EXPERIMENT_TITLE: GSM7162884: 1_4221CSMC_FT246; Homo sapiens; Hi-C
EXPERIMENT_DESIGN_LIBRARY_DESCRIPTOR_LIBRARY_CONSTRUCTION_PROTOC: Cells were trypsinized, pelleted and snap frozen and submitted to Active Motif for their end-to-end HiC service Active Motif
STUDY_DESCRIPTOR_STUDY_ABSTRACT: The transcription factors MECOM, PAX8, SOX17 and WT1 are candidate master regulators of high-grade serous 'ovarian' cancer (HGSC), yet their cooperative role in the hypothesized tissue of origin, the fallopian tube secretory epithelium (FTSEC) is unknown. We generated 26 epigenome (CUT&TAG, CUT&RUN, ATAC-seq and HiC) data sets and 24 profiles of RNA-seq transcription factor knock-down followed by RNA sequencing in FTSEC and HGSC models to define binding sites and gene sets regulated by these factors in cis and trans. This revealed that MECOM, PAX8, SOX17 and WT1 are lineage-enriched, super-enhancer associated master regulators whose cooperative DNA-binding patterns and target genes are re-wired during tumor development. All four TFs were indispensable for HGSC clonogenicity and survival but only depletion of PAX8 and WT1 impaired FTSEC cell survival. These four TFs were pharmacologically inhibited by transcriptional inhibitors only in HGSCs but not in FTSECs. Collectively, our data highlights that tumor-specific epigenetic remodeling is tightly related to MECOM, PAX8, SOX17 and WT1 activity and these transcription factors are targetable in a tumor-specific manner through transcriptional inhibitors. Overall design: Hi-C for fallopian tube secretory epithelial cell line  (FT246,FT282) and two high-grade serous ovarian cancer cell line (KURAMOCHI,OVCAR4)
SAMPLE_TITLE: 1_4221CSMC_FT246
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "FT246"}, {"TAG": "cell line", "VALUE": "FT246"}, {"TAG": "cell type", "VALUE": "Fallopian Tube Secretory Epithelium"}]
RUN_SET_RUN_SRAFiles_SRAFile: [{"Alternatives": [null, null], "@attributes": {"cluster": "public", "filename": "1_4221CSMC_FT246_HiC_hg38_R1.fastq.gz", "url": "https://sra-pub-src-1.s3.amazonaws.com/SRR24134018/1_4221CSMC_FT246_HiC_hg38_R1.fastq.gz.1", "size": "90813466052", "date": "2023-04-11 15:47:32", "md5": "457bbcfec47426414f6554d5c1c6b611", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}, {"Alternatives": [null, null], "@attributes": {"cluster": "public", "filename": "1_4221CSMC_FT246_HiC_hg38_R2.fastq.gz", "url": "https://sra-pub-src-1.s3.amazonaws.com/SRR24134018/1_4221CSMC_FT246_HiC_hg38_R2.fastq.gz.1", "size": "93866284039", "date": "2023-04-11 15:50:55", "md5": "bb7d6d64d12456dbcefd79792c20ed0b", "version": "1", "semantic_name": "fastq", "supertype": "Original", "sratoolkit": "0"}}]