PXD013496

PXD013496 is an original dataset announced via ProteomeXchange.

Title	SILAC-based quantitative proteomics of endoplasmic reticulum stress
Description	ER stress and the unfolded protein response (UPR) involve extensive proteome remodeling in many cell compartments. However, a comprehensive analysis has been lagging due to technological limitations. Here we employ SILAC-based proteomics to quantify over 6,200 proteins at increasing concentrations of tunicamycin in HeLa cells. We further compare the effects of tunicamycin to those of thapsigargin and DTT, both activating the UPR through different mechanisms. The systematic description of the proteome-wide expression changes following proteostatic stress is a resource for the scientific community, which enables to discover novel players involved the pathophysiology of disorders linked to proteostasis. Here, we identified 38 proteins, not previously linked to the UPR, whose expression increases, of which 15 would likely remediate ER stress, and the remainder may contribute to pathological outcomes. Unexpectedly, we see few strongly downregulated proteins, despite expression of the pro-apoptotic transcription factor CHOP, suggesting that IRE1-dependent mRNA decay (RIDD) has a limited contribution to ER-stress mediated cell death in our system.
HostingRepository	PRIDE
AnnounceDate	2019-11-01
AnnouncementXML	Submission_2019-11-01_05:28:09.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Marta Murgia
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2019-04-15 01:49:41	ID requested
⏵ 1	2019-11-01 05:28:10	announced

Itzhak DN, Sacco F, Nagaraj N, Tyanova S, Mann M, Murgia M, SILAC-based quantitative proteomics using mass spectrometry quantifies endoplasmic reticulum stress in whole HeLa cells. Dis Model Mech, 12(11):(2019) [pubmed]

submitter keyword: Proteomics, SILAC, Unfolded Protein Response, Endoplasmic Reticulum stress, Tunicamycin

Marta Murgia
contact affiliation	Max-Planck-Institute of Biochemistry, Martinsried, Germany. Department of Biomedical Sciences, University of Padova, Italy
contact email	mmurgia@biochem.mpg.de
lab head
Marta Murgia
contact affiliation	MPI Biochemistry
contact email	mmurgia@biochem.mpg.de
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/2019/11/PXD013496

PRIDE project URI

• PRIDE
  1. PXD013496
     1. Label: PRIDE project
     2. Name: SILAC-based quantitative proteomics of endoplasmic reticulum stress