Toshifumi Inada

RiboPipe imputes codon-resolution Ribo-seq coverage for low-coverage transcripts using a unified framework that improves accuracy and efficiency.

The paper shows that two pathways, ZNF598 and GIGYF2, mediate mRNA decay due to ribosome collisions in yeast and mammals, with distinct endonucleolytic features.

This study identifies cytoplasmic roles of HSATIII RNAs in forming RNA granules and producing proteins during thermal stress recovery.

The paper identifies the roles of Ubp2 and Ubp3 in editing polyubiquitin chains on ribosomes to maintain RQC activity.

This study identifies HemK2 as a methyltransferase that methylates eRF1, essential for protein synthesis and RNA stability during Drosophila oogenesis.

The paper investigates how Znf598-mediated no-go decay (NGD) degrades mRNAs encoding C2H2-ZF domains during zebrafish development, preventing ribosome collisions and maintaining translational homeostasis.

The paper identifies Otu2's role in deubiquitinating eS7 on recycled 40S ribosomal subunits to reset translation, revealing structural mechanisms for this process.

This study identifies Hel2 as a sensor for ribosome collision in secretory pathways, showing it binds to mistargeted ribosome-nascent chain complexes and contributes to mitochondrial function.

This study shows that eS7A ubiquitination during ER stress in yeast regulates mRNA translation and affects stress outcomes.

This study identifies age-dependent changes in rDNA copy number, methylation, and sequence variations in mice, linking these alterations to reduced pre-rRNA levels and shortened yeast lifespan.

The paper identifies genome-wide ribosome collision sites in humans and zebrafish, revealing their sequence motifs and functional roles in protein synthesis.

The paper shows the Ccr4-Not complex interacts with the ribosome's E-site when codon optimality is low, linking translation efficiency to mRNA stability.