PXD021333

PXD021333 is an original dataset announced via ProteomeXchange.

Title	Multiple reaction monitoring assays for large-scale quantitation of proteins from 20 mouse organs and tissues
Description	We developed 7,184 quantitative multiple reaction monitoring mass spectrometry (MRM-MS) assays that measure 2,118 unique proteins in 20 mouse organs and tissues to enable system-level analysis of protein expression in mice. Targets for assay development were selected by untargeted MS analysis, and corresponding stable isotope-labelled standards were synthesized in-house. Development experiments determined the lower limit of quantitation, linear range, and repeatability of each assay. Subsequently, the developed assays were formatted into panels tailored to each organ or tissue type and were used to measure normal protein concentrations in samples from three mouse strains: C57BL/6NCrl, NOD/SCID, and BALB/cAnNCrl. In total 5,149 measurements were obtained corresponding to 1,691 proteins, and results included sex- and strain-specific profiles in protein abundances. Collectively these assays are the largest group of quantitative MRM-MS assays established and implemented in mice to date, and enable accurate quantitation of mouse proteins for molecular phenotyping. Furthermore, the measured concentration data provide important biological information for experimental design involving mouse models.
HostingRepository	PRIDE
AnnounceDate	2024-01-04
AnnouncementXML	Submission_2024-01-04_09:10:59.370.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Sarah Michaud
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2020-09-07 00:52:39	ID requested
⏵ 1	2024-01-04 09:10:59	announced

10.1038/S42003-023-05687-0;

submitter keyword: Mouse tissue proteomics, proteomic phenotyping, MRM assay development, CPTAC, molecular phenotyping, stable isotope-labelled standards

Sarah Michaud
contact affiliation	University of Victoria - Genome British Columbia Proteomics Centre
contact email	sarah@proteincentre.com
lab head
Sarah Michaud
contact affiliation	The University of Victoria - Genome British Columbia Proteomics Centre
contact email	sarah@proteincentre.com
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/2024/01/PXD021333

PRIDE project URI

• PRIDE
  1. PXD021333
     1. Label: PRIDE project
     2. Name: Multiple reaction monitoring assays for large-scale quantitation of proteins from 20 mouse organs and tissues