{"database":"GEO","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE296nnn/GSE296299/"]},"type":"primary"},"statusCodeValue":200,"statusCode":"OK"}],"scores":null,"additional":{"omics_type":["Transcriptomics"],"species":["Homo sapiens"],"gds_type":["Expression profiling by high throughput sequencing"],"full_dataset_link":["https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE296299"],"repository":["GEO"],"entry_type":["GSE"],"additional_accession":[]},"is_claimable":false,"name":"A genome-wide functional analysis of conserved intronic regions reveals essential roles for speckle-associated detained introns [RNAseq_candidates.HAP1]","description":"Thousands of human introns harbour extended regions of high evolutionarily conservation that have not been previously characterized. A survey of these sequences reveals that they are associated with intron retention and enriched in genes that function in RNA processing, chromatin remodelling and neuronal biology. Using a dual CRISPR-Cas editing approach, we targeted 2,600 of these regions for deletion and observe that a subset of these perturbations affectaffects cell growth. Many of these ‘fitness’ sequences affect intron retention and or expression levels of their host genes. Deletions in nuclear speckle-associated retained introns in the FNBP4 and DDX5 genes are further linked to downstream effects on cell growth-related genes and intron retention, respectively. The DDX5 deletion additionally results in the accumulation of R-loops overlapping first introns in speckle-proximal genes. Overall, the results highlight multifactetedmultifaceted, critical roles of highly conserved intronic sequences in the control of gene regulation, R-loop resolution and cell growth.","dates":{"publication":"2026/06/18"},"accession":"GSE296299","cross_references":{"GSM":["GSM8968312","GSM8968279","GSM8968298","GSM8968276","GSM8968297","GSM8968275","GSM8968278","GSM8968311","GSM8968277","GSM8968310","GSM8968299","GSM8968294","GSM8968272","GSM8968293","GSM8968271","GSM8968274","GSM8968296","GSM8968295","GSM8968273","GSM8968290","GSM8968292","GSM8968270","GSM8968291","GSM8968309","GSM8968306","GSM8968305","GSM8968308","GSM8968307","GSM8968269","GSM8968302","GSM8968301","GSM8968304","GSM8968303","GSM8968287","GSM8968286","GSM8968300","GSM8968289","GSM8968288","GSM8968283","GSM8968282","GSM8968285","GSM8968284","GSM8968281","GSM8968280"],"GPL":["24676"],"GSE":["296299"],"taxon":["Homo sapiens"]}}