PXD024347

PXD024347 is an original dataset announced via ProteomeXchange.

Title	Compatibility of distinct label-free proteomic workflows in absolute quantification of proteins linked to the oocyte quality in human follicular fluid (the Quad-Orbitrap workflow)
Description	We present a comprehensive analysis of human follicular fluid proteome by comparing several strategies of sample preparation, mass spectrometry analysis, and data processing, resulting in the identification of 1638 proteins. We devised two separate label-free quantitative workflows, termed after the utilized mass spectrometer: Triple Quad-TOF and Quad-Orbitrap, and analyzed their performance in absolute protein quantification assisted by Total Protein Approach. In a pilot study of twenty samples linked to diverse oocyte quality status from four donors, 215 and 455 proteins were quantified by the Triple Quad-TOF and Quad-Orbitrap workflows, respectively. The concentration values obtained from both workflows correlated to a significant degree. We found reasonable agreement of both workflows in protein fold changes between tested groups, resulting in unified lists of 21 and 24 proteins, linked to oocyte maturity and blastocyst development, respectively. The Quad-Orbitrap workflow was best suited for an in-depth analysis, especially of low abundant proteome, whereas the Triple Quad-TOF workflow allowed a more robust approach with a greater potential to increase in effectiveness with the growing number of analyzed samples.
HostingRepository	PRIDE
AnnounceDate	2021-07-23
AnnouncementXML	Submission_2021-07-22_22:38:39.154.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Aleksandra Lewandowska
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF-X

Revision	Datetime	Status	ChangeLog Entry
0	2021-02-24 02:35:11	ID requested
⏵ 1	2021-07-22 22:38:39	announced

Dataset with its publication pending

submitter keyword: LC-MS/MS, Total Protein Approach, human follicular fluid, proteome, oocyte quality control, oocyte maturity, blastocyst development

Jacek R Wisniewski
contact affiliation	Max Planck Institute of Biochemistry, Martinsried, Germany
contact email	jwisniew@biochem.mpg.de
lab head
Aleksandra Lewandowska
contact affiliation	University of Gdansk
contact email	aleksandra.lewandowska@biotech.ug.edu.pl
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/2021/07/PXD024347

PRIDE project URI

• PRIDE
  1. PXD024347
     1. Label: PRIDE project
     2. Name: Compatibility of distinct label-free proteomic workflows in absolute quantification of proteins linked to the oocyte quality in human follicular fluid (the Quad-Orbitrap workflow)