EXPERIMENT_TITLE: GSM6809647: UM-SCC-47_WT_4; 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_4
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_4
RUN_SET_RUN_Pool_Member_@attributes_sample_title: UM-SCC-47_WT_4
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR22681945.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos2/sra-pub-zq-18/SRR022/22681/SRR22681945/SRR22681945.lite.1", "size": "20121272062", "date": "2022-12-17 14:25:15", "md5": "902eb87af24e5528cd371f96e6d616f0", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR22681945", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR22681945/SRR22681945", "size": "25959696170", "date": "2022-12-12 13:49:16", "md5": "17720efb5b6b1f88c7e98b6807086d61", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "UMSCC47_R2_4.fastq.gz", "size": "20656778134", "date": "2022-12-12 13:11:15", "md5": "cb7f773bd584a0e2d09dc54526585e11", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "UMSCC47_R1_4.fastq.gz", "size": "20124959398", "date": "2022-12-12 13:15:50", "md5": "3e4d7c6dafb599391967c043dc0941e4", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]