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Series GSE60494 Query DataSets for GSE60494
Status Public on Jul 06, 2015
Title Genome-wide mapping of promoter-enhancer interactions with HiCap [HiCap]
Organism Mus musculus
Experiment type Other
Summary Although the locations of promoters and enhancers have been identified in several cell types, we have yet limited information on their connectivity. We developed HiCap, which combines Hi-C with promoter sequence capture, to enable genome-wide identification of regulatory interactions with single-enhancer resolution. HiCap analyses of mouse embryonic stem cells (mESC) identified promoter-enhancer interactions predictive of gene expression change upon perturbation, opening up for genomic analyses of long-range gene regulation.
Overall design HiCap was designed by combining Hi-C with with sequence capture (for all promoters) and carried out in mouse embryonic stem cells (mESC)
Contributor(s) Abdullayev I, Ramsköld D, Sahlen P, Sandberg R
Citation(s) 26313521
Submission date Aug 18, 2014
Last update date May 15, 2019
Contact name Ilgar Abdullayev
Organization name Karolinska Institutet
Department Cell and Molecular Biology
Lab Rickard Sandberg's group (
Street address Nobels väg 3
City Stockholm
ZIP/Postal code 17177
Country Sweden
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (6)
GSM1481232 HiCap_replicate1_mESC
GSM1481233 HiCap_replicate2_mESC
GSM1481234 CaptureC_replicate1_mESC
This SubSeries is part of SuperSeries:
GSE60495 Genome-wide mapping of promoter-enhancer interactions with HiCap
BioProject PRJNA258410
SRA SRP045580

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SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE60494_HiC_promoter-enhancer.gff.gz 1.3 Mb (ftp)(http) GFF
GSE60494_HiCap_Promoter-Enhancer_Interactions.gff.gz 1.5 Mb (ftp)(http) GFF
GSE60494_HiCap_rep1_promoter-enhancer.gff.gz 6.9 Mb (ftp)(http) GFF
GSE60494_HiCap_rep2_promoter-enhancer.gff.gz 8.0 Mb (ftp)(http) GFF
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Raw data are available in SRA
Processed data are available on Series record

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