Network analysis identifies chromosome intermingling regions as regulatory hotspots for transcription
Abstract
We develop a network analysis approach for identifying clusters of interactions between chromosomes, which we validate experimentally. Our method integrates 1D features of the genome, such as epigenetic marks, with 3D interactions, allowing us to study spatially colocalized regions between chromosomes that are functionally relevant. We observe that clusters of interchromosomal regions fall into active and inactive categories. We find that active clusters share transcription factors and are enriched for transcriptional machinery, suggesting that chromosome intermingling regions play a key role in genome regulation. Our method provides a unique quantitative framework that can be broadly applied to study the principles of genome organization and regulation during processes such as cell differentiation and reprogramming.
Document Details
- Document Type
- Pub Defense Publication
- Publication Date
- Dec 11, 2017
- Source ID
- 10.1073/pnas.1708028115
Entities
People
- Anastasiya Belyaeva
- Caroline Uhler
- G V Shivashankar
- Mallika Nagarajan
- Saradha Venkatachalapathy
Organizations
- Division of Graduate Education
- Massachusetts Institute of Technology
- Mechanobiology Institute, Singapore
- Ministry of Education
- National Institutes of Health
- National Science Foundation Division of Mathematical Sciences
- Office of Naval Research Global