Toxicogenomic studies increasingly promote microRNA (miRNA) expression changes as chemical-toxicity biomarkers and infer their meaning from computationally predicted messenger RNA (mRNA) targets, rarely testing those predictions against matched mRNA data. We present the Coherence Response Index (CRI), an open, expressi...
Only a small minority of annotated long noncoding RNAs (lncRNAs) have a molecular function established by direct experiment, and the gap widens with every new catalog. Existing reviews catalog methods thoroughly but rarely formalize how negative or discordant wet-laboratory results should feed back into computational p...
An lncRNA-aware single-cell analysis framework — retaining all detectable GENCODE v45 lncRNAs during highly variable gene selection — combined with donor-level validation that guards against pseudoreplication is presented, and the pseudotime screen is reported as a negative result.
Each isoform was assigned a cytoplasmic–nuclear relative concentration index (CN-RCI) measured from ENCODE subcellular fractionation RNA-seq across 15 human cell lines, and masked genes with both tissue-dominant isoforms localized were identified.
Hidenori Tani· Zeitschrift für Induktive Ab...· 0 citations
It is shown that bulk expression can misrepresent where a lncRNA resides in both directions, and that cell-of-origin attribution should precede biomarker claims, and that cell-of-origin attribution should precede biomarker claims.
This study analyses publicly available human single-nucleus RNA sequencing from four disorders using donors as the unit of inference throughout, finding down-regulated autosomal lncRNAs from Alzheimer's disease and multiple sclerosis are disorder-specific rather than pan-neuroinflammatory.
Hidenori Tani· Brain Research· 0 citations
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