EXPERIMENT_TITLE: Hi-C of homo sapiens (human) liver cells (PHH) of patient 345, infected with adenovirus (BC176), day7, 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_345"}, {"TAG": "age", "VALUE": "7 months"}, {"TAG": "biomaterial_provider", "VALUE": "Corning (reference 454541, lot #345)"}, {"TAG": "sex", "VALUE": "female"}, {"TAG": "tissue", "VALUE": "liver"}, {"TAG": "cell_type", "VALUE": "PHH"}, {"TAG": "disease", "VALUE": "Infected with Ad5"}, {"TAG": "disease_stage", "VALUE": "day7"}, {"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, null, null], "@attributes": {"cluster": "public", "filename": "SRR7802500.sralite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos5/sra-pub-zq-11/SRR007/802/SRR7802500/SRR7802500.sralite.1", "size": "2238927455", "date": "2020-06-23 21:48:37", "md5": "511b8c5f87d236c7c1de98a28bc4474d", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR7802500", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR7802500/SRR7802500", "size": "3436646967", "date": "2018-09-07 08:45:47", "md5": "a0dc13d7414fd7e244c9b09cd1208965", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "HiC_PHH_345_adenovirus_BC176_day7_rep1.end2.gz", "size": "2572171017", "date": "2020-02-20 08:57:02", "md5": "634625cd0f5ae87e509806b617b6ed01", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "HiC_PHH_345_adenovirus_BC176_day7_rep1.end1.gz", "size": "2459901605", "date": "2020-02-20 03:00:49", "md5": "9753e9de77119d27bdfce6bc600614e2", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]