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Showing 1–50 of 76 results

Advanced filters: Author: Ryuji Yoshida Clear advanced filters

A domed pachycephalosaur from the early Cretaceous of Mongolia

The pachycephalosaurian Zavacephale rinpoche, from the Early Cretaceous of Mongolia, provides crucial insights into the early evolution of dome-headed dinosaurs, including the development of the frontoparietal dome and decoupling of sociosexual and somatic maturity.

Tsogtbaatar Chinzorig
Ryuji Takasaki
Lindsay E. Zanno
Research17 Sept 2025
Nature

P: 1-8
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
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
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
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
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
Chondrodysplasia and neurological abnormalities in ATF-2-deficient mice

Andreas M. Reimold
Michael J. Grusby
Laurie H. Glimcher
Research18 Jan 1996
Nature

Volume: 379, P: 262-265
Serine clamp of Clostridium perfringens binary toxin BECb (CPILEb)-pore confers cytotoxicity and enterotoxicity

Via structural and mutational-functional analyses, the BEC toxin from C. perfringens is shown to use a unique serine-lined pore structure critical for toxicity, distinguishing it from other binary toxins that rely on conserved phenylalanine residues.

Toru Yoshida
Chie Monma
Hideaki Tsuge
ResearchOpen Access25 Jul 2025
Communications Biology

Volume: 8, P: 1-10
Nonmagnetic framboid and associated iron nanoparticles with a space-weathered feature from asteroid Ryugu

Electron holography discovered nonmagnetic framboids and many iron nanoparticles with a vortex magnetic flux formed by magnetite reduction due to a micrometeoroid impact on asteroid Ryugu, providing a new way to study the Solar System magnetic field.

Yuki Kimura
Takeharu Kato
Shogo Tachibana
ResearchOpen Access29 Apr 2024
Nature Communications

Volume: 15, P: 1-11
An ATR-PrimPol pathway confers tolerance to oncogenic KRAS-induced and heterochromatin-associated replication stress

How cancer cells develop and emerge has long been a matter of debate. Here, the authors reveal a crucial role of ATR-PrimPol in enabling precancerous cells to survive KRASinduced replication stress and expand clonally with genomic instability.

Taichi Igarashi
Marianne Mazevet
Bunsyo Shiotani
ResearchOpen Access17 Aug 2023
Nature Communications

Volume: 14, P: 1-22
Mapping the human genetic architecture of COVID-19

A global network of researchers was formed to investigate the role of human genetics in SARS-CoV-2 infection and COVID-19 severity; this paper reports 13 genome-wide significant loci and potentially actionable mechanisms in response to infection.

Mari E. K. Niemi
Juha Karjalainen
Chloe Donohue
ResearchOpen Access08 Jul 2021
Nature

Volume: 600, P: 472-477
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
Sucrose-preferring gut microbes prevent host obesity by producing exopolysaccharides

While diet is essential for daily nutrient acquisition, excessive intake of sugar-rich foods drives obesity and related health issues like diabetes. Here, the authors show that commensal bacterium S. salivarius curbs obesity by transforming dietary sugars into beneficial compounds.

Hidenori Shimizu
Junki Miyamoto
Ikuo Kimura
ResearchOpen Access29 Jan 2025
Nature Communications

Volume: 16, P: 1-16
Astronomical pacing of the global silica cycle recorded in Mesozoic bedded cherts

While the global silica cycle is known to play an important role in long-term climate change, the driving factors remain unknown. Here, the authors present a ∼70 million year long record of early Mesozoic biogenic silica and propose orbitally-paced chemical weathering as a primary driver.

