Tatsuhiko Naito
A5013551678- COVID-19 Clinical Research Studies
- Genetic Associations and Epidemiology
- Immune Cell Function and Interaction
- SARS-CoV-2 and COVID-19 Research
- RNA modifications and cancer
- Diabetes and associated disorders
- T-cell and B-cell Immunology
- Parkinson's Disease Mechanisms and Treatments
- RNA Research and Splicing
- Alzheimer's disease research and treatments
- IL-33, ST2, and ILC Pathways
- Cancer-related molecular mechanisms research
- Dermatology and Skin Diseases
- Bioinformatics and Genomic Networks
- Genomics and Rare Diseases
- PARP inhibition in cancer therapy
- Long-Term Effects of COVID-19
- Testicular diseases and treatments
- Hormonal Regulation and Hypertension
- Amyotrophic Lateral Sclerosis Research
- Single-cell and spatial transcriptomics
- CRISPR and Genetic Engineering
- Brain Metastases and Treatment
- Neuroinflammation and Neurodegeneration Mechanisms
- vaccines and immunoinformatics approaches
Icahn School of Medicine at Mount Sinai
2024-2025
The University of Tokyo
2018-2025
RIKEN Center for Integrative Medical Sciences
2022-2025
Osaka University
2020-2025
Allen Institute for Brain Science
2025
Kobe University
2022
Tokyo Teishin Hospital
2019
Toranomon Hospital
2018
University of Tokyo Hospital
2017
National Center for Global Health and Medicine
2015
Identifying the host genetic factors underlying severe COVID-19 is an emerging challenge1-5. Here we conducted a genome-wide association study (GWAS) involving 2,393 cases of in cohort Japanese individuals collected during initial waves pandemic, with 3,289 unaffected controls. We identified variant on chromosome 5 at 5q35 (rs60200309-A), close to dedicator cytokinesis 2 gene (DOCK2), which was associated patients less than 65 years age. This risk allele prevalent East Asian but rare...
Abstract Conventional human leukocyte antigen (HLA) imputation methods drop their performance for infrequent alleles, which is one of the factors that reduce reliability trans-ethnic major histocompatibility complex (MHC) fine-mapping due to inter-ethnic heterogeneity in allele frequency spectra. We develop DEEP*HLA, a deep learning method imputing HLA genotypes. Through validation using Japanese and European reference panels ( n = 1,118 5,122), DEEP*HLA achieves highest accuracies with...
Mechanisms underpinning the dysfunctional immune response in severe acute respiratory syndrome coronavirus 2 infection are elusive. We analyzed single-cell transcriptomes and T B cell receptors (BCR) of >895,000 peripheral blood mononuclear cells from 73 disease 2019 (COVID-19) patients 75 healthy controls Japanese ancestry with host genetic data. COVID-19 showed a low fraction nonclassical monocytes (ncMono). report downregulated transitions classical to ncMono reduced CXCL10 expression...
Aberrant immune responses to viral pathogens contribute pathogenesis, but our understanding of pathological caused by viruses within the human virome, especially at a population scale, remains limited. We analyzed whole-genome sequencing datasets 6,321 Japanese individuals, including patients with autoimmune diseases (psoriasis vulgaris, rheumatoid arthritis (RA), systemic lupus erythematosus (SLE), pulmonary alveolar proteinosis (PAP) or multiple sclerosis) and coronavirus disease 2019...
Across multiancestry groups, we analyzed Human Leukocyte Antigen (HLA) associations in over 176,000 individuals with Parkinson's disease (PD) and Alzheimer's (AD) versus controls. We demonstrate that the two diseases share same protective association at HLA locus. HLA-specific fine-mapping showed hierarchical effects of
Hunner-type interstitial cystitis (HIC) is a rare, chronic inflammatory disease of the urinary bladder with unknown etiology and genetic background. Here, we conduct genome-wide association study 144 patients HIC 41,516 controls Japanese ancestry. The variant, rs1794275, in major histocompatibility complex (MHC) region (chromosome 6p21.3) associated risk (odds ratio [OR] = 2.32; p 3.4 × 10
Vaccine immunogenicity is influenced by the vaccinee's genetic background. Here, we perform a genome-wide association study of vaccine-induced SARS-CoV-2-specific immunoglobulin G (IgG) antibody titers and T cell immune responses in 1,559 mRNA-1273 537 BNT162b2 vaccinees Japanese ancestry. are associated with heavy chain (IGH) major histocompatibility complex (MHC) locus, MHC. The lead variants at IGH contain population-specific missense variant (rs1043109-C; p.Leu192Val) constant gamma 1...
