EXPERIMENT_TITLE: Hi-C of homo sapiens (human) liver cells (PHH) of patient 399, infected with HBV, infected with HBV (BC176), replicate 2, CAPTURE
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 with Capture"}, {"TAG": "replicate", "VALUE": "biological replicate 2"}, {"TAG": "BioSampleModel", "VALUE": "Human"}]
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "HiC_PHH_399_HBV_WT_BC176_rep2_HBV_CAPTURE.end2.gz", "size": "618491027", "date": "2020-02-20 01:02:41", "md5": "3e18ff69ce319cceeeaf957002d0b022", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR7802496", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR7802496/SRR7802496", "size": "758640767", "date": "2018-09-07 08:31:41", "md5": "eba3810936317dbdf8d529fe417e4f3c", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR7802496.sralite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos5/sra-pub-zq-11/SRR007/802/SRR7802496/SRR7802496.sralite.1", "size": "503049287", "date": "2020-06-14 12:10:24", "md5": "a41f03c8c8c479c9fd236c867ff7261d", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "HiC_PHH_399_HBV_WT_BC176_rep2_HBV_CAPTURE.end1.gz", "size": "611737077", "date": "2020-02-20 01:22:12", "md5": "695c85dbee4f462902829b1bf7ad5e32", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]