GEOapplication/xmlftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE346nnn/GSE346097/primaryOK200TranscriptomicsEquus caballusExpression profiling by high throughput sequencinghttps://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE346097GEOGSEfalseCirculating Cell-Free RNA Reflects Immune-Associated and Airway Remodeling Signatures in Equine AsthmaThis study presents the first comprehensive transcriptomic analysis of plasma cell-free RNA (cfRNA) in equine asthma (EA), a clinically relevant translational model for human asthma. We profiled cfRNA from 16 EA cases (including mastocytic, neutrophilic, and paucigranulocytic phenotypes) and 12 healthy controls using cfRNA-stabilized blood collection and UMI-based total RNA-seq optimized for low-input samples. For comparative molecular profiling, we sequenced bronchoalveolar lavage (BAL) fluid RNA (n=12: 7 EA, 5 controls) and whole blood RNA (n=11: 6 EA, 5 controls) from partially matched individuals, with 9 horses providing complete three-compartment sampling. RNA-seq libraries were prepared using the SMARTer Stranded Total RNA-Seq Pico Input Kit with UMIs (Takara Bio, v3/v4) and sequenced as paired-end 150 bp reads on an Illumina NovaSeq X platform. Our analysis revealed that cfRNA captures biologically relevant inflammatory and airway remodeling signatures characteristic of asthma, including altered immune cell composition and upregulation of key alarmins and remodeling-associated transcripts. These results establish cfRNA as a sensitive complementary approach for characterizing molecular perturbations in asthma pathogenesis and highlight its potential for biomarker discovery across inflammatory and allergic airway diseases.2026/09/04GSE346097GSM10024570GSM10024571GSM10024572GSM10024573GSM10024563GSM10024564GSM10024565GSM10024566GSM10024600GSM10024567GSM10024568GSM10024601GSM10024569GSM10024580GSM10024581GSM10024582GSM10024583GSM10024584GSM10024574GSM10024575GSM10024576GSM10024577GSM10024578GSM10024579GSM10024590GSM10024591GSM10024592GSM10024593GSM10024594GSM10024551GSM10024595GSM10024585GSM10024586GSM10024587GSM10024588GSM10024589GSM10024560GSM10024561GSM10024562GSM10024596GSM10024552GSM10024597GSM10024553GSM10024554GSM10024598GSM10024599GSM10024555GSM10024556GSM10024557GSM10024558GSM1002455936047346097Equus caballus[42644703]