PXD049405-1

PXD049405 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	A semi-automated workflow for DIA-based global discovery to pathway-driven PRM analysis
Description	Initial discovery-based analysis using data independent acquisition (DIA) can obtain deep proteome coverage with high data completeness; however, the development of targeted PRM assays based on subsequent bioinformatic predictions can be tedious and time-consuming because of the complexity of the output. We address this limitation with a Python script that rapidly generates a PRM method for the TIMS-QTOF platform using DIA data and a user-defined target list.
HostingRepository	PRIDE
AnnounceDate	2024-09-06
AnnouncementXML	Submission_2024-09-06_10:57:02.680.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Stanley Stevens
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	timsTOF Pro

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2024-02-15 08:19:58	ID requested
⏵ 1	2024-09-06 10:57:03	announced

Publication List

Guergues J, Wohlfahrt J, Koomen JM, Krieger JR, Varma S, Stevens SM, A semi-automated workflow for DIA-based global discovery to pathway-driven PRM analysis. Proteomics, ():e2400129(2024) [pubmed]
10.1002/pmic.202400129;

Guergues J, Wohlfahrt J, Koomen JM, Krieger JR, Varma S, Stevens SM, A semi-automated workflow for DIA-based global discovery to pathway-driven PRM analysis. Proteomics, ():e2400129(2024) [pubmed]

10.1002/pmic.202400129;

Keyword List

submitter keyword: DIA, TimsTOF, script, Bruker, sem-automated,PRM

submitter keyword: DIA, TimsTOF, script, Bruker, sem-automated,PRM

Contact List

Stanley M. Stevens, Ph.D.
contact affiliation	University of South Florida, USA
contact email	smstevens@usf.edu
lab head
Stanley Stevens
contact affiliation	University of South Florida
contact email	smstevens@usf.edu
dataset submitter

Full Dataset Link List

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.pride.ebi.ac.uk/pride/data/archive/2024/09/PXD049405
PRIDE project 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.pride.ebi.ac.uk/pride/data/archive/2024/09/PXD049405

PRIDE project URI

Repository Record List

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