PXD049084

PXD049084 is an original dataset announced via ProteomeXchange.

Title	Tissue specific protein-protein associations prioritize candidate disease associated genes
Description	Proteins that interact together participate in the same cellular process and influence the same organismal traits. Despite the progress in mapping protein interactions we lack knowledge of how these change across tissues. Due to coordinated (post)transcriptional control, protein complex members have highly correlated abundances that are predictive of functional association. Here, we have compiled 7840 proteomic samples measuring protein levels in 11 human tissues and use these to define an atlas of tissue specific protein associations. This method recapitulates known protein complexes and the larger structural organization of the cell. Stable protein complexes are well preserved across tissues with signaling and metabolic interactions showing larger variation. Less than 20% of interaction changes across tissues are estimated to be due to protein expression differences with cell-type specific cellular structures, such as synaptic vesicles, being a second significant driver of differences. We further supported the brain protein association network through co-fraction experiments in synaptosomes, curation of brain derived pull-down data and AlphaFold2 models and illustrate how this network can functionally prioritize candidate genes within loci linked to brain disorders
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:39:37.122.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Marc van Oostrum
SpeciesList	scientific name: Rattus norvegicus (Rat); NCBI TaxID: 10116;
ModificationList	acetylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2024-02-01 10:15:25	ID requested
1	2024-05-17 07:42:36	announced
⏵ 2	2024-10-22 06:39:37	announced	2024-10-22: Updated project metadata.

10.1101/2024.05.15.594301;

submitter keyword: synapse synaptosome SEC

Bernd Wollscheid
contact affiliation	ETH Zürich
contact email	wbernd@ethz.ch
lab head
Marc van Oostrum
contact affiliation	Biozentrum, University of Basel
contact email	marcvo@bluewin.ch
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/2024/05/PXD049084

PRIDE project URI

• PRIDE
  1. PXD049084
     1. Label: PRIDE project
     2. Name: Tissue specific protein-protein associations prioritize candidate disease associated genes