{"database":"GEO","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE334nnn/GSE334819/"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":null,"additional":{"omics_type":["Genomics"],"species":["Mus musculus"],"gds_type":["Genome binding/occupancy profiling by high throughput sequencing"],"full_dataset_link":["https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE334819"],"repository":["GEO"],"entry_type":["GSE"],"additional_accession":[]},"is_claimable":false,"name":"Aging is associated with enhanced chromatin compaction, global loss of H3 acetylation and local changes in transcription [ATAC-seq]","description":"Advanced age is associated with specific alterations in organismic and cellular identity and behavior. To gain insights into age-associated rod photoreceptor function decline, we generated multi-omic datasets including 3D-genome topology, histone marks, chromatin accessibility, DNA methylation and transcriptome of rods from young- and aged-mice. We show global chromatin compaction during aging with regional alterations enriched at active chromatin. High-resolution microscopy leveraging the inverted nuclear architecture of mouse rods validates these findings. Chromatin dynamics broadly associate with epigenomic and transcriptional changes. Notably, a megabase-sized region presents multi-level alterations, with de novo transcription of a locus containing an open reading frame (ORF). This ORF encodes a functional histone acetyltransferase-inhibitor domain which transcription parallels H3 acetylation loss. Finally, we identify multiple highly significant local alterations of transcription at non-annotated regions and age-related macular degeneration genes. Our studies link age-related chromatin landscape changes and gene expression, potentially influencing rod function and vulnerability to diseases.","dates":{"publication":"2026/09/09"},"accession":"GSE334819","cross_references":{"GSM":["GSM9797781","GSM9797792","GSM9797791","GSM9797780","GSM9797790","GSM9797785","GSM9797784","GSM9797795","GSM9797783","GSM9797794","GSM9797782","GSM9797793","GSM9797789","GSM9797788","GSM9797787","GSM9797786"],"GPL":["17021"],"GSE":["334819"],"taxon":["Mus musculus"],"PMID":["[42687910]"]}}