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Quest for Missing Proteins: Update 2015 on Chromosome-Centric Human Proteome Project

Horvatovich, Péter; Lundberg, Emma; Chen, Yu-Ju; Sung, Ting-Yi; He, Fuchu; Nice, Edouard; Goode, Robert; Yu, Simon; Ranganathan, Shoba and Baker, Mark, et al. (2015) In Journal of Proteome Research 14(9). p.3415-3431
Abstract
This paper summarizes the recent activities of the Chromosome-Centric Human Proteome Project (CHPP)

consortium, which develops new technologies to identify yet-to-be annotated proteins (termed

“missing proteins”) in biological samples that lack sufficient experimental evidence at the protein level

for confident protein identification. The C-HPP also aims to identify new protein forms that may be

caused by genetic variability, post-translational modifications, and alternative splicing. Proteogenomic

data integration forms the basis of the C-HPP’s activities; therefore, we have summarized some of key

approaches and their roles in the project. We present new analytical technologies that... (More)
This paper summarizes the recent activities of the Chromosome-Centric Human Proteome Project (CHPP)

consortium, which develops new technologies to identify yet-to-be annotated proteins (termed

“missing proteins”) in biological samples that lack sufficient experimental evidence at the protein level

for confident protein identification. The C-HPP also aims to identify new protein forms that may be

caused by genetic variability, post-translational modifications, and alternative splicing. Proteogenomic

data integration forms the basis of the C-HPP’s activities; therefore, we have summarized some of key

approaches and their roles in the project. We present new analytical technologies that improve the

chemical space and lower detection limits coupled with bioinformatics tools and some publicly

available resources that can be used to improve data analysis or support the development of analytical

assays. Most of this paper’s contents have been compiled from posters, slides, and discussions

presented in the series of C-HPP workshops held during 2014. All data (posters, presentations) used are

available at the C-HPP Wiki (http://c-hpp.webhosting.rug.nl/) and in the supporting information. (Less)
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organization
publishing date
type
Contribution to journal
publication status
published
subject
keywords
missing proteins, chromosome centric human proteome project, LC-MS, antibody enrichment, proteomics, bioinformatics
in
Journal of Proteome Research
volume
14
issue
9
pages
3415 - 3431
publisher
The American Chemical Society
external identifiers
  • wos:000361087100002
  • scopus:84941094441
ISSN
1535-3893
DOI
10.1021/pr5013009
language
English
LU publication?
yes
id
8867145d-7a11-4e66-8274-5a31aaf0bb89 (old id 5462569)
date added to LUP
2015-07-20 10:36:09
date last changed
2017-07-02 03:13:48
@article{8867145d-7a11-4e66-8274-5a31aaf0bb89,
  abstract     = {This paper summarizes the recent activities of the Chromosome-Centric Human Proteome Project (CHPP)<br/><br>
consortium, which develops new technologies to identify yet-to-be annotated proteins (termed<br/><br>
“missing proteins”) in biological samples that lack sufficient experimental evidence at the protein level<br/><br>
for confident protein identification. The C-HPP also aims to identify new protein forms that may be<br/><br>
caused by genetic variability, post-translational modifications, and alternative splicing. Proteogenomic<br/><br>
data integration forms the basis of the C-HPP’s activities; therefore, we have summarized some of key<br/><br>
approaches and their roles in the project. We present new analytical technologies that improve the<br/><br>
chemical space and lower detection limits coupled with bioinformatics tools and some publicly<br/><br>
available resources that can be used to improve data analysis or support the development of analytical<br/><br>
assays. Most of this paper’s contents have been compiled from posters, slides, and discussions<br/><br>
presented in the series of C-HPP workshops held during 2014. All data (posters, presentations) used are<br/><br>
available at the C-HPP Wiki (http://c-hpp.webhosting.rug.nl/) and in the supporting information.},
  author       = {Horvatovich, Péter and Lundberg, Emma and Chen, Yu-Ju and Sung, Ting-Yi and He, Fuchu and Nice, Edouard and Goode, Robert and Yu, Simon and Ranganathan, Shoba and Baker, Mark and Domont, Roberto and Valesquez, Erika and Li, Dong and Liu, Siqi and Wang, Quanhui and He, Qing-Yu and Menon, Rajasree and Guan, Yuangfang and Corrales, Fernando and Segura, Victor and Casal, Ignacio and Pascual-Montano, Alberto and Albar, Juan Pablo and Fuentes, Manuel and Gonzalez-Gonzalez, Maria and Diez, Paula and Ibarolla, Nieves and Degano, Rosa and Mohammed, Yassane and Borchers, Christoph and Urbani, Andrea and Soggiu, Alessio and Yamamoto, Tadashi and Archakov, Alexander and Ponomarenko, Elena and Lisitsa, Andrey and Lichti, Cheryl and Mostovenko, Ekaterina and Kroes, Roger and Rezeli, Melinda and Végvári, Ákos and Fehniger, Thomas and Bischoff, Rainer and Vizcaíno, Juan Antonio and Deutsch, Eric and Lane, Lydie and Nilsson, Carol and Marko-Varga, György and Omenn, Gilbert and Jeong, Seul-Ki and Cho, Jin-Young and Paik, Young-Ki and Hancock, William},
  issn         = {1535-3893},
  keyword      = {missing proteins,chromosome centric human proteome project,LC-MS,antibody enrichment,proteomics,bioinformatics},
  language     = {eng},
  number       = {9},
  pages        = {3415--3431},
  publisher    = {The American Chemical Society},
  series       = {Journal of Proteome Research},
  title        = {Quest for Missing Proteins: Update 2015 on Chromosome-Centric Human Proteome Project},
  url          = {http://dx.doi.org/10.1021/pr5013009},
  volume       = {14},
  year         = {2015},
}