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Genome-wide mapping of promoter-anchored interactions with close to single-enhancer resolution
KTH, School of Biotechnology (BIO), Gene Technology. KTH, Centres, Science for Life Laboratory, SciLifeLab.
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2015 (English)In: Genome Biology, ISSN 1465-6906, E-ISSN 1474-760X, Vol. 16, 156Article in journal (Refereed) Published
Abstract [en]

Although the locations of promoters and enhancers have been identified in several cell types, we still have limited information on their connectivity. We developed HiCap, which combines a 4-cutter restriction enzyme Hi-C with sequence capture of promoter regions. Applying the method to mouse embryonic stem cells, we identified promoter-anchored interactions involving 15,905 promoters and 71,984 distal regions. The distal regions were enriched for enhancer marks and transcription, and had a mean fragment size of only 699 bp - close to single-enhancer resolution. High-resolution maps of promoter-anchored interactions with HiCap will be important for detailed characterizations of chromatin interaction landscapes.

Place, publisher, year, edition, pages
2015. Vol. 16, 156
National Category
Biological Sciences
Identifiers
URN: urn:nbn:se:kth:diva-173984DOI: 10.1186/s13059-015-0727-9ISI: 000360682300001PubMedID: 26313521Scopus ID: 2-s2.0-84940034154OAI: oai:DiVA.org:kth-173984DiVA: diva2:858850
Funder
Swedish Foundation for Strategic Research , FFL4Swedish Research CouncilEU, European Research Council, 243066Wenner-Gren Foundations
Note

QC 20151005

Available from: 2015-10-05 Created: 2015-09-24 Last updated: 2017-12-01Bibliographically approved

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Sahlén, PelinRilakovic, NemanjaLötstedt, BrittaLundeberg, Joakim
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