{"database":"ENA","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Fastqsanger.gz":["ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR345/006/SRR3457936/SRR3457936.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR345/004/SRR3457934/SRR3457934.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR345/003/SRR3457933/SRR3457933.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR345/006/SRR3457926/SRR3457926.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR345/007/SRR3457937/SRR3457937.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR345/001/SRR3457931/SRR3457931.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR345/007/SRR3457927/SRR3457927.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR345/000/SRR3457930/SRR3457930.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR345/002/SRR3457932/SRR3457932.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR345/009/SRR3457929/SRR3457929.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR345/005/SRR3457935/SRR3457935.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR345/008/SRR3457928/SRR3457928.fastq.gz"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":null,"additional":{"omics_type":["Genomics"],"center_name":["Epigenetics, Wisconsin Institute for Discovery"],"full_dataset_link":["https://www.ebi.ac.uk/ena/browser/view/PRJNA319816"],"scientific_name":["Homo sapiens"],"tag":["xref:PubMed:35137163","xref:PubMed:27829357"],"long_description":["Ctr9, the key scaffold subunit of the human RNA polymerase II (RNAPII) associated factor complex (PAFc), has been demonstrated as a positive regulator of ERα-positive breast cancer progression and ERα-target gene expression. Previously, we found that knockdown of Ctr9 reduces ERα protein stability and decreases the occupancy of ERα and RNAPII at select ERα-target genes. However, the genome-wide regulation of the occupancy of ERα and RNAPII mediated by Ctr9 is still unclear. Here, we determined the genome-wide ERα and RNAPII occupancy in response to estrogen induction and/or Ctr9 knockdown by performing chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-seq). We found that loss of Ctr9 dramatically decreases the global occupancy of ERα and RNAPII, highlighting the significance of Ctr9 in regulating estrogen signaling in ERα-positive breast cancer cells. Combining this resource with previously published genomic data sets, we identified a unique subset of ERα and Ctr9 target genes, and further delineates the possible independent function of Ctr9 from other subunits in PAFc. Overall design: ChIP-seq experiments for ERα and RNAPII"],"repository":["ENA"],"description_synonyms":["Breast Carcinoma, Human Mammary Neoplasm, primary breast cancer, Carcinoma, malignant tumor of the breast, AA409336, Breast Carcinomas, \"breast neoplasm\" EXACT [MTH:120], Tsbp, Neoplasms, mammary neoplasm, Mammary Cancers, Human Mammary Neoplasms, Tumor, \"breast tumor\" EXACT [NCI2004_11_17:C2910], mKIAA0155, CDP1, Human, Breast Malignant Neoplasm, Breast Malignant Tumor, TSBP, \"neoplasm of breast (disorder)\" EXACT [SNOMEDCT_2005_07_31:126926005], Mammary Carcinomas, Breast Tumor, p150, Tsp, Neoplasm, Human Mammary Carcinoma, \"mammary tumor\" EXACT [CSP2005:2016-0671], NOS, breast tumor, cancer of the breast, SH2BP1, Malignant Neoplasm of Breast, Carcinomas, BC, Mammary Neoplasms, malignant neoplasm of breast, Human Mammary, Breast Neoplasm, p150TSP, Mammary Neoplasm, Mammary Carcinoma, Sh2bp1, Human Mammary Carcinomas, Cancers, Breast Malignant Neoplasms., \"mammary neoplasm\" RELATED [], Cancer of the Breast, breast cancer, cancer of breast, Malignant Tumor of Breast, Mammary, Mammary Cancer, Breast Tumors, Breast Cancer, Breast Malignant Tumors, Cancer of Breast, Breast, mammary cancer, cancer, mammary tumor, breast, Tumors, Cancer"],"name_synonyms":["Human, Modern., human being, Man (Taxonomy), Homo sapiens, man, Man, human, Modern Man"],"additional_accession":[]},"is_claimable":false,"name":"Homo sapiens","description":"Systematic identification of Ctr9 regulome in ERα-positive breast cancer","dates":{"last_updated":"2025-09-24","first_public":"2016-10-12"},"accession":"PRJNA319816","cross_references":{"GEO":["GSE80728"],"taxon":["9606"],"PubMed":["27829357","35137163"]}}