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PXD005797-2

PXD005797 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleExtensive Peptide Fractionation and y1 Ion-based Interference Detection Enable Accurate Quantification by Isobaric Labeling and Mass Spectrometry
DescriptionIsobaric labeling quantification by mass spectrometry (MS) has emerged as a powerful technology for multiplexed large-scale protein profiling, but measurement accuracy in complex mixtures is confounded by the interference from co-isolated ions, resulting in ratio compression. Here we report that the ratio compression can be essentially resolved by the combination of pre-MS peptide fractionation, MS2-based interference detection and post-MS computational interference correction. We pooled tandem mass tag (TMT) labeled E. coli peptides at 1 : 3 : 10 ratios, and added in ~20-fold more rat peptides as background, followed by the analysis of two dimensional liquid chromatography (LC)-MS/MS. The quantitative interference was systematic investigated and the interference in MS2 scans were estimated by the intensity of contaminated y1 product ions. An algorithm was thus developed to correct reporter ion ratios of tryptic peptides.
HostingRepositoryPRIDE
AnnounceDate2023-11-14
AnnouncementXMLSubmission_2023-11-14_08:49:24.180.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterxusheng wang
SpeciesList scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationListTMT6plex-126 reporter+balance reagent acylated residue
InstrumentQ Exactive
Dataset History
RevisionDatetimeStatusChangeLog Entry
02017-01-28 03:44:37ID requested
12022-02-28 02:25:02announced
22023-11-14 08:49:24announced2023-11-14: Updated project metadata.
Publication List
Dataset with its publication pending
Keyword List
curator keyword: Technical
submitter keyword: isobaric labeling,proteomics, TMT, mass spectrometry, and ratio compression, iTRAQ, LC-MS/MS
Contact List
Junmin Peng, PhD
contact affiliationStructural Biology MS 311, Room D1034C St. Jude Children's Research Hospital 262 Danny Thomas Place Memphis, TN 38105-3678
contact emailjunmin.peng@stjude.org
lab head
xusheng wang
contact affiliationProteomics
contact emailxushengwang78@gmail.com
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
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