| Chapter title |
Detecting Spatial Chromatin Organization by Chromosome Conformation Capture II: Genome-Wide Profiling by Hi-C
|
|---|---|
| Chapter number | 261 |
| Book title |
Population Epigenetics
|
| Published in |
Methods in molecular biology, February 2016
|
| DOI | 10.1007/7651_2015_261 |
| Pubmed ID | |
| Book ISBNs |
978-1-4939-6901-2, 978-1-4939-6903-6
|
| Authors |
Rudan, Matteo Vietri, Hadjur, Suzana, Sexton, Tom, Matteo Vietri Rudan, Suzana Hadjur, Tom Sexton, Vietri Rudan, Matteo |
| Abstract |
The chromosome conformation capture (3C) method has been invaluable in studying chromatin interactions in a population of cells at a resolution surpassing that of light microscopy, for example in the detection of functional contacts between enhancers and promoters. Recent developments in sequencing-based chromosomal contact mapping (Hi-C, 5C and 4C-Seq) have allowed researchers to interrogate pairwise chromatin interactions on a wider scale, shedding light on the three-dimensional organization of chromosomes. These methods present significant technical and bioinformatic challenges to consider at the start of the project. Here, we describe two alternative methods for Hi-C, depending on the size of the genome, and discuss the major computational approaches to convert the raw sequencing data into meaningful models of how genomes are organized. |
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