PXD001279

PXD001279 is an original dataset announced via ProteomeXchange.

Title	The subcellular proteome of mouse pluripotent embryonic stem cells
Description	Our understanding of the biology of embryonic stem (ES) cells is deeply rooted in characterization of their transcriptomes, epigenetics and underlying gene regulatory networks. There is evidence that post-transcriptional processes such as signaling, adhesion, protein turnover and post translational modifications make a significant contribution to regulating the balance between self-renewal and differentiation, and it is therefore necessary to also characterize ES cells at the protein level. In this experiment, we used a workflow termed hyperLOPIT (hyperplexed localization of organelle proteins by isotope tagging) to characterize the subcellular distribution of proteins in a population of self-renewing E14TG2a mouse ES cells. Over 5,000 protein groups were quantified in both of the two replicates, enabling characterization of protein localization to organelles (including sub-nuclear resolution), cell surface, cytoskeleton and cytosol. The steady-state localization of transitory proteins, protein complex constituents, and signaling cascades could also be mapped.
HostingRepository	PRIDE
AnnounceDate	2016-01-14
AnnouncementXML	Submission_2016-01-14_03:03:52.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Andy Christoforou
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2014-09-02 06:00:30	ID requested
⏵ 1	2016-01-14 03:03:53	announced

Christoforou A, Mulvey CM, Breckels LM, Geladaki A, Hurrell T, Hayward PC, Naake T, Gatto L, Viner R, Martinez Arias A, Lilley KS, A draft map of the mouse pluripotent stem cell spatial proteome. Nat Commun, 7():8992(2016) [pubmed]

ProteomeXchange project tag: PRIME-XS Project

curator keyword: Biological

submitter keyword: E14TG2a, mouse, pluripotent, embryonic stem cells, TMT, SPS-MS3, organelle proteomics, spatial proteomics, Orbitrap Fusion

Kathryn S. Lilley
contact affiliation	Department of Biochemistry, University of Cambridge, UK
contact email	k.s.lilley@bioc.cam.ac.uk
lab head
Andy Christoforou
contact affiliation	University of Cambridge, UK
contact email	ac587@cam.ac.uk
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/2016/01/PXD001279

PRIDE project URI

• PRIDE
  1. PXD001279
     1. Label: PRIDE project
     2. Name: The subcellular proteome of mouse pluripotent embryonic stem cells