Most genetic risk variants for neurological diseases are located in non-coding regulatory regions, where they may often act as expression quantitative trait loci (eQTLs), modulating gene and influencing disease susceptibility. However, eQTL studies bulk brain tissue or specific cell types lack the resolution to capture brain's cellular diversity. Single-nucleus RNA sequencing (snRNA-seq) offers high-resolution mapping of eQTLs across diverse types. Here, we performed a meta-analysis,...
Genetic variants associated with Alzheimer's disease (AD) through genome-wide association studies (GWAS) are challenging to interpret because most lie in non-coding regions of the genome. Here, a method was developed that integrates deep learning variant effect prediction (DL-VEP) scores from Enformer, DeepSea, and ChromBPNet models cell-type specific regulatory annotations improve fine-mapping causal AD variants. Using stratified linkage disequilibrium score regression, largest proportion...
Abstract Coronavirus disease 2019 (COVID-19) is a recently-emerged infectious that has caused millions of deaths, where comprehensive understanding mechanisms still unestablished. In particular, studies gene expression dynamics and regulation landscape in COVID-19 infected individuals are limited. Here, we report on thorough analysis whole blood RNA-seq data from 465 genotyped samples the Japan Task Force, including 359 severe 106 non-severe cases. We discover 1169 putative causal...
Abstract Recurrent pregnancy loss (RPL) is a major reproductive health issue with multifactorial causes, affecting 2.6% of all pregnancies worldwide. Nearly half the RPL cases lack clinically identifiable causes (e.g., antiphospholipid syndrome, uterine anomalies, and parental chromosomal abnormalities), referred to as unexplained (uRPL). Here, we perform genome-wide association study focusing on uRPL in 1,728 24,315 female controls Japanese ancestry. We detect significant associations...
Several X-linked genes escape from X chromosome inactivation (XCI), while differences in across cell types and tissues are still poorly characterized. Here, we developed scLinaX for directly quantifying relative gene expression the inactivated with droplet-based single-cell RNA sequencing (scRNA-seq) data. The differentially expressed analyses large-scale blood scRNA-seq datasets consistently identified stronger lymphocytes than myeloid cells. An extension of to a 10x multiome dataset...
Intracranial germ cell tumors (IGCTs) are rare brain neoplasms that mainly occur in children and adolescents with a particularly high incidence East Asian populations. Here, we conduct genome-wide association study (GWAS) of 133 patients IGCTs 762 controls Japanese ancestry. A common 4-bp deletion polymorphism an enhancer adjacent to BAK1 is significantly associated the disease risk (rs3831846; P = 2.4 × 10-9, odds ratio 2.46 [95% CI: 1.83-3.31], minor allele frequency 0.43). Rs3831846...
Abstract Atopic dermatitis (AD) is a skin disease that heterogeneous both in terms of clinical manifestations and molecular profiles. It increasingly recognized AD systemic rather than local should be assessed the context whole-body pathophysiology. Here we show, via integrated RNA-sequencing tissue peripheral blood mononuclear cell (PBMC) samples along with data from 115 patients 14 matched healthy controls, specific presentations associate matching differential signatures. We establish...
ABSTRACT Background Despite evidence for the role of human leukocyte antigen (HLA) in genetic predisposition to Parkinson's disease (PD), complex haplotype structure and highly polymorphic feature major histocompatibility (MHC) region has hampered a unified insight on risk PD. In addition, majority reports focused Europeans, lacking other populations. Objectives The aim this study is elucidate features MHC associated with PD trans‐ethnic cohorts. Methods We conducted fine‐mapping European...