{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Cullen JN"],"funding":["National Center for Advancing Translational Sciences","NCATS NIH HHS","UC Davis Center for Equine Health","Grayson-Jockey Club Research Foundation","College of Veterinary Medicine, University of Minnesota","National Institute of Food and Agriculture"],"pagination":["e1011835"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC12449019"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["21(9)"],"pubmed_abstract":["MicroRNAs (miRNAs) are essential regulators of gene expression, yet few comprehensive databases exist for miRNA expression in non-model species, limiting our ability to characterize their roles in gene regulation, development, and disease. Similarly, isomiRs - length and sequence isoforms of canonical miRNAs with potentially altered regulatory targets and functions - have received even less attention in non-model species, including the horse, leaving a critical gap in our understanding of their biological significance. To address these challenges, we developed an open-source, containerized pipeline for identifying and quantifying miRNAs and isomiRs (FARmiR: Framework for Analysis and Refinement of miRNAs), and an associated interactive browser (AIMEE: Animal IsomiR and MiRNA Expression Exp"],"journal":["PLoS genetics"],"pubmed_title":["Charting the equine miRNA landscape: An integrated pipeline and browser for annotating, quantifying, and visualizing expression."],"pmcid":["PMC12449019"],"funding_grant_id":["UL1 TR002494","KL2 TR002492","2020-67034-31739","K12TR002492","016-10133","NRSP-8 Species Coordinator Funds","2019-67015-29340","2024-67012-41761","UL1TR002494","Multistate Competitive Funds 2017-2020, 2020-2022"],"pubmed_authors":["Hill EW","Lindgren G","Cullen JN","Metzger J","Distl O","Wade CM","McCue ME","Velie BD","Klaerke DA","Durward-Akhurst SA","MacHugh DE","Waud B","Coleman SJ","Valderrama Figueroa LS","Mickelson JR","Calloe K","Giulotto E","Orlando L","Mackowski M","Bellone RR","Raudsepp T","Strand E","Finno CJ","Capomaccio S","Cappelli K","Hamilton NA","Katz LM","MacLeod JN","Kalbfleisch TS","Cieslak J","Tozaki T","Trachsel DS","Silvestrelli M","Petersen JL","Murphy BA"],"additional_accession":[]},"is_claimable":false,"name":"Charting the equine miRNA landscape: An integrated pipeline and browser for annotating, quantifying, and visualizing expression.","description":"MicroRNAs (miRNAs) are essential regulators of gene expression, yet few comprehensive databases exist for miRNA expression in non-model species, limiting our ability to characterize their roles in gene regulation, development, and disease. Similarly, isomiRs - length and sequence isoforms of canonical miRNAs with potentially altered regulatory targets and functions - have received even less attention in non-model species, including the horse, leaving a critical gap in our understanding of their biological significance. To address these challenges, we developed an open-source, containerized pipeline for identifying and quantifying miRNAs and isomiRs (FARmiR: Framework for Analysis and Refinement of miRNAs), and an associated interactive browser (AIMEE: Animal IsomiR and MiRNA Expression Exp","dates":{"release":"2025-01-01T00:00:00Z","publication":"2025 Sep","modification":"2026-06-03T15:29:42.617Z","creation":"2026-04-29T03:12:39.467Z"},"accession":"S-EPMC12449019","cross_references":{"pubmed":["40911641"],"doi":["10.1371/journal.pgen.1011835"]}}