Nature Search

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
Epistatic relationship between Waardenburg Syndrome genes MITF and PAX3

Atsushi Watanabe
Kazuhisa Takeda
Masayoshi Tachibana
Research01 Mar 1998
Nature Genetics

Volume: 18, P: 283-286
Interethnic analyses of blood pressure loci in populations of East Asian and European descent

Blood pressure (BP) is a major risk factor for cardiovascular disease and more than 200 genetic loci associated with BP are known. Here, the authors perform discovery GWAS for BP in East Asians and meta-analysis in East Asians and Europeans and report ancestry-specific BP SNPs and selection signals.

Fumihiko Takeuchi
Masato Akiyama
Norihiro Kato
ResearchOpen Access28 Nov 2018
Nature Communications

Volume: 9, P: 1-16
Mechanically activated switching of Si-based single-molecule junction as imaged with three-dimensional dynamic probe

Mechanically induced conformational modulation can be used to control the conductance of single molecules junctions, but it is hard to be realized due to broken junctions. Here, the authors probe three-dimensional dynamics of Si/single-molecule/Si junctions, whose conductance shows a binary change.

Miki Nakamura
Shoji Yoshida
Hidemi Shigekawa
ResearchOpen Access06 Oct 2015
Nature Communications

Volume: 6, P: 1-8
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
Evolution and functioning of an X–A balance sex-determining system in hops

On the basis of the whole-genome sequences of cultivated and wild hops, this study describes the evolution of sex chromosomes, including degeneration and dosage compensation, and identifies a candidate gene for the X–A balance sex-determination system in these species.

Takashi Akagi
Tenta Segawa
Eiichiro Ono
Research18 Jun 2025
Nature Plants

Volume: 11, P: 1339-1352
Isolation, tissue expression, and chromosomal assignment of a novel human gene which encodes a protein with RING finger motif

Naohiko Seki
Atsushi Hattori
T. Saito
Research01 Dec 1998
Journal of Human Genetics

Volume: 43, P: 272-274
Absolute Stereostructures of Cell-adhesion Inhibitors, Peribysins A, E, F and G, Produced by a Sea Hare-derived Periconia sp.

Takeshi Yamada
Mitsunobu Doi
Atsushi Numata
Research01 Mar 2005
The Journal of Antibiotics

Volume: 58, P: 185-191
Cell-adhesion Inhibitors Produced by a Sea Hare-derived Periconia sp. II

Takeshi Yamada
Katsuhiko Minoura
Atsushi Numata
Research01 Jun 2006
The Journal of Antibiotics

Volume: 59, P: 345-350
Cell-adhesion Inhibitors Produced by a Sea Hare-derived Periconia sp.

Takeshi Yamada
Katsuhiko Minoura
Atsushi Numata
Research01 Jun 2007
The Journal of Antibiotics

Volume: 60, P: 370-375
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
Large-scale genome-wide association study in a Japanese population identifies novel susceptibility loci across different diseases

Genome-wide analysis in 212,453 Japanese individuals identifies loci associated with 42 diseases. Comparative analysis with European populations identifies East Asian–specific associations.

Kazuyoshi Ishigaki
Masato Akiyama
Yoichiro Kamatani
Research08 Jun 2020
Nature Genetics

Volume: 52, P: 669-679
L-Glutamic Acid Formation from 2-Furoic Acid by Soil Bacteria

ATSUSHI KAKINUMA
SABURŌ YAMATODANI
Research25 Jan 1964
Nature

Volume: 201, P: 420-421
p53-inducible lncRNA LOC644656 causes genotoxic stress-induced stem cell maldifferentiation and cancer chemoresistance

The tumor suppressor p53 prevents malignant transformation and regulates stem cell function and differentiation. Here, the authors discover a p53-induced lncRNA, LOC644656, that regulates genotoxic stress-induced stem cell maldifferentiation and chemoresistance in cancer cells.

Ai Tamura
Kazuyuki Yamagata
Tomoaki Tanaka
ResearchOpen Access23 May 2025
Nature Communications

Volume: 16, P: 1-22
BRD9 determines the cell fate of hematopoietic stem cells by regulating chromatin state

BRD9 is a core non-canonical BAF component. Here the authors show that BRD9 plays a pivotal role in regulating the disease-related cell fate of hematopoietic stem cells. Its loss promotes myeloid skewing while impairing B cell development by altering CTCF-mediated chromatin states.

Muran Xiao
Shinji Kondo
Daichi Inoue
ResearchOpen Access15 Dec 2023
Nature Communications

Volume: 14, P: 1-22
Activity-dependent organization of prefrontal hub-networks for associative learning and signal transformation

Neuronal populations in the prefrontal cortex are involved in associative learning. Here the authors use longitudinal imaging and computational approaches in the mouse prefrontal cortex to observe changes in neuronal ensembles during fear conditioning.

