Nature Search

DOCK2 is involved in the host genetics and biology of severe COVID-19

A genome-wide association study highlights a variant in DOCK2, which is common in East Asian populations but rare in Europeans, as a host genetic risk factor for severe COVID-19.

Ho Namkoong
Ryuya Edahiro
Yukinori Okada
ResearchOpen Access08 Aug 2022
Nature

Volume: 609, P: 754-760
Deciphering state-dependent immune features from multi-layer omics data at single-cell resolution

A single-cell multiomic immune cell atlas from 235 Japanese, including patients with COVID-19 and healthy individuals, linked with host genetics including germline and somatic mutation, plasma proteomics and metagenomics data reveals that immune cells are dynamically regulated in a cell state-dependent manner.

Ryuya Edahiro
Go Sato
Yukinori Okada
ResearchOpen Access28 Jul 2025
Nature Genetics

Volume: 57, P: 1905-1921
Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network

Mammalian genomes are scattered with repetitive sequences, but their biology remains largely elusive. Here, the authors show that transcription can initiate from short tandem repetitive sequences, and that genetic variants linked to human diseases are preferentially found at repeats with high transcription initiation level.

Mathys Grapotte
Manu Saraswat
Charles-Henri Lecellier
ResearchOpen Access02 Jun 2021
Nature Communications

Volume: 12, P: 1-18
Blood DNA virome associates with autoimmune diseases and COVID-19

Analysis of the blood DNA virome in patients with COVID-19 and autoimmune disease associates endogenous HHV-6 (eHHV-6) and high anellovirus load with increased disease risk, most notably for systemic lupus erythematosus. eHHV-6 carriers show a distinct immune response.

Noah Sasa
Shohei Kojima
Yukinori Okada
ResearchOpen Access03 Jan 2025
Nature Genetics

Volume: 57, P: 65-79
Single-cell analyses and host genetics highlight the role of innate immune cells in COVID-19 severity

Peripheral blood mononuclear cells from 73 Japanese patients with coronavirus disease 2019 (COVID-19) and 75 healthy controls were analyzed using single-cell transcriptomics. Combining these data with genotyping data highlights the interplay between host genetics and the immune response in modulating disease severity.

Ryuya Edahiro
Yuya Shirai
Yukinori Okada
ResearchOpen Access24 Apr 2023
Nature Genetics

Volume: 55, P: 753-767
The whole blood transcriptional regulation landscape in 465 COVID-19 infected samples from Japan COVID-19 Task Force

Genetic mechanisms influencing COVID-19 susceptibility are not well understood. Here, the authors analyzed whole blood RNA-seq data of 465 Japanese individuals with COVID-19, highlighting thousands of fine-mapped variants affecting expression and splicing of genes, as well as the presence of COVID-19 severity-interaction eQTLs.

Qingbo S. Wang
Ryuya Edahiro
Yukinori Okada
ResearchOpen Access22 Aug 2022
Nature Communications

Volume: 13, P: 1-19
Identification and replication of sex-dimorphic protein quantitative trait loci across multiple ancestries and their associations with diseases

Youngjune Bhak
Vasilis Raptis
Albert Tenesa
ResearchOpen Access28 Aug 2025
Scientific Reports

Volume: 15, P: 1-16
Differences in characteristics of glucose intolerance between patients with NAFLD and chronic hepatitis C as determined by CGMS

Tsunehiro Ochi
Takumi Kawaguchi
Toshiji Saibara
ResearchOpen Access31 Aug 2017
Scientific Reports

Volume: 7, P: 1-9
RADICL-seq identifies general and cell type–specific principles of genome-wide RNA-chromatin interactions

Mammalian genomes encode tens of thousands of ncRNAs that have important roles in regulation of gene expression and chromatin organization. Here, the authors present RADICLseq to map RNA-chromatin interactions in intact nuclei to shed light on these fine-tuned processes.

Alessandro Bonetti
Federico Agostini
Piero Carninci
ResearchOpen Access24 Feb 2020
Nature Communications

Volume: 11, P: 1-14
A human β-cell line for transplantation therapy to control type 1 diabetes

Michiki Narushima
Naoya Kobayashi
Ji-Won Yoon
Research25 Sept 2005
Nature Biotechnology

Volume: 23, P: 1274-1282
Author Correction: RADICL-seq identifies general and cell type–specific principles of genome-wide RNA-chromatin interactions

Alessandro Bonetti
Federico Agostini
Piero Carninci
Amendments and CorrectionsOpen Access19 May 2021
Nature Communications

Volume: 12, P: 1
Aggregability of the SQSTM1/p62-based aggresome-like induced structures determines the sensitivity to parthanatos

Shuhei Hamano
Takuya Noguchi
Atsushi Matsuzawa
ResearchOpen Access12 Feb 2024
Cell Death Discovery

Volume: 10, P: 1-12
Author Correction: Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network

Mathys Grapotte
Manu Saraswat
Charles-Henri Lecellier
Amendments and CorrectionsOpen Access01 Mar 2022
Nature Communications

Volume: 13, P: 1
The in vivo antitumor effects of type I-interferon against hepatocellular carcinoma: the suppression of tumor cell growth and angiogenesis

Hirayuki Enomoto
Lihua Tao
Shuhei Nishiguchi
ResearchOpen Access22 Sept 2017
Scientific Reports

Volume: 7, P: 1-11
FANTOM5 CAGE profiles of human and mouse samples

Shuhei Noguchi
Takahiro Arakawa
Yoshihide Hayashizaki
ResearchOpen Access29 Aug 2017
Scientific Data

