslinker.

INSTRUMENT(S): Orbitrap Fusion

ORGANISM(S): Bos Taurus (bovine) Escherichia Coli

TISSUE(S): Blood Plasma, Cell Culture

SUBMITTER: Hongli Chen  

LAB HEAD: Hongli Chen

PROVIDER: PXD024253 | Pride | 2021-07-29

REPOSITORIES: Pride

Dataset's files

Source:
Action DRS
117-pDSBE-BSA.pdStudy Other
117-pDSBE-BSA.pdStudy.bak Other
117-pDSBE-BSA2-_1_.msf Msf
117-pDSBE-BSA2-_1_.msfView Msf
117-pDSBE-BSA2-_1_.mzML Mzml
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