PXD002801-3

PXD002801 is an original dataset announced via ProteomeXchange.

Title	Defining the effects of genetic variation on a proteome-wide scale
Description	Genetic variation governs protein expression through both transcriptional and post-transcriptional processes. To investigate this relationship, we combined a multiplexed, mass spectrometry-based method for protein quantification with an emerging mouse model harboring extensive genetic variation from 8 founder strains. We collected genome-wide mRNA and protein profiling measurements to link genetic variation to protein expression differences in livers from 192 diversity outcross mice. We observed nearly 3,700 protein-level quantitative trait loci (pQTL) with an equal proportion of proteins regulated directly by their cognate mRNA as uncoupled from their transcript. Our analysis reveals an extensive array of at least five models for genetic variant control of protein abundance including direct protein-to-protein associations that act to achieve stoichiometric balance of functionally related enzymes and subunits of multimeric complexes.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:25:13.591.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Joel Chick
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	monohydroxylated residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2015-08-27 01:40:43	ID requested
1	2016-06-15 14:28:30	announced
2	2016-06-20 00:19:54	announced	Updated publication reference for PubMed record(s): 27309819.
⏵ 3	2024-10-22 04:25:15	announced	2024-10-22: Updated project metadata.

Chick JM, Munger SC, Simecek P, Huttlin EL, Choi K, Gatti DM, Raghupathy N, Svenson KL, Churchill GA, Gygi SP, Defining the consequences of genetic variation on a proteome-wide scale. Nature, 534(7608):500-5(2016) [pubmed]

10.1038/nature18270;

curator keyword: Biological

submitter keyword: TMT,Proteomics, Quantitative, quantitative trait loci

Steven Gygi
contact affiliation	harvard medical school
contact email	steve_gygi@hms.harvard.edu
lab head
Joel Chick
contact affiliation	Harvard Medical School
contact email	chick.joel@gmail.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/2016/06/PXD002801

PRIDE project URI

• PRIDE
  1. PXD002801
     1. Label: PRIDE project
     2. Name: Defining the effects of genetic variation on a proteome-wide scale