Masayuki Ikeda
Ryuji Tada
Kazumi Ozaki
ResearchOpen Access07 Jun 2017
Nature Communications

Volume: 8, P: 1-9
Advances in cancer DNA methylation analysis with methPLIER: use of non-negative matrix factorization and knowledge-based constraints to enhance biological interpretability

Ken Takasawa
Ken Asada
Ryuji Hamamoto
ResearchOpen Access04 Mar 2024
Experimental & Molecular Medicine

Volume: 56, P: 646-655
Quadrupling the depairing current density in the iron-based superconductor SmFeAsO_1–xH_x

The authors report very high in-field critical current densities in Fe-based superconductors. They achieve this through doping to increase the carrier density and adding defects to pin vortices.

Masashi Miura
Serena Eley
Hideo Hosono
ResearchOpen Access18 Jul 2024
Nature Materials

Volume: 23, P: 1370-1378
Enhanced HSP70 lysine methylation promotes proliferation of cancer cells through activation of Aurora kinase B

HSP70 is a molecular chaperone that aids protein folding. In this study, HSP70 is shown to be methylated and this post-translationally modified protein is elevated in expression in human cancers and promotes the activity of Aurora kinase B.

Hyun-Soo Cho
Tadahiro Shimazu
Ryuji Hamamoto
ResearchOpen Access18 Sept 2012
Nature Communications

Volume: 3, P: 1-10
Microscopic basis for the band engineering of Mo_1−xW_xS₂-based heterojunction

Shoji Yoshida
Yu Kobayashi
Hidemi Shigekawa
ResearchOpen Access07 Oct 2015
Scientific Reports

Volume: 5, P: 1-6
A second update on mapping the human genetic architecture of COVID-19

Masahiro Kanai
Shea J. Andrews
Matthew Solomonson
ResearchOpen Access06 Sept 2023
Nature

Volume: 621, P: E7-E26
Chondrule-like objects and Ca-Al-rich inclusions in Ryugu may potentially be the oldest Solar System materials

Chondrule-like objects and CAIs in the Ryugu samples are early generations of chondrules and possibly oldest solids in the Solar System. They were transported from the inner solar nebula to the formation location of the Ryugu original parent body.

Daisuke Nakashima
Tomoki Nakamura
Yuichi Tsuda
ResearchOpen Access16 Feb 2023
Nature Communications

Volume: 14, P: 1-9
Probing ultrafast spin dynamics with optical pump–probe scanning tunnelling microscopy

Spin dynamics in semiconductor heterostructures can be probed by a modified scanning tunnelling microscopy technique with a temporal resolution of a few picoseconds.

Shoji Yoshida
Yuta Aizawa
Hidemi Shigekawa
Research29 Jun 2014
Nature Nanotechnology

Volume: 9, P: 588-593
Effect of heating insufflation tube of AirSeal system on laparoscopic surgery

Gumpei Yoshimatsu
Kurumi Sahara
Suguru Hasegawa
ResearchOpen Access05 Jan 2024
Scientific Reports

Volume: 14, P: 1-7
Associations between nonrestorative sleep and suicidal ideation: a Japanese general population survey

Kouju Yamada
Yoshiyuki Kaneko
Masahiro Suzuki
ResearchOpen Access07 Feb 2025
Scientific Reports

Volume: 15, P: 1-7
Effect of linearly polarized microwaves on nanomorphology of calcium carbonate mineralization using peptides

Kenji Usui
Makoto Ozaki
Fumihiro Kayamori
ResearchOpen Access25 Jul 2023
Scientific Reports

Volume: 13, P: 1-8
Detection of carbon dioxide embolism by transesophageal echocardiography during transanal/perineal endoscopic surgery: a pilot study

Yoshiko Matsumoto
Suguru Hasegawa
Kozaburo Akiyoshi
ResearchOpen Access28 Nov 2022
Scientific Reports

Volume: 12, P: 1-5
Nitric oxide activates TRP channels by cysteine S-nitrosylation

Takashi Yoshida
Ryuji Inoue
Yasuo Mori
Research24 Sept 2006
Nature Chemical Biology

Volume: 2, P: 596-607
Accessory pathway analysis using a multimodal deep learning model

