EXPERIMENT_TITLE: GSM6069388: Capture HiC, iPSC-induced RPE, biol rep1; Homo sapiens; Hi-C
EXPERIMENT_DESIGN_LIBRARY_DESCRIPTOR_LIBRARY_CONSTRUCTION_PROTOC: Cells were harvested, fixed in 2% formaldehyde and DNA was digested with DpnII (New England Biolabs #R0543) Capture HiC was performed on at least 500 ng of each HiC library using custom biotinylated DNA probes designed for the SureSelectXT Target Enrichment System (Agilent Technologies) Capture HiC
STUDY_DESCRIPTOR_STUDY_ABSTRACT: GWAS studies have revealed thousands of variants strongly associated with AMD, yet connecting these variants to their cognate genes has not been explored. In this study we fine-mapped AMD risk loci and examined long-range cis chromatin interactions at essential genes of RPE function and disease-associated variants in iPSC-induced retinal pigmented epithelium (RPE) and primary RPE. Overall design: Capture HiC from iPSCs (2 replicates), iPSC-induced RPE (2 replicates).
SAMPLE_TITLE: Capture HiC, iPSC-induced RPE, biol rep1
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "WTC"}, {"TAG": "cell line", "VALUE": "WTC"}, {"TAG": "cell type", "VALUE": "iPSC-induced RPE"}, {"TAG": "genotype", "VALUE": "wild-type"}]
Pool_Member_@attributes_sample_title: Capture HiC, iPSC-induced RPE, biol rep1
RUN_SET_RUN_Pool_Member_@attributes_sample_title: Capture HiC, iPSC-induced RPE, biol rep1
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