Advances in the Chromosome-Centric Human Proteome Project: looking to the future

Abstract

Introduction: The mission of the Chromosome-Centric Human Proteome Project (C-HPP), is to map and annotate the entire predicted human protein set (~20,000 proteins) encoded by each chromosome. The initial steps of the project are focused on “missing proteins (MPs)”, which lacked documented evidence for existence at protein level. In addition to remaining 2,579 MPs, we also target those annotated proteins having unknown functions, uPE1 proteins, alternative splice isoforms and post-translational modifications. We also consider how to investigate various protein functions involved in cis-regulatory phenomena, amplicons lncRNAs and smORFs. Areas covered: We will cover the scope, historic background, progress, challenges and future prospects of C-HPP. This review also addresses the question of how we can best improve the methodological approaches, select the optimal biological samples, and recommend stringent protocols for the identification and characterization of MPs. A new strategy for functional analysis of some of those annotated proteins having unknown function will also be discussed. Expert commentary: If the project moves well by reshaping the original goals, the current working modules and team work in the proposed extended planning period, it is anticipated that a progressively more detailed draft of an accurate chromosome-based proteome map will become available with functional information.

FusionPro, a Versatile Proteogenomic Tool for Identification of Novel Fusion Transcripts and Their Potential Translation Products in Cancer Cells*

“…The term "proteoform" encompasses all the various forms of proteins that result from molecular or cellular modifications (1). Given their important biological roles, proteoforms have been included in the list of proteome parts examined in the global Chromosome-centric Human Proteome Project (C-HPP) 1 (2)(3)(4). Fusion proteoforms are protein products that are translated from the fusion transcripts that form when two different transcripts join because of chromosomal translocation, structural variation, or trans-splicing.…”

The development of rheumatology at the stage of formation of a new technological paradigm

“…Протеомика рассматривается как приоритетное направление изучения биомаркеров ИВРЗ; протеомные исследования могут предоставить информацию для ранней диагностики ИВРЗ, оценки реакции на лечение и выделения групп больных, потенциально не отвечающих на определенные лекарственные препараты. В 2010 г. стартовал проект «Протеом человека» (Нuman Proteome Project) [37], направленный на создание протеомной карты, включающей все белки, кодируемые геномом человека. Идентификация перспективных биомаркеров ИВРЗ связана также с исследованиями в области метаболомики, расшифровывающей текущие метаболические изменения в организме человека при изучении малых молекул (<1 кДа), что имеет различия у больных РА, СКВ, спондилоартритом, остеоартритом [38].…”

17th Chromosome‐Centric Human Proteome Project Symposium in Tehran

“…As C‐HPP progresses, the identification of proteins with high quality protein evidence (PE) has increased by approximately 20%. According to the last neXtProt release (V.2017‐08‐01), there are 17168 PE1 proteins and 2461 PE2‐4 proteins (MPs) . To date, the International C‐HPP Consortium consists of 25 members from four continents and covers 24 chromosomes and mitochondrial DNA (Figure ).…”

“…According to the last neXtProt release (V.2017-08-01), there are 17168 PE1 proteins and 2461 PE2-4 proteins (MPs). [3] To date, the International C-HPP Consortium consists of 25 members from four continents and covers 24 chromosomes and mitochondrial DNA (Figure 1). During the annual C-HPP symposia/workshops and HUPO Annual World Congress, participants meet to discuss the project's progress, guidelines, and new strategies.…”