PXD019403

PXD019403 is an original dataset announced via ProteomeXchange.

Title	PepS: a microfluidic device to process whole blood at bedside for plasma proteomic analyses
Description	Immunoassays have been used for decades in clinical laboratories to quantify proteins in serum/plasma samples. However, different limitations hinder their use in some cases. Mass spectrometry (MS)-based proteomics analysis has recently appeared as a promising option to assess panels of protein biomarkers and provide protein profiles useful for health state monitoring. Nevertheless, translation of MS-based proteomics into the clinics is still hampered by the complexity, the substantial time and human workforce necessary for sample preparation. The processing of plasma matrix is especially tricky as it contains more than 3000 proteins spanning in an extreme dynamic range (10e10) of concentrations. To address this pre-analytical challenge, we have conceived a microfluidic device (PepS) to automate and accelerate blood sample preparation for bottom-up MS-based proteomic analysis. The microfluidic cartridge is operated through a dedicated compact instrument providing fully automated fluid processing and thermal control. In less than 2 hours, PepS device enables whole blood collection at the bedside, plasma separation and calibration, depletion of albumin, protein digestion with trypsin and stabilization of tryptic peptides on solid phase extraction sorbent. The performance of PepS device was assessed using discovery proteomics and targeted proteomics on a panel of three protein biomarkers routinely assayed in clinical laboratories. This innovative microfluidic device and associated instrumentation is expected to streamline and simplify clinical proteomic studies.
HostingRepository	PRIDE
AnnounceDate	2021-01-04
AnnouncementXML	Submission_2021-01-03_23:30:57.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD019403
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Yohann Couté
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2020-05-27 00:59:42	ID requested
⏵ 1	2021-01-03 23:30:58	announced

Gilquin B, Cubizolles M, Den Dulk R, Revol-Cavalier F, Alessio M, Goujon CE, Echampard C, Arrizabalaga G, Adrait A, Louwagie M, Laurent P, Navarro FP, Cout, é Y, Cosnier ML, Brun V, PepS: An Innovative Microfluidic Device for Bedside Whole Blood Processing before Plasma Proteomics Analyses. Anal Chem, 93(2):683-690(2021) [pubmed]

submitter keyword: Human, plasma, microfluidic device, centrifugation, DDA

Virginie Brun
contact affiliation	EDyP
contact email	virginie.brun@cea.fr
lab head
Yohann Couté
contact affiliation	EDyP
contact email	yohann.coute@cea.fr
dataset submitter

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/2021/01/PXD019403

PRIDE project URI

• PRIDE
  1. PXD019403
     1. Label: PRIDE project
     2. Name: PepS: a microfluidic device to process whole blood at bedside for plasma proteomic analyses