Kuniyasu Niizuma

Long read multi-omics sequencing reveals DNA-to-RNA evolutionary remodeling trajectories of recurrent astrocytoma

This study uses long-read multi-omics sequencing to analyze DNA-to-RNA remodeling in recurrent astrocytoma, identifying patient-specific genetic and epigenetic changes and their impact on RNA isoforms and protein fate.

Multiscale modeling of blood circulation with cerebral autoregulation and network pathway analysis for hemodynamic redistribution in the vascular network with anatomical variations and stenosis conditions

This study develops a multiscale circulation model of cerebral hemodynamics to simulate flow redistribution in the Circle of Willis under normal, anatomical variation, and stenosis conditions, revealing key collateral pathway activation patterns.

ALKBH1 drives codon-biased, pro-oncogenic translation and tumor microenvironment remodeling in glioma via tRNA wobble oxidation

This study identifies ALKBH1 as a driver of codon-biased translation and tumor microenvironment remodeling in glioma, promoting stemness and immune evasion.

Third-nucleotide codon bias and synonymous codon bias define functional translational programs that shape human tissue and cancer proteomes.

The paper identifies codon bias patterns and tRNA modification indices that influence translational programs in human tissues and cancers, revealing functional divergence and implications for mRNA therapeutics.

Ischemic stroke induces staged translational remodeling in mouse cortex independent from transcriptional responses.

This study identifies staged translational remodeling in mouse cortex after ischemic stroke, showing changes in codon usage, ribosome occupancy, and frame-disruption events not captured by transcriptomics.

Transcriptome-Wide Analysis of HuR Function Identifies TXNIP-Mediated Redox Dysregulation in Osteocytes

This study identifies HuR as a key regulator of osteocyte survival and metabolic adaptation under high glucose stress through transcriptome-wide analysis of its function.

Selective Biogenesis and Structural Diversity Shape tRNA-Derived Fragment Landscapes across Mouse Organs

The paper analyzes tDRs across seven mouse tissues, identifying tissue-specific enrichment, diversity, and structural features of tDRs.

Non-DNA-damaging DNA-PK activation improving hearing and prolonging life due to NAD+ and SIRT upregulation

This paper shows that MA-5 improves hearing loss and extends lifespan in mice by increasing NAD+ and SIRT1 through DNA-PK activation and mitochondrial function.

Transcriptome-wide alternative mRNA splicing analysis reveals post-transcriptional regulation of neuronal differentiation.

The paper analyzes alternative splicing changes during neuronal differentiation in SH-SY5Y cells, identifying RNA binding proteins that regulate splicing and influence differentiation and stress response.

Endothelial Sphingosine-1-Phosphate Receptor (S1PR) 1, a Functional S1PR in the Human Cerebrovascular Endothelium, Limits Blood Brain Barrier Permeability and Neuronal Injury following Subarachnoid Hemorrhage in Mice.

This study investigates the role of endothelial S1PR1 in maintaining BBB integrity and reducing neuronal injury after subarachnoid hemorrhage in mice and humans.

Translational response to mitochondrial stresses is orchestrated by tRNA modifications.

The paper shows that tRNA modifications regulate the translational response to mitochondrial stress by altering codon decoding and pathway activity.

Angiogenin regulates mitochondrial stress and function via tRNA-derived fragments generation and impacting tRNA modifications.

This study shows that Angiogenin regulates mitochondrial stress and function by generating tRNA-derived fragments and altering tRNA modifications.

tRNA modifications inform tissue specific mRNA translation and codon optimization.

The paper shows that tRNA modifications influence tissue-specific mRNA translation and codon optimization by analyzing tRNA and mRNA data from seven mouse tissues.

Dynamic mRNA stability changes buffer transcriptional activation during neuronal differentiation and are regulated by RNA binding proteins.

The paper investigates mRNA stability changes during neuronal differentiation, revealing a bidirectional regulation and identifying SAMD4A as a key RNA binding protein involved in this process.

RNF213 loss of function reshapes vascular transcriptome and spliceosome leading to disrupted angiogenesis and aggravated vascular inflammatory responses.

This study investigates how RNF213 loss of function affects vascular cells, revealing changes in transcriptome and alternative splicing linked to MMD pathogenesis.

Mature Neurons sensitivity to oxidative stress is epigenetically programmed by alternative splicing and mRNA stability

The paper investigates transcriptomic and epigenetic changes during neuronal differentiation, finding that mRNA stability and alternative splicing regulate oxidative stress sensitivity in mature neurons.

Epigenetic regulation of translation repression in ferroptosis, and a role of Alternative splicing and tRNA methylation.

This study investigates how transcription and translation repression affect ferroptosis induced by different inhibitors, revealing distinct protective and detrimental effects based on the type of inducer.

The cell and stress-specific canonical and non-canonical tRNA cleavage.

The paper investigates stress-specific tRNA cleavage patterns, identifying non-canonical cleavage independent of angiogenin and highlighting the role of Alkbh1 in stress type-dependent tRNA cleavage.

The stress specific impact of ALKBH1 on tRNA cleavage and tiRNA generation

This study investigates how Alkbh1 affects tRNA cleavage and tiRNA generation under stress in rat cells, showing stress-specific impacts and differential tRNA cleavage.

Endothelial sphingosine-1-phosphate receptor 1 deficiency exacerbates brain injury and blood brain barrier dysfunction upon subarachnoid hemorrhage in mice.

This study shows that endothelial S1PR1 deficiency worsens brain injury and BBB dysfunction in mice after subarachnoid hemorrhage.