TY - JOUR
T1 - Proteomics of a fuzzy organelle
T2 - interphase chromatin
AU - Kustatscher, Georg
AU - Hégarat, Nadia
AU - Wills, Karen L H
AU - Furlan, Cristina
AU - Bukowski-Wills, Jimi-Carlo
AU - Hochegger, Helfrid
AU - Rappsilber, Juri
N1 - The Wellcome Trust generously supported this work through a Senior
Research Fellowship to JR (084229), two Wellcome Trust Centre Core Grants
(077707, 092076), and an instrument grant (091020). GK was supported by a
FEBS Long-Term fellowship.
PY - 2014/2/16
Y1 - 2014/2/16
N2 - 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.
AB - 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.
U2 - 10.1002/embj.201387614
DO - 10.1002/embj.201387614
M3 - Article
C2 - 24534090
SN - 0261-4189
JO - EMBO Journal
JF - EMBO Journal
ER -