PXD028735

PXD028735 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	A comprehensive LFQ benchmark dataset to validate data analysis pipelines on modern day acquisition strategies in proteomics
Description	A comprehensive LFQ benchmark dataset to validate data analysis pipelines on modern day acquisition strategies in proteomics using SCIEX TripleTOF5600 and 6600+, Orbitrap QE-HFX, Waters Synapt GS-Si and Synapt XS and Bruker timsTOF Pro.
HostingRepository	PRIDE
AnnounceDate	2025-02-09
AnnouncementXML	Submission_2025-02-08_23:10:21.845.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yasset Perez-Riverol
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562; scientific name: Candida albicans (Yeast); NCBI TaxID: 5476; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF; timsTOF Pro; TripleTOF 5600; Synapt MS; TripleTOF 6600

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2021-09-24 01:57:15	ID requested
1	2021-11-29 12:00:50	announced
⏵ 2	2025-02-08 23:10:22	announced	2025-02-09: Updated project metadata.

Publication List

Van Puyvelde B, Daled S, Willems S, Gabriels R, Gonzalez de Peredo A, Chaoui K, Mouton-Barbosa E, Bouyssi, é D, Boonen K, Hughes CJ, Gethings LA, Perez-Riverol Y, Bloomfield N, Tate S, Schiltz O, Martens L, Deforce D, Dhaenens M, A comprehensive LFQ benchmark dataset on modern day acquisition strategies in proteomics. Sci Data, 9(1):126(2022) [pubmed]
10.1038/s41597-022-01216-6;

Van Puyvelde B, Daled S, Willems S, Gabriels R, Gonzalez de Peredo A, Chaoui K, Mouton-Barbosa E, Bouyssi, é D, Boonen K, Hughes CJ, Gethings LA, Perez-Riverol Y, Bloomfield N, Tate S, Schiltz O, Martens L, Deforce D, Dhaenens M, A comprehensive LFQ benchmark dataset on modern day acquisition strategies in proteomics. Sci Data, 9(1):126(2022) [pubmed]

10.1038/s41597-022-01216-6;

Keyword List

ProteomeXchange project tag: deep learning, benchmarking, ion mobility, machine learning
submitter keyword: SWATH,DIA, Benchmark

ProteomeXchange project tag: deep learning, benchmarking, ion mobility, machine learning

submitter keyword: SWATH,DIA, Benchmark

Contact List

Maarten Dhaenens
contact affiliation	Laboratory of Pharmaceutical Biotechnology/ProGenTomics, Ghent University, Ottergemsesteenweg 460, 9000 Ghent, Belgium
contact email	Maarten.Dhaenens@UGent.be
lab head
Yasset Perez-Riverol
contact affiliation	EBI
contact email	yperez@ebi.ac.uk
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/2022/02/PXD028735
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/2022/02/PXD028735

PRIDE project URI

Repository Record List

[ + ]