PXD016034

PXD016034 is an original dataset announced via ProteomeXchange.

Title	A rare-codon-based translational program of cell proliferation
Description	The codon usage of mRNAs controls the speed of translation elongation, which is primarily determined by the abundance of cognate tRNAs. By profiling mRNA expression around the cell cycle we found that mRNAs that are relatively upregulate in the G2/M phase are enriched in rare codons. To understand the impact of this codon bias on translation, we have cultured NIH 3T3 cells with different concentrations of fetal calf serum (FCS), 1, 2, 5, and 10%, respectively, to induce distinct proliferation rates and thus distinct proportions of cells in the culture in the G2/M phase. We then estimated the levels of all proteins and mRNAs, and the change in translation efficiency (proteins per mRNA) in highly (10% FCS) relatively to less highly proliferating cells (lower FCS concentrations).
HostingRepository	PRIDE
AnnounceDate	2020-01-21
AnnouncementXML	Submission_2020-01-21_02:14:12.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Katarzyna Buczak
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2019-10-28 02:11:22	ID requested
⏵ 1	2020-01-21 02:14:13	announced

Dataset with its publication pending

curator keyword: Biological

submitter keyword: Cell proliferation, translation control, codon usage, rare codons, translation elongation, tRNA pools, LFQ

Alexander Schmidt
contact affiliation	Biozentrum, University of Basel
contact email	alex.schmidt@unibas.ch
lab head
Katarzyna Buczak
contact affiliation	Biozentrum, University of Basel
contact email	katarzyna.buczak@unibas.ch
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/2020/01/PXD016034

PRIDE project URI

• PRIDE
  1. PXD016034
     1. Label: PRIDE project
     2. Name: A rare-codon-based translational program of cell proliferation