EXPERIMENT_TITLE: GSM6809646: UM-SCC-47_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: UM-SCC-47_WT_3
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_3
RUN_SET_RUN_Pool_Member_@attributes_sample_title: UM-SCC-47_WT_3
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "UMSCC47_R1_3.fastq.gz", "size": "7510659661", "date": "2022-12-12 11:04:25", "md5": "70ffd56ad902354491921db94718fe2a", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "UMSCC47_R2_3.fastq.gz", "size": "7646278902", "date": "2022-12-12 11:04:55", "md5": "9773b503cb4ab3781559bdd5390d8c55", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR22681946", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR22681946/SRR22681946", "size": "9981433174", "date": "2022-12-12 11:06:18", "md5": "eb59de9b3110734f95869b1291515fc3", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR22681946.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos2/sra-pub-zq-18/SRR022/22681/SRR22681946/SRR22681946.lite.1", "size": "6422680930", "date": "2022-12-17 11:27:07", "md5": "d30605569cb7b9fd5fb727de44800514", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}]