Eric R. Londin

The SEA-AD DREAM Challenge: Community benchmarking human and AI agent solutions for Alzheimer's disease neuropathology prediction from single-nucleus transcriptomics

The paper presents a benchmarking challenge to predict Alzheimer's disease neuropathology from single-nucleus transcriptomics using human and AI models, finding that top methods achieve near-perfect categorical staging predictions.

All ribosomal RNAs and 45S spacers from humans to worms are packed with organism-specific motifs whose other copies are found predominantly in numerous nervous system genes including many associated with human disorders

The paper identifies primate-specific motifs in human rRNAs and 45S spacers that are also found in nervous system genes linked to disorders like autism and schizophrenia.

Unification of miRNA and isomiR research: the mirGFF3 format and the mirtop API

The paper introduces mirGFF3, a standardized format for miRNA/isomiR analysis, and mirtop, a tool to convert outputs into this format, enabling data sharing and comparative analysis.

Systems-Level Analysis Of 32 TCGA Cancers Reveals Disease-Dependent tRNA Fragmentation Patterns And Very Selective Associations With Messenger RNAs And Repeat Elements

The paper analyzes tRNA fragments (tRFs) across 32 cancer types, identifying disease-specific patterns and associations with mRNAs and repeat elements.

Murine MPDZ-Linked Hydrocephalus is Caused by Hyperpermeability of the Choroid Plexus

This study identifies MPDZ as a gene linked to hydrocephalus in mice, showing that its loss-of-function causes choroid plexus hyperpermeability and increased cerebrospinal fluid protein concentration.

The presence or absence alone of miRNA isoforms (isomiRs) successfully discriminate amongst the 32 TCGA cancer types

The paper shows that binary isomiR profiles can accurately classify 32 TCGA cancer types with high sensitivity and low false discovery rate.