Proteomics

Dataset Information

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A decision tree searching strategy to boost the identification of cross-linked peptides

ABSTRACT: We describe an efficient decision tree searching strategy (DTSS) to boost the identification of cross-linked peptides. The DTSS approach allows the identification of a wealth of complementary information to facilitate the construction of more protein-protein interaction networks for human cell lysate, which was tested by the use of a recently reported cross-linking dataset (ACS Cent. Sci. 2019, 5, 1514−1522). A variant of the PhoX-linker, named pDSPE was synthesized and applied to cross-link E.coli cell lysate to demonstrate that the acquisition of doubly charged ions can significantly improve identifica-tion results. The method can be seamlessly integrated to other search engines to maximize the number of identified cross-links

INSTRUMENT(S): Orbitrap Fusion ETD

ORGANISM(S): Escherichia Coli

SUBMITTER: Wenzhang Chen  

LAB HEAD: wenzhang chen

PROVIDER: PXD018291 | Pride | 2020-11-23

REPOSITORIES: pride

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Dataset's files

Source:
Action DRS
pDSPE-Ecoli-chargestate-2.mgf Mgf
pDSPE-Ecoli-chargestate-2.msf Msf
pDSPE-Ecoli-chargestate-2.mzML Mzml
pDSPE-Ecoli-chargestate-2.mzid.gz Mzid
pDSPE-Ecoli-chargestate-2.pride.mgf.gz Mgf
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Publications

Decision Tree Searching Strategy to Boost the Identification of Cross-Linked Peptides.

Huang Rong R   Gao Xiuxia X   Xu Zili Z   Zhu Wei W   Wei Ding D   Jiang Biao B   Chen Hongli H   Chen Wenzhang W  

Analytical chemistry 20201002 20

We describe an efficient decision tree searching strategy (DTSS) to boost the identification of cross-linked peptides. The DTSS approach allows the identification of a wealth of complementary information to facilitate the construction of more protein-protein interaction networks for human cell lysate, which was tested by the use of a recently reported cross-linking data set (<i>ACS Cent. Sci.</i> <b>2019</b>, <i>5</i>, 1514-1522). A variant of the PhoX-linker, named <b>pDSPE</b>, was synthesized  ...[more]

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