EXPERIMENT_TITLE: Hi-C of homo sapiens (human) liver cells (PHH) of patient 399, infected with HBV, infected with HBV (BC164), replicate 1
STUDY_DESCRIPTOR_STUDY_ABSTRACT: Whether non-integrated viral DNAs distribute randomly or target specific positions within the higher-order architecture of mammalian genomes remains largely unknown. We used Hi-C and viral DNA capture (CHi-C) in primary human hepatocytes infected by either hepatitis B virus (HBV) or adenovirus type 5 (Ad5) virus to show that they adopt different strategies in their respective positioning at active chromatin.
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "isolate", "VALUE": "PHH_399"}, {"TAG": "age", "VALUE": "27 years"}, {"TAG": "biomaterial_provider", "VALUE": "Corning (reference 454541, lot #399)"}, {"TAG": "sex", "VALUE": "female"}, {"TAG": "tissue", "VALUE": "liver"}, {"TAG": "cell_type", "VALUE": "PHH"}, {"TAG": "disease", "VALUE": "Infected with HBV"}, {"TAG": "ethnicity", "VALUE": "caucasian"}, {"TAG": "treatment", "VALUE": "Hi-C without Capture"}, {"TAG": "replicate", "VALUE": "biological replicate 1"}, {"TAG": "BioSampleModel", "VALUE": "Human"}]
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR7802501", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR7802501/SRR7802501", "size": "14372511600", "date": "2018-09-07 11:26:36", "md5": "b3d4dac8a730cd9e27814f8d6d9b0242", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR7802501.sralite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos5/sra-pub-zq-11/SRR007/802/SRR7802501/SRR7802501.sralite.1", "size": "8840793400", "date": "2020-06-20 11:05:16", "md5": "552cc27ad557df812df1845ebdef8d08", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "HiC_PHH_399_HBV_WT_BC164_rep1.end2.gz", "size": "13745489525", "date": "2020-02-20 02:45:50", "md5": "9363ecee58fd21f7b04d3876fec7c37f", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "HiC_PHH_399_HBV_WT_BC164_rep1.end1.gz", "size": "13171410297", "date": "2020-02-20 06:16:53", "md5": "7b100b9805adad526589728cf66f5618", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]