Masakazu Agetsuma
Issei Sato
Takeharu Nagai
ResearchOpen Access06 Oct 2023
Nature Communications

Volume: 14, P: 1-22
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
Comprehensive serotyping of Mannheimia haemolytica by a PCR system using the diversity of capsule biosynthesis genes

Atsushi Iguchi
Yuichi Ueno
Daisuke Takamatsu
ResearchOpen Access08 Apr 2025
Scientific Reports

Volume: 15, P: 1-8
Correction: Corrigendum: Reversal of mouse hepatic failure using an implanted liver-assist device containing ES cell–derived hepatocytes

Alejandro Soto-Gutiérrez
Naoya Kobayashi
Ira J Fox
Amendments and Corrections01 Feb 2007
Nature Biotechnology

Volume: 25, P: 254
Erratum: YAP determines the cell fate of injured mouse hepatocytes in vivo

Norio Miyamura
Shoji Hata
Hiroshi Nishina
Amendments and CorrectionsOpen Access07 Aug 2017
Nature Communications

Volume: 8, P: 1
Chromosomal assignment of a human apoptosis-associated tyrosine kinase gene on chromosome 17q25.3 by somatic hybrid analysis and fluorescence in situ hybridization

Naohiko Seki
Akiko Hayashi
T. Saito
Research01 Mar 1999
Journal of Human Genetics

Volume: 44, P: 141-142
Assignment of the ZIP kinase gene to human chromosome 19p13.3 by somatic hybrid analysis and fluorescence in-situ hybridization

T. Saito
Miki Ohira
N. Seki
Research01 Sept 1998
Journal of Human Genetics

Volume: 43, P: 209-211
Chromosomal assignment of the gene for human DNA-PKcs interacting protein (KIP) on chromosome 15q25.3–q26.1 by somatic hybrid analysis and fluorescence in situ hybridization

Naohiko Seki
Akiko Hayashi
T. Saito
Research01 Dec 1998
Journal of Human Genetics

Volume: 43, P: 275-277
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
Polymorphisms in MICA, but not in DEPDC5, HCP5 or PNPLA3, are associated with chronic hepatitis C-related hepatocellular carcinoma

Hoang Hai
Akihiro Tamori
Norifumi Kawada
ResearchOpen Access19 Sept 2017
Scientific Reports

Volume: 7, P: 1-9
PI3K-Akt signalling regulates Scx-lineage tenocytes and Tppp3-lineage paratenon sheath cells in neonatal tendon regeneration

While tendon healing is robust in children, adult tendon injuries are repaired with fibrotic scarring. Here they show that PI3K-Akt signaling plays a pivotal role in physiological neonatal tendon regeneration and regulates the stemness of both Scx-lineage tenocytes and Tppp3-lineage paratenon sheath cells.

Atsushi Goto
Shingo Komura
Haruhiko Akiyama
ResearchOpen Access20 Apr 2025
Nature Communications

Volume: 16, P: 1-18
Broadband generation and tomography of non-Gaussian states for ultra-fast optical quantum processors

The use of optical phase sensitive amplifiers (PSA) has been shown to allow fast quantum tomography of Gaussian states, but non-Gaussian states are a key component for quantum computation using optical continuous-variable systems. Here, the authors extend PSA-enhanced high-bandwidth homodyne detection to non-Gaussian states.

Akito Kawasaki
Ryuhoh Ide
Akira Furusawa
ResearchOpen Access01 Nov 2024
Nature Communications

Volume: 15, P: 1-8
A potent genetic risk factor for restenosis

Mitsuru Ohishi
Kenshi Fujii
Toshio Ogihara
Correspondence01 Dec 1993
Nature Genetics

Volume: 5, P: 324-325
Synthesis of Novel Poly(tetramethyl-2,7-silpyrenylenesiloxane) and Its Thermal and Optical Properties

Kazutoshi Imai
Takumi Sasaki
Nobukatsu Nemoto
Research10 Jun 2009
Polymer Journal

Volume: 41, P: 584-585
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
Dioxin receptor is a ligand-dependent E3 ubiquitin ligase

Fumiaki Ohtake
Atsushi Baba
Shigeaki Kato
Research29 Mar 2007
Nature

Volume: 446, P: 562-566
Variation in TP63 is associated with lung adenocarcinoma susceptibility in Japanese and Korean populations

Yataro Daigo and colleagues report a genome-wide association study for lung adenocarcinoma in Japanese and Korean populations, identifying a susceptibility locus at TP63.

Daiki Miki
Michiaki Kubo
Yataro Daigo
Research26 Sept 2010
Nature Genetics

Volume: 42, P: 893-896
Relationship between abdominal circumference and the incidence of hyperuricemia in the general Japanese population

Kazumi Kawano
Tamami Ueno
Hisatomi Arima
ResearchOpen Access25 Feb 2024
Scientific Reports

Volume: 14, P: 1-8
A new protein complex promoting the assembly of Rad51 filaments

RecA/Rad51 proteins catalyse the recognition and exchange between two homologous DNA strands during homologous recombination. Sasanuma et al. now demonstrate that Rad51 association with ssDNA is mediated by a complex consisting of Psy3, Csm2, Shu1 and Shu2 proteins.

