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PXD019797-2

PXD019797 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleA Data-independent Acquisition-based Global Phosphoproteomics System Enables Deep Profiling
DescriptionPhosphoproteomics can provide insights into cellular signaling dynamics. To achieve robust quantitative phosphoproteomics profiling from minute amounts of sample, we here develop a global phosphoproteomics strategy based on data-independent acquisition (DIA) mass spectrometry and high-quality hybrid spectral libraries derived from data-dependent acquisition (DDA) and DIA data. Benchmarking the method using 166 synthetic phosphopeptides shows high sensitivity (<0.1 ng), accurate site localization and reproducible quantification (~5% median coefficient of variation). As a proof-of-concept, we use lung cancer cell lines and patient-derived tissue to construct a hybrid phosphoproteome spectral library covering 159,524 phosphopeptides (88,107 phosphosites). Based on this library, our single-shot streamlined DIA workflow quantifies 36,350 phosphosites (19,755 class 1) in cell line samples within 2 hours. Application to drug-resistant cells and patient-derived lung cancer tissues delineates site-specific phosphorylation events associated with resistance and tumor progression, showing that our workflow enables the characterization of phosphorylation signaling with deep coverage, high sensitivity and low between-run missing values.
HostingRepositoryjPOST
AnnounceDate2021-03-05
AnnouncementXMLSubmission_2022-09-18_02:41:24.227.xml
DigitalObjectIdentifier
ReviewLevelNon peer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterReta Birhanu Kitata
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListS-carboxamidomethyl-L-cysteine; alpha-amino acetylated residue; L-methionine sulfoxide; O-phospho-L-serine; O-phospho-L-threonine; O4'-phospho-L-tyrosine
InstrumentLTQ Orbitrap
Dataset History
RevisionDatetimeStatusChangeLog Entry
02020-06-15 17:45:08ID requested
12021-03-04 19:23:05announced
22022-09-18 02:41:24announced2022-09-18: Updated FTP location.
Publication List
Dataset with its publication pending
Keyword List
submitter keyword: phosphoproteome, data-independent acquisition, spectral library, lung cancer
Contact List
Yu-Ju Chen
lab head
Reta Birhanu Kitata
contact affiliationAcademia Sinica
dataset submitter
Full Dataset Link List
jPOST dataset URI
Dataset FTP location
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