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PXD022992

PXD022992 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleData-independent Acquisition-based Proteome and Phosphoproteome Profiling across Six Melanoma Cell Lines
DescriptionThe rapid documentation of the steady-state gene expression landscape of the cells used in particular experiments may help to improve the reproducibility of scientific research. Here we applied a data-independent acquisition mass spectrometry (DIA-MS) method, coupled with a peptide spectral-library free data analysis workflow, to measure both proteome and phosphoproteome of a melanoma cell line panel with different metastatic properties. For each cell line, the single-shot DIA-MS detected 8,100 proteins and almost 40,000 phosphopeptides in the respective measurement of two hours. Benchmarking the DIA-MS data towards the RNA-seq data and tandem mass tag (TMT)-MS results from the same set of cell lines demonstrated comparable qualitative coverage and quantitative reproducibility. Our data confirmed the high but complex mRNA~protein and protein~phospsite correlations. The results successfully established DIA-MS as a strong and competitive proteotyping approach for cell lines.
HostingRepositoryPRIDE
AnnounceDate2024-10-22
AnnouncementXMLSubmission_2024-10-22_05:20:02.790.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterYansheng Liu
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListphosphorylated residue; monohydroxylated residue; iodoacetamide derivatized residue
InstrumentOrbitrap Fusion Lumos
Dataset History
RevisionDatetimeStatusChangeLog Entry
02020-12-08 02:25:15ID requested
12021-03-14 23:25:45announced
22024-10-22 05:20:03announced2024-10-22: Updated project metadata.
Publication List
Dataset with its publication pending
Keyword List
submitter keyword: Melanoma, Proteome, Cell lines,DIA, Metastasis, Phosphoproteome
Contact List
Yansheng Liu
contact affiliationYale University School of Medicine
contact emailyansheng.liu@yale.edu
lab head
Yansheng Liu
contact affiliationYale University School of Medicine
contact emailyansheng.liu@yale.edu
dataset submitter
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Dataset FTP location
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PRIDE project URI
Repository Record List
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