EXPERIMENT_TITLE: GSM4206367: Choudhary-2018-TW_HIC003; Homo sapiens; Hi-C
EXPERIMENT_DESIGN_LIBRARY_DESCRIPTOR_LIBRARY_CONSTRUCTION_PROTOC: As detailed in In situ Hi-C: Protocol and Quality Control Standards, 4D Nucleome Consortium (https://drive.google.com/file/d/1wEAR_yGKMFBZ6BQ6CRRtBa8USYdRZahM/view) As detailed in In situ Hi-C: Protocol and Quality Control Standards, 4D Nucleome Consortium (https://drive.google.com/file/d/1wEAR_yGKMFBZ6BQ6CRRtBa8USYdRZahM/view) in situ HiC, in situ HiC^2
STUDY_DESCRIPTOR_STUDY_ABSTRACT: Co-option of transposable elements maintains conserved 3D genome structures via CTCF binding site turnover in human and mouse. Overall design: in situ HiC and in situ Hybrid-capture HiC (HiC^2) were generated for L1M3f-del and LTR41-del GM12878 cell lines
SAMPLE_TITLE: Choudhary-2018-TW_HIC003
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "GM12878 cell line"}, {"TAG": "strain", "VALUE": "L1M3f deletion"}, {"TAG": "gender", "VALUE": "female"}, {"TAG": "tissue", "VALUE": "blood lymphoblastoid"}]
Pool_Member_@attributes_sample_title: Choudhary-2018-TW_HIC003
RUN_SET_RUN_Pool_Member_@attributes_sample_title: Choudhary-2018-TW_HIC003
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "Choudhary-2018-TW_HIC003_R1.fastq.gz", "size": "72039400", "date": "2019-12-06 06:32:31", "md5": "4a4d250c28e834c1e289c9d469ac83e1", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "Choudhary-2018-TW_HIC003_R2.fastq.gz", "size": "79992459", "date": "2019-12-06 06:32:33", "md5": "7fb24427c834d3cb80cdccc94b33931b", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR10597496", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR10597496/SRR10597496", "size": "96878036", "date": "2019-12-06 06:32:42", "md5": "12c6f0e7448024841230919ccab59e60", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR10597496.sralite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos5/sra-pub-zq-14/SRR010/597/SRR10597496.sralite.1", "size": "46997099", "date": "2020-06-22 11:55:49", "md5": "780866f21f14bfdf9c5af9c427311d4d", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}]