PXD019916

PXD019916 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Lung Cancer Proteome Spectral Library for Data-Independent Acquisition Mass Spectrometer
Description	Data-independent acquisition (DIA) mass spectrometry (MS) data acquisition and targeted data extraction has become a promising strategy with enhanced identification coverage and consistent quantitation across multiple samples. However, coverage at the genome-depth still awaits to be improved. Here, we established a high quality proteome reference library from five lung cancer cell lines varying in epidermal growth factor (EGFR) mutation status and twenty two pooled patient-derived lung tumor tissues samples. By using high pH reverse phase (HpRP) fractionation, we were able to achieve 12,344 protein groups (223,091 unique peptide sequences, 344,430 precursors) from 191 data dependent acquisition (DDA) raw files acquired over similar chromatographic and Orbitrap Fusion Lumos MS platform, at 1% PSM and protein level false discovery rate (FDR). Application to tissue and cell line derived peptides also showed deep profiling of library based DIA. The established spectra library provides a useful resource for deep quantitative sensitive proteome profiling of clinical samples.
HostingRepository	jPOST
AnnounceDate	2021-03-05
AnnouncementXML	Submission_2022-09-18_02:31:05.065.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Reta Birhanu Kitata
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	S-carboxamidomethyl-L-cysteine; alpha-amino acetylated residue; L-methionine sulfoxide
Instrument	LTQ Orbitrap

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2020-06-20 02:54:01	ID requested
1	2021-03-04 19:14:43	announced
⏵ 2	2022-09-18 02:31:05	announced	2022-09-18: Updated FTP location.

Publication List

Dataset with its publication pending

Dataset with its publication pending

Keyword List

submitter keyword: spectral library, data-independent acquisition (DIA), lung cancer, proteome

submitter keyword: spectral library, data-independent acquisition (DIA), lung cancer, proteome

Contact List

Yu-Ju Chen
lab head
Reta Birhanu Kitata
contact affiliation	Academia Sinica
dataset submitter

Full Dataset Link List

jPOST dataset URI
Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.jpostdb.org/JPST000864/

jPOST dataset URI

Dataset FTP location
NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.jpostdb.org/JPST000864/