Proteomics

Dataset Information

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A synthetic crosslinked peptide library for benchmarking crosslinking mass spectrometry search engines

ABSTRACT: We have created a synthetic crosslinked peptide library to benchmark crosslinking mass spectrometry search engines. The unique benefit of the library is knowing which identified crosslinks are true and which are false. The data collected from mass spectrometry measurements of the peptide library were used to assess the most frequently used search algorithms. The datasets included will provide an important resource for the crosslinking community to evaluate and optimise search engines, results from which have far-reaching implications.

INSTRUMENT(S): Orbitrap Fusion Lumos, Q Exactive

ORGANISM(S): Streptococcus Pyogenes Abc020006030

SUBMITTER: Rebecca Beveridge  

LAB HEAD: Karl Mechtler

PROVIDER: PXD014337 | Pride | 2020-07-28

REPOSITORIES: Pride

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Dataset's files

Source:
Action DRS
XLpeplib_Beveridge_Lumos_DSSO_CID-ETD.raw Raw
XLpeplib_Beveridge_Lumos_DSSO_MS3-EThcD.raw Raw
XLpeplib_Beveridge_Lumos_DSSO_MS3.raw Raw
XLpeplib_Beveridge_Lumos_DSSO_MS3_crapome_minscore0.msf Msf
XLpeplib_Beveridge_Lumos_DSSO_stHCD-MS2.raw Raw
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Publications

A synthetic peptide library for benchmarking crosslinking-mass spectrometry search engines for proteins and protein complexes.

Beveridge Rebecca R   Stadlmann Johannes J   Penninger Josef M JM   Mechtler Karl K  

Nature communications 20200206 1

Crosslinking-mass spectrometry (XL-MS) serves to identify interaction sites between proteins. Numerous search engines for crosslink identification exist, but lack of ground truth samples containing known crosslinks has precluded their systematic validation. Here we report on XL-MS data arising from measuring synthetic peptide libraries that provide the unique benefit of knowing which identified crosslinks are true and which are false. The data are analysed with the most frequently used search en  ...[more]

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