A5040265024- Pluripotent Stem Cells Research
- Congenital heart defects research
- CRISPR and Genetic Engineering
- Epigenetics and DNA Methylation
- Aquaculture disease management and microbiota
- RNA Research and Splicing
- Cancer-related molecular mechanisms research
- Single-cell and spatial transcriptomics
- Gene expression and cancer classification
- Genomics and Chromatin Dynamics
- Angiogenesis and VEGF in Cancer
- Zebrafish Biomedical Research Applications
- Developmental Biology and Gene Regulation
- T-cell and B-cell Immunology
- Molecular Biology Techniques and Applications
- Animal Genetics and Reproduction
- RNA modifications and cancer
- RNA and protein synthesis mechanisms
- Chromatin Remodeling and Cancer
- 3D Printing in Biomedical Research
- Erythrocyte Function and Pathophysiology
- Advanced biosensing and bioanalysis techniques
- Bioinformatics and Genomic Networks
- Genetic diversity and population structure
- Neuroblastoma Research and Treatments
Nord University
2016-2024
Keio University
2014-2020
RIKEN Center for Computational Science
2005-2015
Foundation for Biomedical Research and Innovation
2003-2006
Kobe University
2006
RIKEN
2003
Foundation for Biomedical Research
2003
University of Hong Kong
2001-2002
Queen Mary Hospital
2001
This study describes comprehensive polling of transcription start and termination sites analysis previously unidentified full-length complementary DNAs derived from the mouse genome. We identify 5' 3' boundaries 181,047 transcripts with extensive variation in arising alternative promoter usage, splicing, polyadenylation. There are 16,247 new protein-coding transcripts, including 5154 encoding proteins. Genomic mapping transcriptome reveals transcriptional forests, overlapping on both...
Therapeutic cloning, whereby nuclear transfer (NT) is used to generate embryonic stem cells (ESCs) from blastocysts, has been demonstrated successfully in mice and cattle. However, if NT-ESCs have abnormalities, such as those associated with the offspring produced by reproductive their scientific medical utilities might prove limited. To evaluate characteristics of NT-ESCs, we established more than 150 NT-ESC lines adult somatic several mouse strains. Here, show that these were able...
Abstract Endothelial cells (ECs) are thought to be derived mainly from the vascular endothelial growth factor receptor 2 (VEGFR-2)+ lateral mesoderm during early embryogenesis. In this study, we specified several pathways for EC differentiation using a murine embryonic stem (ES) cell culture system that is model cellular processes Based on results of in vitro fate analysis, show that, main pathway, committed ECs differentiated through VEGFR-2+ platelet-derived α (PDGFR-α)− single-positive...
Abstract Micronutrient status of parents can affect long term health their progeny. Around 2 billion humans are affected by chronic micronutrient deficiency. In this study we use zebrafish as a model system to examine morphological, molecular and epigenetic changes in mature offspring that experienced one-carbon (1-C) Zebrafish were fed diet sufficient, or marginally deficient 1-C nutrients (folate, vitamin B12, B6, methionine, choline), then mated. Offspring livers underwent histological...
Expression of the Wnt modulator secreted frizzled related protein 4 (Sfrp4) is upregulated after heart ischemic injury. We show that intramuscular administration recombinant Sfrp4 to rat injury and recanalization models prevents further deterioration cardiac function The effect persisted for at least 20 weeks when was administered in a slow release system (Sfrp4-polyhedra) both acute subacute models. histology dissected showed wall thicker area acellular scarring smaller Sfrp4-treated hearts...
Background Drugs inhibiting vascular endothelial growth factor (VEGF) signaling are globally administered to suppress deregulated angiogenesis in a variety of eye diseases. However, anti-VEGF therapy potentially affects the normal functions retinal neurons and glias which constitutively express VEGF receptor 2. Thus, it is desirable identify novel drug targets exclusively expressed cells (ECs). Here we attempted an EC-specific Rho guanine nucleotide exchange (GEF) evaluate its role...
Abstract World Health Organization is concerned for parental vitamin deficiency and its effect on offspring health. This study examines the of a marginally dietary-induced one carbon (1-C) micronutrient embryonic gene expression using zebrafish. Metabolic profiling revealed reduced 1-C cycle efficiency in F 0 generation. Parental fecundity total 364 genes were differentially expressed 1 embryos. The upregulated (53%) deficient group enriched biological processes such as immune response blood...
