Fumio Nakaki

ORCID: 0000-0003-4332-7735
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About
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Research Areas
  • Pluripotent Stem Cells Research
  • Animal Genetics and Reproduction
  • CRISPR and Genetic Engineering
  • Immune Cell Function and Interaction
  • Diabetes and associated disorders
  • Single-cell and spatial transcriptomics
  • Cancer Immunotherapy and Biomarkers
  • T-cell and B-cell Immunology
  • Epigenetics and DNA Methylation
  • Renal and related cancers
  • Cancer Cells and Metastasis
  • Developmental Biology and Gene Regulation
  • Reproductive System and Pregnancy
  • Immunotherapy and Immune Responses
  • Extracellular vesicles in disease
  • Reproductive Biology and Fertility
  • Endoplasmic Reticulum Stress and Disease
  • MRI in cancer diagnosis
  • Congenital heart defects research
  • Microfluidic and Bio-sensing Technologies
  • Genetic Mapping and Diversity in Plants and Animals

European Molecular Biology Laboratory
2021-2024

Kyoto University
2005-2020

Japan Science and Technology Agency
2017

Shiga Medical Center
2005

Mice deficient in programmed cell death 1 (PD-1, Pdcd1 ), an immunoinhibitory receptor belonging to the CD28/cytotoxic T lymphocyte-associated antigen-4 family, spontaneously develop lupus-like autoimmune disease and dilated cardiomyopathy on C57BL/6 BALB/c backgrounds, respectively. However, how PD-1 deficiency induces different forms of diseases these two strains was unknown. Here, we report that specifically accelerates onset frequency type I diabetes NOD (nonobese diabetic) mice, with...

10.1073/pnas.0505497102 article EN Proceedings of the National Academy of Sciences 2005-08-08

Stimulatory and inhibitory co-receptors play fundamental roles in the regulation of immune system. We describe a new mouse model spontaneous autoimmune disease. Activation-induced cytidine deaminase–linked autoimmunity (aida) mice harbor loss-of-function mutation gene encoding lymphocyte activation 3 (LAG-3), an co-receptor. Although LAG-3 deficiency alone did not induce nonautoimmune-prone strains, it induced lethal myocarditis BALB/c deficient for co-receptor programmed cell death 1...

10.1084/jem.20100466 article EN cc-by-nc-sa The Journal of Experimental Medicine 2011-02-07

Abstract During embryonic development, epithelial cell blocks called somites are periodically formed according to the segmentation clock, becoming foundation for segmental pattern of vertebral column. The process somitogenesis has recently been recapitulated with murine and human pluripotent stem cells. However, an in vitro model coupled clock epithelialization is still missing. Here, we report generation somitoids, organoids that form pairs somite-like structures. Somitoids display clear...

10.1038/s41467-022-29967-1 article EN cc-by Nature Communications 2022-04-28

The deficiency of programmed cell death 1 (PD-1, Pdcd1), a negative immuno-receptor belonging to the CD28/cytotoxic T lymphocyte antigen 4 (CTLA-4) family, can support various tissue-specific autoimmune conditions. Here, we analyzed effect PD-1 in MRL mice that is genetically predisposed systemic autoimmunity. MRL-Pdcd1−/− developed fatal myocarditis, which reminiscent CTLA-4-deficient (Ctla4−/−) mice. Massive infiltration CD4+ and CD8+ cells myeloid was found hearts concomitant with...

10.1093/intimm/dxq026 article EN International Immunology 2010-04-21

Commencing oogenesis In mice, embryonic stem cells and induced pluripotent have been shown to differentiate into primordial germ cell–like that can give rise functional oocytes. this system, Nagaoka et al. identified the gene Zglp1 as a necessary sufficient factor for conferring oogenic fate sexually undetermined cells. As downstream effector of bone morphogenetic protein signaling, conserved transcriptional regulator ZGLP1 activates program repressed by Polycomb activities, whereas retinoic...

10.1126/science.aaw4115 article EN Science 2020-02-13

The formation of the germ layers and antero-posterior (AP) axial patterning are interlinked milestones embryogenesis. Gastruloids, in vitro models from aggregated embryonic stem cells (ESCs), permit study deconstruction these events. Gastruloids successfully generated ESCs variable pluripotent states, but it remains unknown how initial conditions influence cell type composition to what degree resulting variations spatial can converge onto an elongated body axis. To address this, we...

10.1101/2025.03.26.645494 preprint EN cc-by-nc bioRxiv (Cold Spring Harbor Laboratory) 2025-03-29

Minimal in vitro systems composed of embryonic stem cells (ESCs) have been shown to recapitulate the establishment anteroposterior (AP) axis. In contrast native embryo, ESC aggregates - such as gastruloids can break symmetry, which is demarcated by polarization mesodermal marker T, autonomously without any localized external cues. However, associated earliest patterning events, spatial restriction cell fates and concomitant transcriptional changes, remain poorly understood. Here, we dissect...

10.1242/dev.202171 article EN cc-by Development 2024-11-15

1. Abstract In the mammalian embryo, specification of anteroposterior (AP) axis demarcates one first steps body plan formation. While this process requires interactions with extra-embryonic tissues in native minimal vitro systems from embryonic stem cells (ESCs) undergo initial AP polarization absence any localized, external cues. This self-organizing potential remains not well understood. Here, we study such an symmetry breaking event gastruloids, established model for formation, using...

10.1101/2021.02.24.432766 preprint EN cc-by-nc bioRxiv (Cold Spring Harbor Laboratory) 2021-02-24

Cerebral malaria is a severe neurovascular complication of Plasmodium falciparum with high mortality, even after treatment effective antimalarials. A better understanding pathogenic mechanisms could help future development adjunctive therapies, yet limitations in current experimental models have hindered our knowledge the disease. We developed 3D blood-brain barrier model enhanced properties using primary brain endothelial cells, astrocytes and pericytes. Exposure to parasite egress products...

10.1101/2024.10.15.618439 preprint EN cc-by-nc-nd 2024-10-16

The non-obese diabetic (NOD) mouse strain is prone to developing various autoimmune syndromes including type I diabetes mellitus (T1DM), sialadenitis, thyroiditis and pancreatitis. Although the genetic basis of T1DM has been extensively analyzed, factors that modify other phenotypes are largely unknown. We have recently reported NOD mice with anti-diabetogenic MHC haplotype (H-2b) programmed cell death 1 (PD-1) deficiency (NOD.H2b-Pdcd1−/− mice) protected from but develop tissue-specific...

10.1093/intimm/dxp020 article EN International Immunology 2009-03-04

Abstract Background Recent advances in sample-multiplexing droplet-based single-cell RNA sequencing (mx-scRNA-seq) enable us to evaluate large numbers of different samples or experiments simultaneously by reducing the occurrence undetectable multiplets, that is, droplets capture multiple cells. However, probability potential multiplets mx-scRNA-seq is yet be quantitatively examined. Results We developed a simple theoretical model predict four classes possible mx-scRNA-seq: Homogeneous...

10.1101/2023.12.22.573050 preprint EN cc-by bioRxiv (Cold Spring Harbor Laboratory) 2023-12-23
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