Detecting Spatial Chromatin Organization by Chromosome Conformation Capture II: Genome-Wide Profiling by Hi-C.
Fiche publication
Date publication
janvier 2017
Journal
Methods in molecular biology (Clifton, N.J.)
Auteurs
Membres identifiés du Cancéropôle Est :
Dr SEXTON Thomas
Tous les auteurs :
Vietri Rudan M, Hadjur S, Sexton T
Lien Pubmed
Résumé
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.
Mots clés
Animals, Cells, Cultured, Chromatin, chemistry, Chromatin Assembly and Disassembly, Chromosome Mapping, methods, Computational Biology, methods, Drosophila melanogaster, genetics, Embryo, Mammalian, cytology, Genome-Wide Association Study, Genomics, methods, Hepatocytes, cytology, High-Throughput Nucleotide Sequencing, methods, Mice
Référence
Methods Mol. Biol.. 2017 ;1589:47-74