EXPERIMENT_TITLE: GSM6809645: FaDu_WT_3; 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: FaDu_WT_3
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "FaDu"}, {"TAG": "cell line", "VALUE": "FaDu"}, {"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: FaDu_WT_3
RUN_SET_RUN_Pool_Member_@attributes_sample_title: FaDu_WT_3
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR22681947.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos4/sra-pub-zq-3/SRR022/22681/SRR22681947/SRR22681947.lite.1", "size": "18271747240", "date": "2023-05-10 07:23:56", "md5": "1bd4ec555e4bb435e323fa847c0fb249", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR22681947", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR22681947/SRR22681947", "size": "26631286072", "date": "2022-12-13 05:11:00", "md5": "a51506f8bc67d33e5ba720376fd90e7f", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "FaDu_R2_3.fastq.gz", "size": "22109346090", "date": "2022-12-13 05:07:28", "md5": "5ccde9bcc3b1ea4e6e8c7573dc1a2cbe", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "FaDu_R1_3.fastq.gz", "size": "21544292151", "date": "2022-12-13 05:08:47", "md5": "6a11c7c4eadeecae51b3fec71306b468", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]