EXPERIMENT_TITLE: GSM6809644: UM-SCC-47_WT_2; 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_2
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_2
RUN_SET_RUN_Pool_Member_@attributes_sample_title: UM-SCC-47_WT_2
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR22681948.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos2/sra-pub-zq-18/SRR022/22681/SRR22681948/SRR22681948.lite.1", "size": "6309165393", "date": "2022-12-17 12:28:24", "md5": "0eee06d2b7b29fdbb37fd0bafc0e5ed6", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR22681948", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR22681948/SRR22681948", "size": "9660527409", "date": "2022-12-12 11:20:58", "md5": "4d807fe4bdba37abca590d724702fda6", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "UMSCC47_R2_2.fastq.gz", "size": "7444800692", "date": "2022-12-12 11:16:02", "md5": "b6e0979d2cc5df682fc88b625b758a32", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "UMSCC47_R1_2.fastq.gz", "size": "7249388865", "date": "2022-12-12 11:17:50", "md5": "91145cdd1a0c38863f464611f341556f", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]