Makoto Nishimori
Kunihiko Kiuchi
Ken-ichi Hirata
ResearchOpen Access13 Apr 2021
Scientific Reports

Volume: 11, P: 1-8
Integrative analysis reveals early epigenetic alterations in high-grade serous ovarian carcinomas

Hidenori Machino
Ai Dozen
Ryuji Hamamoto
ResearchOpen Access02 Oct 2023
Experimental & Molecular Medicine

Volume: 55, P: 2205-2219
Oncological evaluation in the perioperative period using cfDNA with BRAF V600E mutation in patients with colorectal cancer

Keita Tanaka
Yoichiro Yoshida
Suguru Hasegawa
ResearchOpen Access24 Jun 2021
Scientific Reports

Volume: 11, P: 1-8
De novo design of a nanopore for single-molecule detection that incorporates a β-hairpin peptide

De novo designed peptide with β-hairpin structure assembles to form a β-barrelled nanopore that can detect not only polynucleotides but also polypeptide chains at a single-molecule level.

Keisuke Shimizu
Batsaikhan Mijiddorj
Ryuji Kawano
ResearchOpen Access22 Nov 2021
Nature Nanotechnology

Volume: 17, P: 67-75
5-Nitrouracil stabilizes the plasma concentration values of 5-FU in colorectal cancer patients receiving capecitabine

Yoichiro Yoshida
Yasuhiro Hashimoto
Suguru Hasegawa
ResearchOpen Access17 Feb 2020
Scientific Reports

Volume: 10, P: 1-7
Prevalence, impact on quality of life, and predictive factors of coexistence of overactive bladder and underactive bladder in men

Noritoshi Sekido
Kenji Omae
Satoru Takahashi
ResearchOpen Access01 Jul 2025
Scientific Reports

Volume: 15, P: 1-10
Double-twist cylinders in liquid crystalline cholesteric blue phases observed by transmission electron microscopy

Shu Tanaka
Hiroyuki Yoshida
Masanori Ozaki
ResearchOpen Access04 Nov 2015
Scientific Reports

Volume: 5, P: 1-9
Controlling charge-density-wave states in nano-thick crystals of 1T-TaS₂

Masaro Yoshida
Yijin Zhang
Yoshihiro Iwasa
ResearchOpen Access03 Dec 2014
Scientific Reports

Volume: 4, P: 1-5
Modulation of electrical potential and conductivity in an atomic-layer semiconductor heterojunction

Yu Kobayashi
Shoji Yoshida
Yasumitsu Miyata
ResearchOpen Access12 Aug 2016
Scientific Reports

Volume: 6, P: 1-8
Contributions of changes in climatology and perturbation and the resulting nonlinearity to regional climate change

Changes in climatology and perturbation will lead to different impacts on regional climate change, but their effect remains a subject of debate. Here the authors develop a new downscaling procedure that reveals the importance of both changes on the regional climate and examines their nonlinear effect.

Sachiho A. Adachi
Seiya Nishizawa
Hirofumi Tomita
ResearchOpen Access20 Dec 2017
Nature Communications

Volume: 8, P: 1-8
A homozygous mutant embryonic stem cell bank applicable for phenotype-driven genetic screening

This paper describes a method to enrich for homozygous mutant mouse embryonic stem cells without an inherently selectable phenotype. It is used to construct a bank of homozygous and heterozygous mutant cells and should prove useful for cellular phenotypic screens.