Volume: 4, P: 1-10
FANTOM5 CAGE profiles of human and mouse reprocessed for GRCh38 and GRCm38 genome assemblies

Imad Abugessaisa
Shuhei Noguchi
Takeya Kasukawa
ResearchOpen Access29 Aug 2017
Scientific Data

Volume: 4, P: 1-10
Influence of molecular weight on the photoinduced reorientation of photo-cross-linkable liquid crystalline polymeric films

Influence of the molecular weight on the thermally enhanced photoinduced molecular reorientation of photo-cross-linkable liquid crystalline polymer films was investigated, where axis-selectively photoreacted side groups controlled the reorientation. Sufficient molecular reorientation (S>0.7) was achieved when the number-average molecular weight (M_n) was >1.8 × 10⁴, but reorientation ability was inferior when M_n was less than 1.0 × 10⁴. The efficiency of the molecular reorientation depended on both degree of the photoreaction and the molecular weight of the material, which is related to the insolubility of the photoreacted film.

Nobuhiro Kawatsuki
Hiroshi Shoji
Mizuho Kondo
Research10 Jul 2013
Polymer Journal

Volume: 46, P: 85-88
The polypeptide antibiotic polymyxin B acts as a pro-inflammatory irritant by preferentially targeting macrophages

Tomohiro Kagi
Rio Naganuma
Atsushi Matsuzawa
Research25 Nov 2021
The Journal of Antibiotics

Volume: 75, P: 29-39
Hydrogenative degradation of PEG-functionalized lignin

The hydrogenolysis of PEG-modified soluble lignin was investigated with series of transition metal complexes to afford alkyl guaiacols. Although the introduced PEG moiety was also susceptible against the hydrogenolysis, in situ modification in PEG solvent was found effective for maintaining the lignin soluble and improved degradation efficiency.

Shuhei Kusumoto
Takuya Higashi
Kyoko Nozaki
ResearchOpen Access04 Jan 2024
Polymer Journal

Volume: 56, P: 353-357
Combinatorial perturbation analysis reveals divergent regulations of mesenchymal genes during epithelial-to-mesenchymal transition

Kazuhide Watanabe
Nicholas Panchy
Tian Hong
ResearchOpen Access14 Jun 2019
npj Systems Biology and Applications

Volume: 5, P: 1-15
OVOL2 induces mesenchymal-to-epithelial transition in fibroblasts and enhances cell-state reprogramming towards epithelial lineages

Kazuhide Watanabe
Ye Liu
Harukazu Suzuki
ResearchOpen Access24 Apr 2019
Scientific Reports

Volume: 9, P: 1-12
Single human papillomavirus 16 or 52 infection and later cytological findings in Japanese women with NILM or ASC-US

Shuhei Abe
Kiyonori Miura
Hideaki Masuzaki
Research13 Feb 2014
Journal of Human Genetics

Volume: 59, P: 251-255
Copy number variation of the antimicrobial-gene, defensin beta 4, is associated with susceptibility to cervical cancer

Shuhei Abe
Kiyonori Miura
Hideaki Masuzaki
Research07 Mar 2013
Journal of Human Genetics

Volume: 58, P: 250-253
A significant association between rs8067378 at 17q12 and invasive cervical cancer originally identified by a genome-wide association study in Han Chinese is replicated in a Japanese population

Kiyonori Miura
Hiroyuki Mishima
Hideaki Masuzaki
Research19 May 2016
Journal of Human Genetics

Volume: 61, P: 793-796

Search

DOCK2 is involved in the host genetics and biology of severe COVID-19

Deciphering state-dependent immune features from multi-layer omics data at single-cell resolution

Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network

Blood DNA virome associates with autoimmune diseases and COVID-19

Single-cell analyses and host genetics highlight the role of innate immune cells in COVID-19 severity

The whole blood transcriptional regulation landscape in 465 COVID-19 infected samples from Japan COVID-19 Task Force

Identification and replication of sex-dimorphic protein quantitative trait loci across multiple ancestries and their associations with diseases

Differences in characteristics of glucose intolerance between patients with NAFLD and chronic hepatitis C as determined by CGMS

RADICL-seq identifies general and cell type–specific principles of genome-wide RNA-chromatin interactions

A human β-cell line for transplantation therapy to control type 1 diabetes

Author Correction: RADICL-seq identifies general and cell type–specific principles of genome-wide RNA-chromatin interactions

Aggregability of the SQSTM1/p62-based aggresome-like induced structures determines the sensitivity to parthanatos

Author Correction: Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network

The in vivo antitumor effects of type I-interferon against hepatocellular carcinoma: the suppression of tumor cell growth and angiogenesis

FANTOM5 CAGE profiles of human and mouse samples

FANTOM5 CAGE profiles of human and mouse reprocessed for GRCh38 and GRCm38 genome assemblies

Influence of molecular weight on the photoinduced reorientation of photo-cross-linkable liquid crystalline polymeric films

The polypeptide antibiotic polymyxin B acts as a pro-inflammatory irritant by preferentially targeting macrophages

Hydrogenative degradation of PEG-functionalized lignin

Combinatorial perturbation analysis reveals divergent regulations of mesenchymal genes during epithelial-to-mesenchymal transition

OVOL2 induces mesenchymal-to-epithelial transition in fibroblasts and enhances cell-state reprogramming towards epithelial lineages

Single human papillomavirus 16 or 52 infection and later cytological findings in Japanese women with NILM or ASC-US

Copy number variation of the antimicrobial-gene, defensin beta 4, is associated with susceptibility to cervical cancer

A significant association between rs8067378 at 17q12 and invasive cervical cancer originally identified by a genome-wide association study in Han Chinese is replicated in a Japanese population

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