Transcriptomics

Dataset Information

38

ATAC-seq of HepG2 cells


ABSTRACT: ATAC-seq open chromatin maps for HepG2 cells (3 biological replicates), a liver model.

INSTRUMENT(S): Illumina HiSeq 4000

ORGANISM(S): Homo sapiens  

SUBMITTER: Struan F.A. Grant   Matthew E. Johnson   Elisabetta Manduchi   Andrew D. Wells   Michelle E. Leonard  

PROVIDER: E-MTAB-7543 | ArrayExpress | 2019-03-20

SECONDARY ACCESSION(S): ERP112921

REPOSITORIES: ArrayExpress, ENA

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Publications

Genome-scale Capture C promoter interactions implicate effector genes at GWAS loci for bone mineral density.

Chesi Alessandra A   Wagley Yadav Y   Johnson Matthew E ME   Manduchi Elisabetta E   Su Chun C   Lu Sumei S   Leonard Michelle E ME   Hodge Kenyaita M KM   Pippin James A JA   Hankenson Kurt D KD   Wells Andrew D AD   Grant Struan F A SFA  

Nature communications 20190319 1


Osteoporosis is a devastating disease with an essential genetic component. GWAS have discovered genetic signals robustly associated with bone mineral density (BMD), but not the precise localization of effector genes. Here, we carry out physical and direct variant to gene mapping in human mesenchymal progenitor cell-derived osteoblasts employing a massively parallel, high resolution Capture C based method in order to simultaneously characterize the genome-wide interactions of all human promoters.  ...[more]

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