Contribution of Antibody-based Protein Profiling to the Human Chromosome-centric Proteome Project (C-HPP)

A gene-centric Human Proteome Project has been proposed
to characterize the human protein-coding genes in a chromosome-centered
manner to understand human biology and disease. Here, we report on
the protein evidence for all genes predicted from the genome sequence
based on manual annotation from literature (UniProt), antibody-based
profiling in cells, tissues and organs and analysis of the transcript
profiles using next generation sequencing in human cell lines of different
origins. We estimate that there is good evidence for protein existence
for 69% (n = 13985) of the human protein-coding genes,
while 23% have only evidence on the RNA level and 7% still lack experimental
evidence. Analysis of the expression patterns shows few tissue-specific
proteins and approximately half of the genes expressed in all the
analyzed cells. The status for each gene with regards to protein evidence
is visualized in a chromosome-centric manner as part of a new version
of the Human Protein Atlas (www.proteinatlas.org).