Kustatscher, GeorgHégarat, NadiaWills, Karen L. H.Furlan, CristinaBukowski-Wills, Jimi-CarloHochegger, HelfridRappsilber, Juri2017-07-142017-07-1420140261-4189https://depositonce.tu-berlin.de/handle/11303/6500http://dx.doi.org/10.14279/depositonce-6008Chromatin 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.en570 Biowissenschaften; BiologieCdk regulationchromatinmachine learningorganelleproteomicsArticle1460-207524534090