EXPERIMENT_TITLE: GSM7061653: hTERT cells, MED12-WT, HIC; Homo sapiens; Hi-C
EXPERIMENT_DESIGN_LIBRARY_DESCRIPTOR_LIBRARY_CONSTRUCTION_PROTOC: Approximate 1 million WT/Mut cells were harvested, counted, and fixed with 1% formaldehyde and quenched with 0.125 M glycine at room temperature The Hi-C was performed using the Arima-HiC Kit (A510008, Arima Genomics) as instructed by the manufacturer Hi-C libraries were generated using KAPA Library Quantification Kit (KAPA Biosystems) and quality-checked according to the manufacturer's protocol
STUDY_DESCRIPTOR_STUDY_ABSTRACT: We employed CRISPR knock-in with a sensitive PCR-based screening strategy to precisely engineer cells with mutant MED12 Gly44. Critically, the engineered myometrial SMC cells recapitulate several UF-like cellular, transcriptional and metabolic alterations, including enhanced proliferation rates in 3D spheres and altered Tryptophan/kynurenine. metabolism Overall design: We performed High-throughput chromosome conformation capture (Hi-C)  in MED12-WT and MED12-G44 mutant hTERT uterine smooth muscle cell to understand the 3D genome compartmentalization
SAMPLE_TITLE: hTERT cells, MED12-WT, HIC
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "Uterus"}, {"TAG": "tissue", "VALUE": "Uterus"}, {"TAG": "cell line", "VALUE": "hTERT uterine smooth muscle cell"}, {"TAG": "cell type", "VALUE": "Human myometrial cells"}, {"TAG": "genotype", "VALUE": "MED12 wild type"}, {"TAG": "geo_loc_name", "VALUE": "missing"}, {"TAG": "collection_date", "VALUE": "missing"}]
Pool_Member_@attributes_sample_title: hTERT cells, MED12-WT, HIC
RUN_SET_RUN_Pool_Member_@attributes_sample_title: hTERT cells, MED12-WT, HIC
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": [null, null, null], "@attributes": {"cluster": "public", "filename": "SRR23609977.lite", "url": "https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos2/sra-pub-zq-20/SRR023/23609/SRR23609977/SRR23609977.lite.1", "size": "62062981747", "date": "2023-06-16 03:43:56", "md5": "83cc2572e748e46637171dce51c29ce1", "version": "1", "semantic_name": "SRA Lite", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "SRR23609977", "url": "https://sra-pub-run-odp.s3.amazonaws.com/sra/SRR23609977/SRR23609977", "size": "76762391951", "date": "2023-02-24 16:04:14", "md5": "898d226f10f2c8be6e00d1b0e4ae006b", "version": "1", "semantic_name": "SRA Normalized", "supertype": "Primary ETL", "sratoolkit": "1"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "HiC-A-WT_220519_S16_L001_R2.fastq.gz", "size": "54516525649", "date": "2023-02-24 15:51:58", "md5": "251deae7cb85a6665123d2cc8c761853", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": null, "@attributes": {"cluster": "public", "filename": "HiC-A-WT_220519_S16_L001_R1.fastq.gz", "size": "52688527173", "date": "2023-02-24 15:47:47", "md5": "4951b22fb1086b26cf7270b60e4ad0a7", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]