PXD007543

PXD007543 is an original dataset announced via ProteomeXchange.

Title	A compendium of co-regulated protein complexes in breast cancer reveals collateral loss events
Description	Protein complexes are responsible for the bulk of activities within the cell, but how their behavior and abundance varies across tumors remains poorly understood. By combining proteomic profiles of breast tumors with a large-scale protein-protein interaction network, we have identified a set of 285 high-confidence protein complexes whose subunits have highly correlated protein abundance across tumor samples. We used this set to identify complexes that are reproducibly under- or over-expressed in specific breast cancer subtypes. We found that mutation or deletion of one subunit of a co-regulated complex was often associated with a collateral reduction in protein expression of additional complex members. This collateral loss phenomenon was typically evident from proteomic, but not transcriptomic, profiles suggesting post- transcriptional control. Mutation of the tumor suppressor E-cadherin (CDH1) was associated with a collateral loss of members of the adherens junction complex, an effect we validated using an engineered model of E-cadherin loss.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:01:57.888.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Susan Kennedy
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2017-08-24 02:36:31	ID requested
1	2018-10-01 08:04:06	announced
⏵ 2	2024-10-22 04:02:06	announced	2024-10-22: Updated project metadata.

Ryan CJ, Kennedy S, Bajrami I, Matallanas D, Lord CJ, A Compendium of Co-regulated Protein Complexes in Breast Cancer Reveals Collateral Loss Events. Cell Syst, 5(4):399-409.e5(2017) [pubmed]

10.1016/j.cels.2017.09.011;

curator keyword: Biological, Biomedical

submitter keyword: breast cancer, collateral loss, protein-protein interaction,protein complex

Colm Ryan
contact affiliation	Systems Biology Ireland, University College Dublin, Ireland
contact email	colm.ryan@ucd.ie
lab head
Susan Kennedy
contact affiliation	Systems Biology Ireland, University College Dublin.
contact email	susan.kennedy@ucd.ie
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/2018/10/PXD007543

PRIDE project URI

• PRIDE
  1. PXD007543
     1. Label: PRIDE project
     2. Name: A compendium of co-regulated protein complexes in breast cancer reveals collateral loss events