EXPERIMENT_TITLE: Hi-C of homo sapiens (human) liver cells (PHH) of patient 342, infected with HBV (BC186), 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_342"}, {"TAG": "age", "VALUE": "2 years"}, {"TAG": "biomaterial_provider", "VALUE": "Corning (reference 454541, lot #342)"}, {"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, null, null], "@attributes": {"cluster": "public", "filename": "SRR7802515.sralite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos5/sra-pub-zq-11/SRR007/802/SRR7802515/SRR7802515.sralite.1", "size": "454916570", "date": "2020-06-23 21:34:11", "md5": "527aac523f536dc8ea554d8daf6bf0d5", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null], "@attributes": {"cluster": "public", "filename": "HiC_PHH_342_HBV_WT_BC186_rep2_HBV_CAPTURE.end2.gz", "url": "https://sra-pub-src-1.s3.amazonaws.com/SRR7802515/HiC_PHH_342_HBV_WT_BC186_rep2_HBV_CAPTURE.end2.gz.1", "size": "600318570", "date": "2020-02-19 23:49:51", "md5": "483656eea054cb3b8371458f8197f843", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": [null, null], "@attributes": {"cluster": "public", "filename": "HiC_PHH_342_HBV_WT_BC186_rep2_HBV_CAPTURE.end1.gz", "url": "https://sra-pub-src-1.s3.amazonaws.com/SRR7802515/HiC_PHH_342_HBV_WT_BC186_rep2_HBV_CAPTURE.end1.gz.1", "size": "588125529", "date": "2020-02-20 03:00:59", "md5": "4c5088f9b432c2294494d74d49621aa8", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]