EXPERIMENT_TITLE: GSM6809643: UM-SCC-47_WT_1; Homo sapiens; Hi-C
EXPERIMENT_DESIGN_LIBRARY_DESCRIPTOR_LIBRARY_CONSTRUCTION_PROTOC: Hi-C experiment were conducted in biological replicates using MboI, according to the protocol published by Suhas S.P. Rao et al. Cell 2014 (PMID: 25497547). DNA libraries were prepared during Hi-C protocol according to experimental procedures described in Suhas S.P. Rao et al. Cell 2014 (PMID: 25497547).
STUDY_DESCRIPTOR_STUDY_ABSTRACT: We comprehensively analysed chromatin interactions in UPCI-SCC-090, UM-SCC-47, UM-SCC-104, FaDu and NP69SV40T by performing Hi-C. Overall design: Comprehensive chromatin conformational analysis using Hi-C
SAMPLE_TITLE: UM-SCC-47_WT_1
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "UM-SCC-47"}, {"TAG": "cell line", "VALUE": "UM-SCC-47"}, {"TAG": "cell type", "VALUE": "HPV(+) head and neck cancer cell line"}, {"TAG": "genotype", "VALUE": "WT"}, {"TAG": "restricion enzyme", "VALUE": "MboI"}]
Pool_Member_@attributes_sample_title: UM-SCC-47_WT_1
RUN_SET_RUN_Pool_Member_@attributes_sample_title: UM-SCC-47_WT_1
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "UMSCC47_R1_1.fastq.gz", "size": "6713347266", "date": "2022-12-12 11:01:24", "md5": "e85cfaf86da470f12d7f389573ffff13", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "UMSCC47_R2_1.fastq.gz", "size": "6863754900", "date": "2022-12-12 11:02:44", "md5": "e135f5044b8355e0b34c29298430722b", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR22681949", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR22681949/SRR22681949", "size": "8903982492", "date": "2022-12-12 11:05:35", "md5": "65e2a2836aacfb30f639634bfd3ba8be", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR22681949.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos2/sra-pub-zq-18/SRR022/22681/SRR22681949/SRR22681949.lite.1", "size": "5912803596", "date": "2022-12-17 11:19:22", "md5": "05a2afa6c91394722447beaab2772882", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}]