title: Genome-wide mapping of promoter-anchored interactions with close to single-enhancer resolution.
abstract: 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.
authors: KTH - Royal Institute of Technology, Science for Life Laboratory, School of Biotechnology, Solna, 171 65, Sweden. pelin.akan@scilifelab.se.
authors: Pelin
authors: P
authors: Sahlén
authors: Ludwig Institute for Cancer Research, Stockholm, 171 77, Sweden. ilgar.abdullayev@ki.se.|Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, 171 77, Sweden. ilgar.abdullayev@ki.se.
authors: Ilgar
authors: I
authors: Abdullayev
authors: Ludwig Institute for Cancer Research, Stockholm, 171 77, Sweden. daniel.ramskold@ki.se.|Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, 171 77, Sweden. daniel.ramskold@ki.se.
authors: Daniel
authors: D
authors: Ramsköld
authors: Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, 171 77, Sweden. liudmila.matskova@ki.se.
authors: Liudmila
authors: L
authors: Matskova
authors: KTH - Royal Institute of Technology, Science for Life Laboratory, School of Biotechnology, Solna, 171 65, Sweden. nemanja.rilakovic@scilifelab.se.
authors: Nemanja
authors: N
authors: Rilakovic
authors: KTH - Royal Institute of Technology, Science for Life Laboratory, School of Biotechnology, Solna, 171 65, Sweden. britta.lotstedt@complyit.se.
authors: Britta
authors: B
authors: Lötstedt
authors: Roche Nimblegen Inc., R&D, Madison, WI, 53719, USA. thomas.albert@roche.com.
authors: Thomas J
authors: TJ
authors: Albert
authors: KTH - Royal Institute of Technology, Science for Life Laboratory, School of Biotechnology, Solna, 171 65, Sweden. joakim.lundeberg@scilifelab.se.
authors: Joakim
authors: J
authors: Lundeberg
authors: Ludwig Institute for Cancer Research, Stockholm, 171 77, Sweden. rickard.sandberg@ki.se.|Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, 171 77, Sweden. rickard.sandberg@ki.se.
authors: Rickard
authors: R
authors: Sandberg
mesh_terms: D000818:Animals; D002843:Chromatin / Q000737:chemistry*; D002874:Chromosome Mapping; D004742:Enhancer Elements, Genetic; D015870:Gene Expression; D053263:Gene Regulatory Networks; D023281:Genomics / Q000379:methods*; D051379:Mice; D011401:Promoter Regions, Genetic; D014157:Transcription Factors / Q000378:metabolism
chemical_list: D002843:Chromatin; D014157:Transcription Factors