PXD001212

PXD001212 is an original dataset announced via ProteomeXchange.

Title	A mammalian transcription factor-specific peptide repository for targeted proteomics
Description	Site-specific transcription factors (TFs) play an essential role in mammalian development and function as they are vital for the majority of cellular processes. Despite their biological importance, TF proteomic data is scarce in the literature, likely due to difficulties in detecting peptides as the abundance of TFs in cells tends to be low. In recent years, significant improvements in mass spectrometry (MS)-based technologies in terms of sensitivity and specificity have increased the interest in developing quantitative methodologies specifically targeting relatively lowly abundant proteins such as TFs in mammalian models. Such efforts would be greatly aided by the availability of TF peptide-specific information as such data would not only enable improvements in speed and accuracy of protein identifications, but also ameliorate cross-comparisons of quantitative proteomics data and allow for a more efficient development of targeted proteomics assays. However, to date, no comprehensive TF proteotypic peptide database has been developed. To address this evident lack of TF peptide data in public repositories, we are generating a comprehensive, experimentally derived TF proteotypic peptide spectral library dataset based on in vitro protein expression. Our library currently contains peptide information for 89 TFs, and this number is set to increase in the near future.
HostingRepository	PRIDE
AnnounceDate	2015-01-23
AnnouncementXML	Submission_2015-01-23_02:03:15.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD001212
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Romain Hamelin
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	Oxidation; Dehydrated; Ammonia-loss; Acetyl; Carbamidomethyl
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2014-08-08 02:49:50	ID requested
⏵ 1	2015-01-23 02:03:16	announced

Simicevic J, Moniatte M, Hamelin R, Ahrn, é E, Deplancke B, A mammalian transcription factor-specific peptide repository for targeted proteomics. Proteomics, 15(4):752-6(2015) [pubmed]

curator keyword: Biological, Highlighted

submitter keyword: transcription factor , repository for targeted proteomics, quantitative proteomics, Proteotypic peptide selection

Marc Moniatte
contact affiliation	EPFL Proteomics Core Facility
contact email	marc.moniatte@epfl.ch
lab head
Romain Hamelin
contact affiliation	PCF
contact email	romain.hamelin@epfl.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/2015/01/PXD001212

PRIDE project URI

• PRIDE
  1. PXD001212
     1. Label: PRIDE project
     2. Name: A mammalian transcription factor-specific peptide repository for targeted proteomics