PXD019639-2

PXD019639 is an original dataset announced via ProteomeXchange.

Title	The protein interaction landscape of breast cancer
Description	Cancers have been associated with diverse sets of genomic alterations, many of which are rare with uncertain significance. To understand the cellular mechanisms impacted by such alterations in breast invasive carcinoma, we have applied affinity-purification mass spectrometry to delineate comprehensive biophysical interaction networks for 40 frequently altered breast cancer proteins. These networks interconnect and enrich for common and rare cancer mutations; they are also substantially re-wired by mutations, including in TP53 and PIK3CA, and across cancerous and non-cancerous cell contexts. Our analysis identifies a novel AKT-interacting protein, S100A3, which we find activates AKT signaling and is predictive of clinical response to AKT inhibitors. Similarly, UBE2N emerges as a BRCA1 interactor predictive of clinical response to inhibition of PARP. Finally, we show that Spinophilin interacts with and dephosphorylates BRCA1 to promote DNA double strand break repair. Thus, cancer protein interaction landscapes provide a framework for recognizing oncogenic drivers and drug vulnerabilities.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:30:00.716.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Minkyu Kim
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos; Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2020-06-07 23:32:43	ID requested
1	2021-11-02 05:46:34	announced
⏵ 2	2024-10-22 05:30:01	announced	2024-10-22: Updated project metadata.

10.1126/science.abf3066;

Kim M, Park J, Bouhaddou M, Kim K, Rojc A, Modak M, Soucheray M, McGregor MJ, O'Leary P, Wolf D, Stevenson E, Foo TK, Mitchell D, Herrington KA, Mu, ñ, oz DP, Tutuncuoglu B, Chen KH, Zheng F, Kreisberg JF, Diolaiti ME, Gordan JD, Copp, é JP, Swaney DL, Xia B, van 't Veer L, Ashworth A, Ideker T, Krogan NJ, A protein interaction landscape of breast cancer. Science, 374(6563):eabf3066(2021) [pubmed]

submitter keyword: BRCA1, Spinophilin, proteomics, protein-protein interaction network, AKT,breast cancer

Nevan Krogan
contact affiliation	Department of Cellular and Molecular Pharmacology Quantitative Biosciences Institute University of California San Francisco San Francisco, CA 94158, USA
contact email	minkyu.kim@ucsf.edu
lab head
Minkyu Kim
contact affiliation	University of California San Francisco
contact email	minkyu.kim@ucsf.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/2021/11/PXD019639

PRIDE project URI

• PRIDE
  1. PXD019639
     1. Label: PRIDE project
     2. Name: The protein interaction landscape of breast cancer