Kyoji Horie
Chikara Kokubu
Junji Takeda
Research23 Oct 2011
Nature Methods

Volume: 8, P: 1071-1077
Comprehensive experimental datasets of quasicrystals and their approximants

Erina Fujita
Chang Liu
Yukari Katsura
ResearchOpen Access13 Nov 2024
Scientific Data

Volume: 11, P: 1-9
Differential brain volume between obese and underweight cognitively normal older adults with frailty in the JPSC-AD

Naoki Ishizuka
Hiroshi Akasaka
Yutaka Kiyohara
ResearchOpen Access04 Jun 2025
Scientific Reports

Volume: 15, P: 1-12
Big Mitogen-Activated Protein Kinase: A New Player in Vascular Remodeling

Hideo Mizutani
Ryuji Okamoto
Masaaki Ito
Editorial01 Nov 2007
Hypertension Research

Volume: 30, P: 1015-1016
Correction: Tumor microenvironment-mediated immune profiles and efficacy of anti-PD-L1 antibody plus chemotherapy stratified by DLL3 expression in small-cell lung cancer

Masayuki Shirasawa
Tatsuya Yoshida
Yuichiro Ohe
Amendments and Corrections03 Nov 2023
British Journal of Cancer

Volume: 129, P: 2034
Visualization of nanoscale magnetic domain states in the asteroid Ryugu

Yuki Kimura
Takeharu Kato
Shogo Tachibana
ResearchOpen Access29 Aug 2023
Scientific Reports

Volume: 13, P: 1-9
Enrichment of ODMR-active nitrogen-vacancy centres in five-nanometre-sized detonation-synthesized nanodiamonds: Nanoprobes for temperature, angle and position

Shingo Sotoma
Daiki Terada
Masahiro Shirakawa
ResearchOpen Access03 Apr 2018
Scientific Reports

Volume: 8, P: 1-8
An in planta biolistic method for stable wheat transformation

Haruyasu Hamada
Qianyan Linghu
Ryozo Imai
ResearchOpen Access13 Sept 2017
Scientific Reports

Volume: 7, P: 1-8
2-Aminobutyric acid modulates glutathione homeostasis in the myocardium

Yasuhiro Irino
Ryuji Toh
Ken-ichi Hirata
ResearchOpen Access09 Nov 2016
Scientific Reports

Volume: 6, P: 1-10
The strength of confidence is involved in controlling the intensity of attentional allocation

Kazuki Yoshida
Ryuji Saito
ResearchOpen Access21 Jan 2025
Scientific Reports

Volume: 15, P: 1-9
Dissection of the polygenic architecture of neuronal Aβ production using a large sample of individual iPSC lines derived from Alzheimer’s disease patients

Using more than 100 independent iPSC lines derived from patients with Alzheimer’s disease, the authors discovered loci associated with the neuronal production of amyloid β and confirmed their influence using RNA interference.

Takayuki Kondo
Norikazu Hara
Haruhisa Inoue
Research17 Feb 2022
Nature Aging

Volume: 2, P: 125-139
Left atrial single-cell transcriptomics reveals amphiregulin as a surrogate marker for atrial fibrillation

Left atrial scRNA-seq from patients with atrial fibrillation (AF) reveals macrophage heterogeneity and identifies monocytes and IL1B⁺ macrophages as key sources of EGF signals to fibroblasts, with serum AREG emerging as a biomarker for persistent AF.

Yuya Suzuki
Takuo Emoto
Koji Fukuzawa
ResearchOpen Access02 Dec 2024
Communications Biology

Volume: 7, P: 1-13
Genetic and clinical landscape of breast cancers with germline BRCA1/2 variants

Yukiko Inagaki-Kawata et al. report an analysis of germline variants in breast cancer susceptibility genes in 1,995 Japanese breast cancer patients. They find that 5.1% of the patients carry germline variants in cancer-linked genes and investigate the characteristics of patients with germline mutations in BRCA1/2.

Yukiko Inagaki-Kawata
Kenichi Yoshida
Masakazu Toi
ResearchOpen Access16 Oct 2020
Communications Biology

Volume: 3, P: 1-9
Tumor microenvironment-mediated immune profiles and efficacy of anti-PD-L1 antibody plus chemotherapy stratified by DLL3 expression in small-cell lung cancer

Masayuki Shirasawa
Tatsuya Yoshida
Yuichiro Ohe
Research20 Sept 2023
British Journal of Cancer

Volume: 129, P: 2003-2013

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