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Series GSE32587 Query DataSets for GSE32587
Status Public on Dec 04, 2011
Title Large-Scale Discovery of Enhancers from Human Heart Tissue
Organisms Homo sapiens; Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Development and function of the human heart depend on the dynamic control of tissue-specific gene expression by distant-acting transcriptional enhancers. While large numbers of heart enhancers have been identified using the mouse as a model system, many of these regulatory sequences are poorly conserved in the human genome. To generate an accurate genome-wide map of human heart enhancers, we used an epigenomic enhancer discovery approach and identified ~6,200 candidate enhancer sequences directly from fetal and adult human heart tissue. Consistent with their predicted function, these elements were markedly enriched near genes implicated in heart development, function and disease. To further validate their in vivo enhancer activity, we tested 65 of these human sequences in a transgenic mouse enhancer assay and observed that 43 (66%) drove reproducible reporter gene expression in the heart. These results support the discovery of a genome-wide set of non-coding sequences highly enriched in human heart enhancers which is likely to facilitate down-stream studies of the role of enhancers in development and pathological conditions of the heart.
 
Overall design Examination of AcCBP/p300 binding in human adult heart, human fetal (16wk) heart and mouse postnatal day 2 heart
 
Contributor(s) Blow MJ, May D, Visel A
Citation(s) 22138689
Submission date Oct 04, 2011
Last update date Mar 08, 2019
Contact name Matthew James Blow
E-mail mjblow@lbl.gov
Phone 510-486-6590
Fax 510-486-7004
Organization name Lawrence Berkeley National Laboratory
Department Genomics Division
Lab Rubin / Pennacchio
Street address 1 Cyclotron Road
City Berkeley
State/province CA
ZIP/Postal code 94720
Country USA
 
Platforms (2)
GPL9052 Illumina Genome Analyzer (Homo sapiens)
GPL9185 Illumina Genome Analyzer (Mus musculus)
Samples (4)
GSM807734 HumanAdultHeart_acCBP-p300_ChIP-seq
GSM807735 HumanFetaltHeart_acCBP-p300_ChIP-seq
GSM807736 HumanFetaltHeart_polII_ChIP-seq
Relations
SRA SRP008658
BioProject PRJNA147085

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

Supplementary file Size Download File type/resource
GSE32587_RAW.tar 1.2 Gb (http)(custom) TAR (of BED, TXT, WIG)
Raw data are available in SRA
Processed data provided as supplementary file

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