PXD007846

PXD007846 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	A systematic evaluation of the use of human plasma and serum for mass spectrometry-based shotgun proteomics - commercial pooled samples
Description	Over the last two decades, EDTA-plasma has been used as the preferred sample matrix for human blood proteomic profiling. Serum has also been employed widely. Only a few studies have assessed the difference and relevance of the proteome profiles obtained from plasma samples, such as EDTA-plasma or lithium-heparin-plasma, and serum. A complete evaluation of the use of EDTA-plasma, heparin-plasma, and serum would greatly expand the comprehensiveness of shotgun proteomics of blood samples. In this study, we evaluated the use of heparin-plasma with respect to EDTA-plasma and serum to profile blood proteomes using a scalable automated proteomic pipeline (ASAP2). The use of plasma and serum for mass spectrometry-based shotgun proteomics was tested with commercial pooled samples. The proteome coverage consistency and the quantitative performance were compared.
HostingRepository	PRIDE
AnnounceDate	2018-02-27
AnnouncementXML	Submission_2018-02-27_06:12:44.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD007846
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Loïc Dayon
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	Ammonia-loss; Deamidated; TMT6plex; Dehydrated; Oxidation; Acetyl; Carbamidomethyl
Instrument	Orbitrap Fusion Lumos

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2017-09-26 06:12:36	ID requested
⏵ 1	2018-02-27 06:12:46	announced

Publication List

Lan J, N, ú, ñ, ez Galindo A, Doecke J, Fowler C, Martins RN, Rainey-Smith SR, Cominetti O, Dayon L, Systematic Evaluation of the Use of Human Plasma and Serum for Mass-Spectrometry-Based Shotgun Proteomics. J Proteome Res, 17(4):1426-1435(2018) [pubmed]

Lan J, N, ú, ñ, ez Galindo A, Doecke J, Fowler C, Martins RN, Rainey-Smith SR, Cominetti O, Dayon L, Systematic Evaluation of the Use of Human Plasma and Serum for Mass-Spectrometry-Based Shotgun Proteomics. J Proteome Res, 17(4):1426-1435(2018) [pubmed]

Keyword List

curator keyword: Technical
submitter keyword: Human, Plasma, Serum, MS/MS, Tandem Mass Tag, EDTA, Li-heparin

curator keyword: Technical

submitter keyword: Human, Plasma, Serum, MS/MS, Tandem Mass Tag, EDTA, Li-heparin

Contact List

Loïc Dayon
contact affiliation	Proteomics, Nestlé Institute of Health Sciences, Lausanne, Switzerland
contact email	loic.dayon@rd.nestle.com
lab head
Loïc Dayon
contact affiliation	Nestlé Institute of Health Sciences SA
contact email	loic.dayon@rd.nestle.com
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/2018/02/PXD007846
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/2018/02/PXD007846

PRIDE project URI

Repository Record List

[ + ]