PXD032843-1

PXD032843 is an original dataset announced via ProteomeXchange.

Title	Multi-omics analysis identifies drivers of protein phosphorylation
Description	Phosphorylation of proteins is a key step in the regulation of many cellular processes including activation of enzymes and signaling cascades. Phosphorylated peptides (phosphopeptides) can be detected and quantified by mass spectrometry. The abundance of a phosphopeptide is determined by both the abundance of its parent protein and the proportion of target sites that are phosphorylated. We quantified phosphopeptides, proteins, and transcripts in heart, liver, and kidney tissue samples from female and male pair from 58 strains of the Collaborative Cross strain panel. We mapped ~700 phosphorylation quantitative trait loci (phQTL) across the three tissues and applied genetic mediation analysis to identify causal drivers of phosphorylation. We identified kinases, phosphatases, cytokines, and other factors, including both known and potentially novel interactions between target proteins and genes that regulate site-specific phosphorylation. We observed coordination of phosphorylation across multiple sites within a protein and across proteins that form complexes. Our analysis highlights multiple targets of pyruvate dehydrogenase kinase 1 (PDK1), a regulator of mitochondrial function that shows reduced activity in the NZO/HILtJ mouse, a polygenic model of obesity and type 2 diabetes.
HostingRepository	PRIDE
AnnounceDate	2023-02-03
AnnouncementXML	Submission_2023-02-02_16:16:48.257.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	TianZhang
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	phosphorylated residue
Instrument	Orbitrap Eclipse; Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2022-03-27 05:43:47	ID requested
⏵ 1	2023-02-02 16:16:48	announced
2	2024-10-22 05:41:55	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: genetic mapping, TMT, Collaborative Cross, phosphorylation,phQTL

StevenGygi
contact affiliation	Cell Biology Department Harvard Medical School
contact email	steven_gygi@hms.harvard.edu
lab head
TianZhang
contact affiliation	Harvard Medical School
contact email	tian_zhang@hms.harvard.edu
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/2023/02/PXD032843

PRIDE project URI

• PRIDE
  1. PXD032843
     1. Label: PRIDE project
     2. Name: Multi-omics analysis identifies drivers of protein phosphorylation