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Use of ENCODE Resources to Characterize Novel Proteoforms and Missing Proteins in the Human Proteome

Nilsson, Carol; Mostovenko, Ekaterina; Lichti, Cheryl; Ruggles, Kelly; Fenyö, David; Rosenbloom, Kate; Hancock, William; Paik, Young-Ki; Omenn, Gilbert and LaBaer, Joshua, et al. (2015) In Journal of Proteome Research 14(2). p.603-608
Abstract
We describe integrated strategies that employ both translation of ENCODE data and major proteomic technology pillars to improve the identification of the missing proteins, protein isoforms, and PTMs. The results from proteoENCODEdb searches with experimental mass spectral data indicate that some novel splice forms detected at the transcript level are in fact translated to proteins. Our results provide a step toward the directives of the C-HPP initiative and related biomedical research.
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Contribution to journal
publication status
published
subject
keywords
Glioma stem cell, ENCODE, Chromosome-centric Human Protein Project, Protein sequence mass spectrometry, Microassays, Missing proteins
in
Journal of Proteome Research
volume
14
issue
2
pages
603 - 608
publisher
The American Chemical Society
external identifiers
  • wos:000349276400002
  • scopus:84922613073
ISSN
1535-3893
DOI
10.1021/pr500564q
language
English
LU publication?
yes
id
c97fca5e-0f41-420b-94ed-8693c4590f68 (old id 4755262)
date added to LUP
2014-11-21 13:01:40
date last changed
2017-07-23 03:22:07
@article{c97fca5e-0f41-420b-94ed-8693c4590f68,
  abstract     = {We describe integrated strategies that employ both translation of ENCODE data and major proteomic technology pillars to improve the identification of the missing proteins, protein isoforms, and PTMs. The results from proteoENCODEdb searches with experimental mass spectral data indicate that some novel splice forms detected at the transcript level are in fact translated to proteins. Our results provide a step toward the directives of the C-HPP initiative and related biomedical research.},
  author       = {Nilsson, Carol and Mostovenko, Ekaterina and Lichti, Cheryl and Ruggles, Kelly and Fenyö, David and Rosenbloom, Kate and Hancock, William and Paik, Young-Ki and Omenn, Gilbert and LaBaer, Joshua and Kroes, Roger and Uhlén, Mathias and Hober, Sophia and Végvári, Ákos and Andrén, Per and Sulman, Erik and Lang, Frederick and Fuentes, Manuel and Carlsohn, Elisabet and Emmett, Mark and Moskal, Joseph and Berven, Frode and Fehniger, Thomas and Marko-Varga, György},
  issn         = {1535-3893},
  keyword      = {Glioma stem cell,ENCODE,Chromosome-centric Human Protein Project,Protein sequence mass spectrometry,Microassays,Missing proteins},
  language     = {eng},
  number       = {2},
  pages        = {603--608},
  publisher    = {The American Chemical Society},
  series       = {Journal of Proteome Research},
  title        = {Use of ENCODE Resources to Characterize Novel Proteoforms and Missing Proteins in the Human Proteome},
  url          = {http://dx.doi.org/10.1021/pr500564q},
  volume       = {14},
  year         = {2015},
}