PXD023690

PXD023690 is an original dataset announced via ProteomeXchange.

Title	Spatial-proteomics reveals phospho-signaling dynamics at subcellular resolution
Description	Dynamic change in subcellular localization of signaling proteins is a general concept that eukaryotic cells evolved for responding and elicit a coordinated response to stimuli. Mass spectrometry (MS)-based proteomics in combination with subcellular fractionation can provide comprehensive maps of spatio-temporal regulation of cells but this is highly challenging involving laborious workflows that do not cover the phosphoproteome level. Here we present a high-throughput workflow based on sequential cell fractionation to profile the global (phospho)proteome dynamics across six distinct subcellular fractions. We benchmarked the workflow by studying spatio-temporal EGFR phospho-signaling dynamics in-vitro in HeLa cells and in-vivo in mouse tissues. Finally, we investigated the spatio-temporal stress signaling, revealing cellular relocation of ribosomal proteins in response to hypertonicity and muscle contraction.
HostingRepository	PRIDE
AnnounceDate	2022-02-14
AnnouncementXML	Submission_2022-02-14_03:40:29.919.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Ana Martinez-Val
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2021-01-20 01:03:52	ID requested
1	2021-11-18 11:22:16	announced
2	2021-12-20 11:34:57	announced	2021-12-20: Updated publication reference for PubMed record(s): 34876567.
⏵ 3	2022-02-14 03:40:31	announced	2022-02-14: Updated project metadata.

Martinez-Val A, Bekker-Jensen DB, Steigerwald S, Koenig C, Ø, stergaard O, Mehta A, Tran T, Sikorski K, Torres-Vega E, Kwasniewicz E, Brynj, ó, lfsd, ó, ttir SH, Frankel LB, Kj, ø, bsted R, Krogh N, Lundby A, Bekker-Jensen S, Lund-Johansen F, Olsen JV, Spatial-proteomics reveals phospho-signaling dynamics at subcellular resolution. Nat Commun, 12(1):7113(2021) [pubmed]

ProteomeXchange project tag: EPIC-XS

submitter keyword: DIA, spatio-temporal dynamics,Proteomics, phosphoproteomics

Jesper V. Olsen
contact affiliation	Group leader, Professor Novo Nordisk Foundation Center for Protein Research University of Copenhagen Faculty of Health and Medical Sciences
contact email	jesper.olsen@cpr.ku.dk
lab head
Ana Martinez-Val
contact affiliation	Novo Nordisk Foundation Center for Protein Research
contact email	ana.mdval@cpr.ku.dk
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/PXD023690

PRIDE project URI

• PRIDE
  1. PXD023690
     1. Label: PRIDE project
     2. Name: Spatial-proteomics reveals phospho-signaling dynamics at subcellular resolution