A Network Model of the Molecular Organization of Chromatin in Drosophila

• Published in: Molecular cell 2013-02, Vol.49 (4), p.759-771
• Main Authors: van Bemmel, Joke G., Filion, Guillaume J., Rosado, Arantxa, Talhout, Wendy, de Haas, Marcel, van Welsem, Tibor, van Leeuwen, Fred, van Steensel, Bas
• Format: Article
• Language: English
• Subjects: Animals; Bayes Theorem; Bayesian theory; Binding Sites; Cell Line; chromatin; Chromatin - metabolism; Chromosomes, Insect - metabolism; DNA Repair; DNA Replication; Drosophila; Drosophila melanogaster - genetics; Drosophila melanogaster - metabolism; Drosophila Proteins - genetics; Drosophila Proteins - metabolism; Drosophila Proteins - physiology; gene activation; Gene Expression Regulation; genes; Models, Biological; Molecular Sequence Annotation; Nuclear Proteins - genetics; Nuclear Proteins - metabolism; Nuclear Proteins - physiology; Principal Component Analysis; Protein Binding; Protein Interaction Mapping; Protein Interaction Maps; Protein Processing, Post-Translational; proteome; screening
• ISSN: 1097-2765; 1097-4164
• DOI: 10.1016/j.molcel.2013.01.040

Chromatin governs gene regulation and genome maintenance, yet a substantial fraction of the chromatin proteome is still unexplored. Moreover, a global model of the chromatin protein network is lacking. By screening >100 candidates we identify 42 Drosophila proteins that were not previously associated with chromatin, which all display specific genomic binding patterns. Bayesian network modeling of the binding profiles of these and 70 known chromatin components yields a detailed blueprint of the in vivo chromatin protein network. We demonstrate functional compartmentalization of this network, and predict functions for most of the previously unknown chromatin proteins, including roles in DNA replication and repair, and gene activation and repression. [Display omitted] ► DamID identifies 42 previously unknown chromatin proteins ► Binding maps of new and known chromatin components yield a chromatin network model ► The network model predicts functions of most of the 42 new chromatin proteins ► The chromatin protein network is functionally compartmentalized