Yasuyuki Ohkawa

This study shows cohesin maintains condensed euchromatic domains in human cells by preventing local mixing, which is crucial for transcriptional insulation.

This study identifies AR-dependent Mybph repression as a mechanism contributing to skeletal muscle sexual dimorphism using ChIL-seq and an AirID-AR knock-in mouse.

This study shows that augmenting natriuretic peptide signaling with ARNI reduces renin cell activation and afferent arteriolar hypertrophy during RAS inhibition, preserving therapeutic benefits.

The paper identifies that CC and GG dinucleotides at specific positions influence nucleosome positioning in yeast and mouse genomes by destabilizing histone-DNA interactions.

This study identifies Il1r2 as a marker for slow-cycling epidermal basal cells and develops a genetic tool for lineage tracing and IL-1 signaling modulation.

This study shows that reducing gut ceramidase Asah2 activity slows ageing in vertebrates by altering ceramide levels and microbiota composition.

The paper identifies stem cell marker-positive subpopulations in the mouse larynx using scRNA-seq and spatial transcriptomics, revealing new insights into laryngeal tissue composition and stem cell biology.

The paper shows that chromatin modifications around genes fluctuate with transcriptional activity in mouse embryonic stem cells, revealing minute-scale coupling between histone marks and transcriptional bursts.

This study identifies an Nkx2.3-Nr5a1 gene regulatory axis critical for spleen-specific vascular architecture and marginal zone formation in mice.

This paper presents an AI-driven method to convert antibody sequences into functional intrabodies, successfully converting 19 out of 26 sequences, including those targeting histone modifications.

The paper introduces ddHodge, a method for reconstructing vector fields from scRNA-seq data to analyze cell-state dynamics, revealing gene expression follows a gradient system during mouse embryogenesis.

This study shows that cholesterol sulfate prevents maternal-fetal immune conflict by modulating immune reactivity in pregnant mice and humans.

The paper uses time-course RNA-seq to study muscle remodeling in Drosophila, identifying BNIP3-mediated mitophagy as critical for mitochondrial degradation during this process.

The paper constructs a pangenome graph reference for Japanese and Saudi Arabian populations, showing improved variant detection compared to linear references and comparable performance to existing pangenome graphs.

The paper investigates the role of H2bc27, an H2B isoform, in mouse brain development through gene expression analysis and knockout studies, finding it regulates gene expression in brain development.

MEGA-FISH is a GPU-accelerated framework for spatial omics image analysis that improves processing speed and accuracy for large-scale tissue data.

This study shows that androgen receptor in mesenchymal progenitors regulates skeletal muscle mass via Igf1 expression in male mice, with effects seen in adult but not young or aged mice.

The paper examines enhancer-promoter interactions in mouse embryonic stem cells, finding that transcriptional activity increases genomic viscosity, stabilizing these interactions.

This study identifies biallelic PNPLA8 variants causing microcephaly by reducing basal radial glia in cerebral organoids and disrupting phospholipid metabolism.

The paper develops a STREAMING-tag system to study spatiotemporal relationships between transcriptional factors and activity in living cells.

The paper identifies genes and genomic regions responsible for PPIX production in the uterus of Japanese quail, linking them to eggshell pigmentation.

This study shows that Uhrf1 is essential for the proliferation and differentiation of muscle satellite cells by maintaining DNA methylation patterns.

The paper introduces DFC, a method using adaptive LASSO logistic regression to identify a small subset of genes that distinguish cell populations, addressing issues with P-value inflation in single-cell transcriptomics.

The paper introduces tsChIL, a method to analyze tissue-level epigenomic data from single-thin sections, enabling independent evaluation of cell population changes and gene activation in regenerating skeletal muscle.

This paper introduces TIP-seq, a high-throughput single-cell method for mapping DNA binding sites, achieving higher coverage and signal-to-noise than existing methods.

This paper introduces PIC, a method for high-resolution spatial transcriptome analysis, and shows it detects gene expression in small regions of mouse embryos.

This study identifies Hoxa10 as a mediator of positional memory in adult skeletal muscle stem cells, linking embryonic gene expression to region-specific regenerative capacity.

The paper tracks H3K27me3 and H4K20me1 dynamics during XCI and finds they accumulate concurrently but have distinct genomic distributions, with H4K20me1 possibly contributing to chromatin compaction.

This study investigates transcriptional bursting kinetics in mESCs using scRNA-seq and identifies regulatory factors and pathways influencing gene expression noise.

This study identifies four temporal patterns of calcineurin-dependent gene expression during skeletal muscle differentiation and shows Cn promotes gene expression by facilitating chromatin remodeling and transcription factor interactions.