{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Carter JA"],"funding":["NIAID NIH HHS","NCI NIH HHS","NIGMS NIH HHS","NIH HHS"],"pagination":["4296"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC9345899"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["13(1)"],"pubmed_abstract":["The induction of central T cell tolerance in the thymus depends on the presentation of peripheral self-epitopes by medullary thymic epithelial cells (mTECs). This promiscuous gene expression (pGE) drives mTEC transcriptomic diversity, with non-canonical transcript initiation, alternative splicing, and expression of endogenous retroelements (EREs) representing important but incompletely understood contributors. Here we map the expression of genome-wide transcripts in immature and mature human mTECs using high-throughput 5' cap and RNA sequencing. Both mTEC populations show high splicing entropy, potentially driven by the expression of peripheral splicing factors. During mTEC maturation, rates of global transcript mis-initiation increase and EREs enriched in long terminal repeat retrotransposons are up-regulated, the latter often found in proximity to differentially expressed genes. As a resource, we provide an interactive public interface for exploring mTEC transcriptomic diversity. Our findings therefore help construct a map of transcriptomic diversity in the healthy human thymus and may ultimately facilitate the identification of those epitopes which contribute to autoimmunity and immune recognition of tumor antigens."],"journal":["Nature communications"],"pubmed_title":["Transcriptomic diversity in human medullary thymic epithelial cells."],"pmcid":["PMC9345899"],"funding_grant_id":["T32 GM008444","P30 CA045508","S10 OD028632","R01 AI167862"],"pubmed_authors":["Pinto S","Peacey M","Velten L","Brors B","Stromich L","Steinmetz LM","Carter JA","Meyer HV","Chapin SR"],"additional_accession":[]},"is_claimable":false,"name":"Transcriptomic diversity in human medullary thymic epithelial cells.","description":"The induction of central T cell tolerance in the thymus depends on the presentation of peripheral self-epitopes by medullary thymic epithelial cells (mTECs). This promiscuous gene expression (pGE) drives mTEC transcriptomic diversity, with non-canonical transcript initiation, alternative splicing, and expression of endogenous retroelements (EREs) representing important but incompletely understood contributors. Here we map the expression of genome-wide transcripts in immature and mature human mTECs using high-throughput 5' cap and RNA sequencing. Both mTEC populations show high splicing entropy, potentially driven by the expression of peripheral splicing factors. During mTEC maturation, rates of global transcript mis-initiation increase and EREs enriched in long terminal repeat retrotransposons are up-regulated, the latter often found in proximity to differentially expressed genes. As a resource, we provide an interactive public interface for exploring mTEC transcriptomic diversity. Our findings therefore help construct a map of transcriptomic diversity in the healthy human thymus and may ultimately facilitate the identification of those epitopes which contribute to autoimmunity and immune recognition of tumor antigens.","dates":{"release":"2022-01-01T00:00:00Z","publication":"2022 Aug","modification":"2026-06-01T02:18:13.775Z","creation":"2025-04-05T12:11:45.193Z"},"accession":"S-EPMC9345899","cross_references":{"pubmed":["35918316"],"doi":["10.1038/s41467-022-31750-1"]}}