RT Journal Article
SR Electronic
T1 Inference of interactions between chromatin modifiers and histone modifications: from ChIP-Seq data to chromatin-signaling
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 010132
DO 10.1101/010132
A1 Juliane Perner
A1 Julia Lasserre
A1 Sarah Kinkley
A1 Martin Vingron
A1 Ho-Ryun Chung
YR 2014
UL http://biorxiv.org/content/early/2014/10/08/010132.abstract
AB Chromatin modifiers and histone modifications are components of a chromatin-signaling network involved in transcription and its regulation. The interactions between chromatin modifiers and histone modifications are often unknown, are based on the analysis of few genes, or are studied in vitro. Here, we apply computational methods to recover interactions between chromatin modifiers and histone modifications from genome-wide ChIP-Seq data. These interactions provide a high-confidence backbone of the chromatin-signaling network. Many recovered interactions have literature support; others provide hypotheses about yet unknown interactions. We experimentally verified two of these predicted interactions, leading to a link between H4K20me1 and members of the Polycomb Repressive Complexes 1 and 2. Our results suggest that our computationally derived interactions are likely to lead to novel biological insights required to establish the connectivity of the chromatin-signaling network involved in transcription and its regulation.