PXD002649

PXD002649 is an original dataset announced via ProteomeXchange.

Title	Protrusion vs Cell-body pulsed-SILAC proteomics
Description	In mesenchymal-like cell migration, cells need to polarise into a protrusive front and a retracting cell body. Apart from proteins, several mRNAs are known to be localised to cell protrusions but to what extent RNA localisation and local translation contributes toward front-back assymetry is unknown. We set out to quantify the relative translation rates of cellular proteins between protrusions and cell-body by Pulsed-SILAC proteomics, using MDA-MB-231 cells, a highly invasive breast cancer cell-line. We utilised a transwell filter based fractionation method in conjugation with pulsed-SILAC. In this method, cells are seeded on top of 3μm transwell filters to enable protrusions to form through the pores of the filters but to prevent the cell-bodies passing through due to the small size of the pores, thus resulting in separation of protrusions and cell-bodies on opposite sides of the filter, which can then be lysed and prepared separately. Prepration of protrusion and cell-body fractions from SILAC heavy vs. medium label pulsed cells then allows for reciprocal mixing and quantification of nascent proteins between protrusions and cell-body. We determined the relative local translation rates of 1150 proteins between protrusions and cell-body from two pulsed-SILAC mixes.
HostingRepository	PRIDE
AnnounceDate	2015-10-09
AnnouncementXML	Submission_2016-03-31_01:26:32.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Faraz Mardakheh
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606; scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	monohydroxylated residue; acetylated residue; carbamoylated residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2015-08-03 00:56:46	ID requested
1	2015-10-09 01:29:21	announced
⏵ 2	2016-03-31 01:26:33	announced	Updated publication reference for PubMed record(s): 26555054.

Mardakheh FK, Paul A, K, ü, mper S, Sadok A, Paterson H, Mccarthy A, Yuan Y, Marshall CJ, Global Analysis of mRNA, Translation, and Protein Localization: Local Translation Is a Key Regulator of Cell Protrusions. Dev Cell, 35(3):344-57(2015) [pubmed]

curator keyword: Biomedical

submitter keyword: Pulsed-SILAC

Local translation

protrusion;

Christopher J Marshall
contact affiliation	Institute of Cancer Research, Division of Cancer Biology, 237 Fulham Road, London SW3 6JB, UK.
contact email	chris.marshall@icr.ac.uk
lab head
Faraz Mardakheh
contact affiliation	Institute of Cancer Research
contact email	MARDAKHEH@ICR.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/2015/10/PXD002649

PRIDE project URI

• PRIDE
  1. PXD002649
     1. Label: PRIDE project
     2. Name: Protrusion vs Cell-body pulsed-SILAC proteomics