{"database":"GEO","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE336nnn/GSE336203/"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"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=GSE336203"],"repository":["GEO"],"entry_type":["GSE"],"additional_accession":[]},"is_claimable":false,"name":"ERVmancer: A phylogeny-guided framework for decoding mechanisms of human endogenous retrovirus regulation in health and disease","description":"Human endogenous retroviruses (HERVs), remnants of ancient infections, comprise ~8% of the human genome and influence development, immunity, and cancer. Studying them is limited by short-read sequencing, which cannot uniquely assign reads to repetitive elements. We present ERVmancer, a phylogeny-informed method that resolves mapping ambiguity and quantifies HERV expression from individual loci to entire clades. Benchmarking with matched long- and short-read data shows ERVmancer surpasses existing methods in sensitivity and specificity. Application recapitulates long-read observed HERV patterns in multiple sclerosis and reveals novel biology in breast cancer, including p53-mediated suppression of HERVH-LTR7, enabling scalable study of retroviral mechanisms.","dates":{"publication":"2026/07/23"},"accession":"GSE336203","cross_references":{"GSM":["GSM9829979","GSM9829968","GSM9829969","GSM9829966","GSM9829977","GSM9829978","GSM9829967","GSM9829975","GSM9829976","GSM9829973","GSM9829984","GSM9829985","GSM9829974","GSM9829982","GSM9829971","GSM9829972","GSM9829983","GSM9829980","GSM9829970","GSM9829981"],"GPL":["21311","18573"],"GSE":["336203"],"taxon":["Homo sapiens"]}}