Hiroyuki Sasanuma
Maki S. Tawaramoto
Akira Shinohara
Research09 Apr 2013
Nature Communications

Volume: 4, P: 1-13
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
Elevation in white blood cell count and development of hyper LDL cholesterolemia

Shota Okutsu
Yoshifumi Kato
Shigeki Nabeshima
ResearchOpen Access22 May 2023
Scientific Reports

Volume: 13, P: 1-6
Curing cytoplasmic male sterility via TALEN-mediated mitochondrial genome editing

Knockout of cytoplasmic male-sterility-associated genes using TALENs with mitochondria localization signals rescues male sterility in rice and rapeseed, validating the role of these genes, and provides a method for plant mitochondrial genome editing.

Tomohiko Kazama
Miki Okuno
Shin-ichi Arimura
Research08 Jul 2019
Nature Plants

Volume: 5, P: 722-730
Genomic structure and alternative splicing of the insulin receptor tyrosine kinase substrate of 53-kDa protein

Atsushi Miyahara
Yuko Okamura-Oho
Masao Yamada
Research16 Jul 2003
Journal of Human Genetics

Volume: 48, P: 410-414
Relationships between family histories of stroke and of hypertension and stroke mortality: Nippon Data80, 1980–1999

Aya Kadota
Tomonori Okamura
Hirotsugu Ueshima
Research01 Aug 2008
Hypertension Research

Volume: 31, P: 1525-1531
YAP determines the cell fate of injured mouse hepatocytes in vivo

Senescent and injured cells affect tissue functions and can drive tumorigenesis. Thus, efficient elimination of these cells is pivotal for tissue integrity. Here Miyamuraet al. show that YAP acts as a cellular stress sensor and promotes the elimination of damaged cells to maintain tissue homeostasis.

Norio Miyamura
Shoji Hata
Hiroshi Nishina
ResearchOpen Access06 Jul 2017
Nature Communications

Volume: 8, P: 1-10
Incidence and risk of advanced age-related macular degeneration in eyes with drusenoid pigment epithelial detachment

Taiyo Shijo
Yoichi Sakurada
Kenji Kashiwagi
ResearchOpen Access18 Mar 2022
Scientific Reports

Volume: 12, P: 1-8
Liver group 2 innate lymphoid cells regulate blood glucose levels through IL-13 signaling and suppression of gluconeogenesis

Besides hepatocytes, resident immune cells of the liver are also contributing to the body’s energy homeostasis. Here authors show that group 2 innate lymphoid cells interact with a specific set of hepatocytes in suppressing gluconeogenesis and regulate blood glucose levels via Interleukin-13 signalling.

Masanori Fujimoto
Masataka Yokoyama
Tomoaki Tanaka
ResearchOpen Access15 Sept 2022
Nature Communications

Volume: 13, P: 1-21
Eating before bed and new-onset hypertension in a Japanese population: the Iki city epidemiological study of atherosclerosis and chronic kidney disease

Shunsuke Funakoshi
Atsushi Satoh
Hisatomi Arima
Research22 Sept 2021
Hypertension Research

Volume: 44, P: 1662-1667
Establishment of in-hospital clinical network for patients with neurofibromatosis type 1 in Nagoya University Hospital

Yoshihiro Nishida
Kunihiro Ikuta
Norio Ozaki
ResearchOpen Access07 Jun 2021
Scientific Reports

Volume: 11, P: 1-7
Silicon twisted cone structure produced by optical vortex pulse with structure evaluation by radiation hydrodynamic simulation

Daisuke Nakamura
Ryohei Tasaki
Takeshi Higashiguchi
ResearchOpen Access01 Dec 2020
Scientific Reports

Volume: 10, P: 1-11
Gastric cancer stem cells survive in stress environments via their autophagy system

Shingo Togano
Masakazu Yashiro
Masaichi Ohira
ResearchOpen Access19 Oct 2021
Scientific Reports

Volume: 11, P: 1-9
Minor intron retention drives clonal hematopoietic disorders and diverse cancer predisposition

Loss of function of the minor spliceosome component ZRSR2 enhances hematopoietic stem cell self-renewal through minor intron retention of its target LZTR1, which is a regulator of RAS-related GTPases. Minor intron retention of LZTR1 was also identified in Noonan syndrome and diverse solid tumor types.

Daichi Inoue
Jacob T. Polaski
Omar Abdel-Wahab
Research12 Apr 2021
Nature Genetics

Volume: 53, P: 707-718
Empagliflozin attenuates acute kidney injury after myocardial infarction in diabetic rats

Atsushi Kuno
Yukishige Kimura
Tetsuji Miura
ResearchOpen Access29 Apr 2020
Scientific Reports

Volume: 10, P: 1-9
Germline pathogenic variants of 11 breast cancer genes in 7,051 Japanese patients and 11,241 controls

Association between variants in 11 different genes and breast cancer risk has been established and sequencing of these genes is recommended to provide personalized diagnosis, therapy, and surveillance for the high-risk patients and their relatives. Here the authors analyse the frequency of germline pathogenic mutations in these genes specifically in a Japanese population.

Yukihide Momozawa
Yusuke Iwasaki
Michiaki Kubo
ResearchOpen Access04 Oct 2018
Nature Communications

Volume: 9, P: 1-7

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