Kosuke Hashimoto

This paper develops a Transformer-based model to predict TCR-peptide binding using amino acid sequences and associates attention weights with structural properties.

The paper investigates somatic recombination of Alu and L1 repeat elements in human genomes, finding tissue-specific patterns and links to neurodegenerative diseases.

The paper functionally annotates human long non-coding RNAs by systematically knocking down 285 lncRNAs and analyzing molecular phenotypes using CAGE sequencing.

RADICL-seq maps genome-wide RNA-chromatin interactions in intact nuclei, revealing general and cell type-specific patterns of transcript occupancy and the role of transcription in chromatin structure.

This study shows that DUX4 regulates the oocyte-to-embryo transition in humans by activating enhancers and promoting genome reprogramming.

The paper analyzes transcriptomic and chromatin accessibility changes in zebrafish cardiomyocytes during heart development to identify key regulatory networks and their disruption in mutant lines.