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

Research output: Contribution to journalArticle

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 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.

Details

Authors
  • Péter Horvatovich
  • Emma Lundberg
  • Yu-Ju Chen
  • Ting-Yi Sung
  • Fuchu He
  • Edouard Nice
  • Robert Goode
  • Simon Yu
  • Shoba Ranganathan
  • Mark Baker
  • Roberto Domont
  • Erika Valesquez
  • Dong Li
  • Siqi Liu
  • Quanhui Wang
  • Qing-Yu He
  • Rajasree Menon
  • Yuangfang Guan
  • Fernando Corrales
  • Victor Segura
  • Ignacio Casal
  • Alberto Pascual-Montano
  • Juan Pablo Albar
  • Manuel Fuentes
  • Maria Gonzalez-Gonzalez
  • Paula Diez
  • Nieves Ibarolla
  • Rosa Degano
  • Yassane Mohammed
  • Christoph Borchers
  • Andrea Urbani
  • Alessio Soggiu
  • Tadashi Yamamoto
  • Alexander Archakov
  • Elena Ponomarenko
  • Andrey Lisitsa
  • Cheryl Lichti
  • Ekaterina Mostovenko
  • Roger Kroes
  • Ákos Végvári
  • Thomas Fehniger
  • Rainer Bischoff
  • Juan Antonio Vizcaíno
  • Eric Deutsch
  • Lydie Lane
  • Carol Nilsson
  • Gilbert Omenn
  • Seul-Ki Jeong
  • Jin-Young Cho
  • Young-Ki Paik
  • William Hancock
Organisations
Research areas and keywords

Subject classification (UKÄ) – MANDATORY

  • Bioinformatics and Systems Biology

Keywords

  • missing proteins, chromosome centric human proteome project, LC-MS, antibody enrichment, proteomics, bioinformatics
Original languageEnglish
Pages (from-to)3415-3431
JournalJournal of Proteome Research
Volume14
Issue number9
Publication statusPublished - 2015
Publication categoryResearch
Peer-reviewedYes