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research article

A mammalian transcription factor-specific peptide repository for targeted proteomics

Simicevic, Jovan  
•
Moniatte, Marc
•
Hamelin, Romain
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2015
Proteomics

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 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. All MS data have been deposited in the ProteomeXchange with identifier PXD001212 (http://proteomecentral.proteomexchange.org/dataset/PXD001212).

  • Details
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Type
research article
DOI
10.1002/pmic.201400355
Web of Science ID

WOS:000350002600013

PubMed ID

25407602

Author(s)
Simicevic, Jovan  
Moniatte, Marc
Hamelin, Romain
Ahrne, Erik
Deplancke, Bart  
Date Issued

2015

Publisher

Wiley-Blackwell

Published in
Proteomics
Volume

15

Issue

4

Start page

752

End page

756

Subjects

Animal proteomics

•

Gene expression

•

Peptide database

•

SRM

•

Targeted proteomics

•

Transcription factors

Editorial or Peer reviewed

REVIEWED

Written at

EPFL

EPFL units
UPDEPLA  
Available on Infoscience
April 13, 2015
Use this identifier to reference this record
https://infoscience.epfl.ch/handle/20.500.14299/113264
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