PXD002337

PXD002337 is an original dataset announced via ProteomeXchange.

Title	F1 allele specific gene expression
Description	By comparing mouse fibroblasts from two parental strains (Bl6 and Spretus) with fibroblasts from their first generation offspring (F1) we can detect allele specific expression of proteins. The Bl6 and Spretus lines are evolutionary distant and harbour many SNPs in their genomes which when synonomous we can detect on the protein level using mass spectrometry. By mixing SILAC labeled Bl6, Spretus and F1 offspring cell lines we can detect peptides shared between all three cell lines and also SNP peptides that are only expressed in the F1 cells and either Bl6 or Spretus cells. By comparing the abundance of the shared peptides and the SNP peptides we can quantify how much of a protein in the F1 cells that comes from the paternal or maternal allele. This data were then further compared to polysome profiling data. Azidohomoalanine labeling was used to enrich newly synthesized proteins from the three cell lines.
HostingRepository	PRIDE
AnnounceDate	2015-08-18
AnnouncementXML	Submission_2015-08-18_03:54:50.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Erik McShane
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2015-06-09 00:12:37	ID requested
⏵ 1	2015-08-18 03:54:51	announced

Hou J, Wang X, McShane E, Zauber H, Sun W, Selbach M, Chen W, Extensive allele-specific translational regulation in hybrid mice. Mol Syst Biol, 11(8):825(2015) [pubmed]

curator keyword: Biological

submitter keyword: LC-MS/MS, F1, Spretus, Bl6, allele, azidohomoalanine, SILAC, monolithic column

Matthias Selbach
contact affiliation	Proteome dynamics Max-Delbrück-Center for Molecular Medicine Berlin, Germany
contact email	matthias.selbach@mdc-berlin.de
lab head
Erik McShane
contact affiliation	Max-Delbrück-Centrum für Molekulare Medizin (MDC)
contact email	erik.mcshane@mdc-berlin.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/2015/08/PXD002337

PRIDE project URI

• PRIDE
  1. PXD002337
     1. Label: PRIDE project
     2. Name: F1 allele specific gene expression