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

This
paper summarizes the recent activities of the Chromosome-Centric
Human Proteome Project (C-HPP) 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 the key approaches
and their roles in the project. We present new analytical technologies
that improve the chemical space and lower detection limits coupled
to 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 content has 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.