Hidenori Tani

The Coherence Response Index: predicted microRNA targets show no coherent regulation in chemically exposed mouse embryonic stem cells.

The Hypothesis-Driven Loop: An Integrated Dry-Wet Framework for Long Noncoding RNA Functional Analysis.

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 framework with donor-level validation identifies reproducible MEG3 enrichment in human liver sinusoidal endothelial cells

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.

Subcellular localization of human long non-coding RNAs is an isoform-resolved property masked by gene-level analysis

A single-cell cell-of-origin audit of the lncRNA RMST: bulk expression under-represents its broad neural expression and over-attributes a liver biomarker

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.

A replicated astrocyte long non-coding RNA signature of Alzheimer's disease is inverted in amyotrophic lateral sclerosis.

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.