EXPERIMENT_TITLE: GSM4257749: 22rv1_h3k27ac_hic_rep1; Homo sapiens; Hi-C
EXPERIMENT_DESIGN_LIBRARY_DESCRIPTOR_LIBRARY_CONSTRUCTION_PROTOC: ARIMA-HIC kit Libraries were prepared following ARIMA-HIC protocol and the hyper prep kit illumina from Kapa Biosystems (#KK8500) Truseq index from illumina (cat 20015960)
STUDY_DESCRIPTOR_STUDY_ABSTRACT: Prostate cancer (PCa) associated risk SNPs are enriched in cis-regulatory elements (CREs). In this study, we screened 260 CREs that contain at least one PCa risk SNP for essentiality in V16A, 22Rv1 and A549 cells. We tiled the CREs and 14 control regions using 5,873 sgRNAs. Overall design: Hi-C in V16A and 22Rv1 cells.
SAMPLE_TITLE: 22rv1_h3k27ac_hic_rep1
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "Prostate"}, {"TAG": "cell line", "VALUE": "22Rv1"}, {"TAG": "tissue", "VALUE": "Prostate"}]
Pool_Member_@attributes_sample_title: 22rv1_h3k27ac_hic_rep1
RUN_SET_RUN_Pool_Member_@attributes_sample_title: 22rv1_h3k27ac_hic_rep1
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": null, "@attributes": {"cluster": "public", "filename": "22Rv1_1_R1.fastq.gz", "size": "36201477917", "date": "2020-01-09 19:08:54", "md5": "086b3d8459d085fbe4150bc5b1faa224", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "22Rv1_1_R2.fastq.gz", "size": "37688981011", "date": "2020-01-09 19:15:04", "md5": "c17afdea7162e96dcdf51263a0902a3c", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR10858473", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR10858473/SRR10858473", "size": "47177263140", "date": "2020-01-09 19:38:26", "md5": "6a39a708318a7780f883aa3bc0f78dce", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR10858473.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos3/sra-pub-zq-24/SRR010/10858/SRR10858473/SRR10858473.lite.1", "size": "37201809336", "date": "2022-08-02 01:07:23", "md5": "4d4c0102632338fcb3f55c3c01fd9e49", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}]