Genome studies in fish provide evidence for the adaptability of vertebrate immune system, revealing alternative strategies. The reported absence major compatibility complex (MHC) class II pathway components certain species pipefish (genus Syngnathus ) and cod-like fishes (order Gadiformes) is particular interest. MHC responsible immunization defence against extracellular threats through presentation exogenous peptides to T helper cells. Here, we demonstrate all genes encoding (CD4, CD74 A/B,...
Transcription factors (TFs) play a pivotal role in determining cell states, yet our understanding of the causative relationship between TFs and states is limited. Here, we systematically examine state changes human pluripotent embryonic stem cells (hESCs) by large-scale manipulation single TFs. We establish 2,135 hESC lines, representing three clones each 714 doxycycline (Dox)-inducible genes including 481 TFs, obtain 26,998 microscopic images 2,174 transcriptome datasets—RNA sequencing...
In birds and mammals, all mesoderm cells are generated from the primitive streak. Nascent contain unique dorsoventral (D/V) identities according to their relative ingression position along Molecular mechanisms controlling this initial phase of diversification not well understood. Using chick model, we high-quality transcriptomic datasets different streak regions analyzed molecular heterogeneity. Fifteen percent expressed genes exhibit differential expression levels, as represented by two...
DNA methylation changes dynamically during development and is essential for embryogenesis in mammals. However, how affects developmental gene expression cell differentiation remains elusive. During embryogenesis, many key transcription factors are used repeatedly, triggering different outcomes depending on the type stage. Here, we report that modulates transcription-factor output context of differentiation. Using a drug-inducible Gata4 system mouse embryonic stem (ES) model mesoderm...
Pluripotency in embryonic stem cells is maintained through the activity of a small set transcription factors centred around Oct4 and Nanog, which control expression ‘self‐renewal’ ‘differentiation’ genes. Here, we combine single‐cell quantitative immunofluorescence microscopy gene analysis, together with theoretical modelling, to investigate how those regulated. We uncover key role for post‐translational regulation maintenance pluripotency, complements well‐established transcriptional...
Abstract An important function of the vascular system is nutrient delivery. In adult animals, this mediated through a close contact mesoderm‐derived vasculature with endoderm‐derived enterocytes and hepatocytes. During embryonic development, yolk sac (YS) endoderm has been suggested to play similar role. Physiological molecular nature between YS not well‐understood. To understand roles in early we used avian model carried out gene expression profiling analysis isolated area vasculosa tissues...
From a list of protein kinases (PKs) that are newly induced upon differentiation mouse embryonic stem cells to mesendoderm, we identified previously uncharacterized kinase, Vlk (vertebrate lonesome kinase), is well conserved in vertebrates but has no homologs outside the vertebrate lineage. Its kinase domain cannot be classified into any defined groups or families. Although first expressed E-cadherin-positive anterior visceral endoderm and its expression later confined E-cadherin-negative...
Large-scale gene expression studies and genomic sequencing projects are providing vast amounts of information that can be used to identify or predict cellular regulatory processes. Genes clustered on the basis similarity their profiles function these clusters likely contain genes regulated by same transcription factors. Searches for cis-regulatory elements then undertaken in noncoding regions genes. However, it is necessary assess efficiency both clustering postulated motifs, as there many...
Abstract ARID3B, a member of the AT-rich interaction domain (ARID) family proteins, plays an essential role in survival neural crest during embryogenesis. Here, we report evidence that ARID3B is involved development malignant neuroblastoma, childhood tumor derived from crest. (a) expressed by all five cell lines neuroblastoma tested us. (b) Analysis published DNA microarray data fresh tumors showed 80% stage IV tumors, whereas only 9% I-III+IVs tumors. (c) In vitro growth several suppressed...
AT-rich interaction domain molecule 3B (ARID3B) and MYCN are expressed in a portion of neuroblastoma, form combination that has strong oncogenic activity mouse embryonic fibroblasts (MEFs). Here, we show this can also convert neural stem cells to neuroblastoma-like tumor. To address whether there common mechanisms regulating the expression genes, examined public repositories gene data found although these genes rarely together, co-expression was observed proportion germ cell tumors (GCTs),...
Diet has been shown to influence epigenetic key players, such as DNA methylation, which can regulate the gene expression potential in both parents and offspring. Diets enriched omega-6 deficient omega-3 PUFAs (low dietary omega-3/omega-6 PUFA ratio), have associated with promotion of pathogenesis diseases humans other mammals. In this study, we investigated impact increased intake arachidonic acid (ARA), a physiologically important PUFA, on 2 generations zebrafish. Parental fish were fed...