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E-GEOD-35156 - Conserved Topological Domains in Mammalian Genomes Identified by High-resolution Analysis of Chromatin Interactions

Status
Released on 10 April 2012, last updated on 4 May 2014
Organism
Homo sapiens, Mus musculus
Samples (9)
Protocols (12)
Description
The spatial organization of the genome is intimately linked to its biological function, yet our understanding of higher order genomic structure is limited. Here we present high-resolution analyses of chromosomal organization in pluripotent and differentiated human and murine cell types determined using the Hi-C technique. We find that the mammalian genome is composed of over 1000 topological domains, which are stable among different cell types and highly conserved across species. These megabase-long genomic structures, defined by prominent local chromatin interactions and separated by narrow boundary regions, likely function to restrict regulatory interactions between cis-acting elements and limit the spreading of heterochromatin during cellular differentiation. Interestingly, the boundaries are enriched not only for binding sites of the insulator protein CTCF, but also for promoters of house keeping genes, supporting a role for both CTCF and housekeeping genes in the establishment or maintenance of the topological domains. Hi-C experiment were conducted in mESC, hESC and IMR90 cells
Experiment type
other 
Contacts
Feng Yue <fyue@ucsd.edu>, Bing Ren, Jesse Dixon
Citation
Topological domains in mammalian genomes identified by analysis of chromatin interactions. Dixon JR, Selvaraj S, Yue F, Kim A, Li Y, Shen Y, Hu M, Liu JS, Ren B. , PMID:22495300
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
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