Proteomics of a fuzzy organelle: interphase chromatin

Chromatin proteins mediate replication, regulate expression, and ensure integrity of the genome. So far, a comprehensive inventory of interphase chromatin has not been determined. This is largely due to its heterogeneous and dynamic composition, which makes conclusive biochemical purification diffic...

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Main Authors:	Kustatscher, Georg, Hégarat, Nadia, Wills, Karen L H, Furlan, Cristina, Bukowski-Wills, Jimi-Carlo, Hochegger, Helfrid, Rappsilber, Juri
Format:	Online
Language:	English
Published:	Blackwell Publishing Ltd 2014
Online Access:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3983682/

id	pubmed-3983682
recordtype	oai_dc
spelling	pubmed-39836822014-04-15 Proteomics of a fuzzy organelle: interphase chromatin Kustatscher, Georg Hégarat, Nadia Wills, Karen L H Furlan, Cristina Bukowski-Wills, Jimi-Carlo Hochegger, Helfrid Rappsilber, Juri Resource Chromatin proteins mediate replication, regulate expression, and ensure integrity of the genome. So far, a comprehensive inventory of interphase chromatin has not been determined. This is largely due to its heterogeneous and dynamic composition, which makes conclusive biochemical purification difficult, if not impossible. As a fuzzy organelle, it defies classical organellar proteomics and cannot be described by a single and ultimate list of protein components. Instead, we propose a new approach that provides a quantitative assessment of a protein's probability to function in chromatin. We integrate chromatin composition over a range of different biochemical and biological conditions. This resulted in interphase chromatin probabilities for 7635 human proteins, including 1840 previously uncharacterized proteins. We demonstrate the power of our large-scale data-driven annotation during the analysis of cyclin-dependent kinase (CDK) regulation in chromatin. Quantitative protein ontologies may provide a general alternative to list-based investigations of organelles and complement Gene Ontology. Blackwell Publishing Ltd 2014-03-18 2014-02-17 /pmc/articles/PMC3983682/ /pubmed/24534090 http://dx.doi.org/10.1002/embj.201387614 Text en © 2014 The Authors. http://creativecommons.org/licenses/by/3.0/ This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
repository_type	Open Access Journal
institution_category	Foreign Institution
institution	US National Center for Biotechnology Information
building	NCBI PubMed
collection	Online Access
language	English
format	Online
author	Kustatscher, Georg Hégarat, Nadia Wills, Karen L H Furlan, Cristina Bukowski-Wills, Jimi-Carlo Hochegger, Helfrid Rappsilber, Juri
spellingShingle	Kustatscher, Georg Hégarat, Nadia Wills, Karen L H Furlan, Cristina Bukowski-Wills, Jimi-Carlo Hochegger, Helfrid Rappsilber, Juri Proteomics of a fuzzy organelle: interphase chromatin
author_facet	Kustatscher, Georg Hégarat, Nadia Wills, Karen L H Furlan, Cristina Bukowski-Wills, Jimi-Carlo Hochegger, Helfrid Rappsilber, Juri
author_sort	Kustatscher, Georg
title	Proteomics of a fuzzy organelle: interphase chromatin
title_short	Proteomics of a fuzzy organelle: interphase chromatin
title_full	Proteomics of a fuzzy organelle: interphase chromatin
title_fullStr	Proteomics of a fuzzy organelle: interphase chromatin
title_full_unstemmed	Proteomics of a fuzzy organelle: interphase chromatin
title_sort	proteomics of a fuzzy organelle: interphase chromatin
description	Chromatin proteins mediate replication, regulate expression, and ensure integrity of the genome. So far, a comprehensive inventory of interphase chromatin has not been determined. This is largely due to its heterogeneous and dynamic composition, which makes conclusive biochemical purification difficult, if not impossible. As a fuzzy organelle, it defies classical organellar proteomics and cannot be described by a single and ultimate list of protein components. Instead, we propose a new approach that provides a quantitative assessment of a protein's probability to function in chromatin. We integrate chromatin composition over a range of different biochemical and biological conditions. This resulted in interphase chromatin probabilities for 7635 human proteins, including 1840 previously uncharacterized proteins. We demonstrate the power of our large-scale data-driven annotation during the analysis of cyclin-dependent kinase (CDK) regulation in chromatin. Quantitative protein ontologies may provide a general alternative to list-based investigations of organelles and complement Gene Ontology.
publisher	Blackwell Publishing Ltd
publishDate	2014
url	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3983682/
_version_	1612077100073746432

Proteomics of a fuzzy organelle: interphase chromatin

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