{"database":"ENA","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Fastqsanger.gz":["ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR181/071/SRR18148871/SRR18148871.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR181/072/SRR18148872/SRR18148872.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR181/070/SRR18148870/SRR18148870.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR181/069/SRR18148869/SRR18148869.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR181/067/SRR18148867/SRR18148867.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR181/068/SRR18148868/SRR18148868.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR181/066/SRR18148866/SRR18148866.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR181/065/SRR18148865/SRR18148865.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR181/063/SRR18148863/SRR18148863.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR181/064/SRR18148864/SRR18148864.fastq.gz"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":null,"additional":{"omics_type":["Genomics"],"center_name":["Bhattaram Lab, Orthopaedics, Emory University"],"full_dataset_link":["https://www.ebi.ac.uk/ena/browser/view/PRJNA810559"],"scientific_name":["Mus musculus"],"tag":["xref:PubMed:35529852"],"long_description":["Purpose: Our goal was to evaluate the transcriptional profiles of FLS. We used genome wide approaches to uncover the interactions between SOX4 and RELA/p65, downstream of TNF signaling. Methods: ChIP-seq of mouse FLS was used to compare the global DNA binding profiles of SOX4 and RELA. Results: ChIP-seq revealed an overllap of SOX4 peak summits with RELA peak summits suggesting that both proteins bind in close-proximity on regulatory sequences, enabling them to co-operatively regulate gene expression. By integrating the ChIP-seq results with RNA-seq from SoxC-knockout FLS we identified a set of TNF-responsive genes that are targets of the RELA-SOX4 transcriptional complex. Conclusion: SOX4 and RELA, together orchestrate a multimodal regulation of gene expression downstream of TNF signaling. Their interdependent activities play a pivotal role in the transformation FLS in arthritis and in the inflammatory pathology of diverse tissues where RELA and SOX4 are co-expressed. Overall design: ChIP-seq of mouse FLS was used to compare the global DNA binding profiles of SOX4 and RELA."],"repository":["ENA"],"additional_accession":[]},"is_claimable":false,"name":"SOX4 and RELA function as transcriptional partners to regulate the expression of TNF-responsive genes in fibroblast-like synoviocytes [ChIP-Seq]","description":"SOX4 and RELA function as transcriptional partners to regulate the expression of TNF-responsive genes in fibroblast-like synoviocytes [ChIP-Seq]","dates":{"last_updated":"2025-09-24","first_public":"2022-03-22"},"accession":"PRJNA810559","cross_references":{"GEO":["GSE197491"],"taxon":["10090"],"PubMed":["35529852"]}}