Research Output 1979 2019

2019
Islands of Calleja
Neurogenesis
Dentate Gyrus
Phenotype
Lateral Ventricles

8-Oxoguanine accumulation in aged female brain impairs neurogenesis in the dentate gyrus and major island of Calleja, causing sexually dimorphic phenotypes.

Haruyama, N., Kunihiko, S., Katogi, A., Tsuchimoto, D., De Luca, G., Bignami, M. & Nakabeppu, Y., Apr 19 2019, (Accepted/In press) In : Progress in Neurobiology.

Research output: Contribution to journalArticle

2 Citations (Scopus)

A chromatin integration labelling method enables epigenomic profiling with lower input

Harada, A., Maehara, K., Handa, T., Arimura, Y., Nogami, J., Hayashi-Takanaka, Y., Shirahige, K., Kurumizaka, H., Kimura, H. & Ohkawa, Y., Feb 1 2019, In : Nature Cell Biology. 21, 2, p. 287-296 10 p.

Research output: Contribution to journalArticle

Epigenomics
Chromatin
Chromatin Immunoprecipitation
Histone Code
Immunoprecipitation

A highly sensitive determination method for acrylamide in beverages, grains, and confectioneries by supercritical fluid chromatography tandem mass spectrometry

Yoshioka, T., Izumi, Y., Nagatomi, Y., Miyamoto, Y., Suzuki, K. & Bamba, T., Oct 1 2019, In : Food Chemistry. 294, p. 486-492 7 p.

Research output: Contribution to journalArticle

supercritical fluid chromatography
Supercritical Fluid Chromatography
Beverages
Acrylamide
acrylamides
2 Citations (Scopus)

CDCA7 and HELLS mutations undermine nonhomologous end joining in centromeric instability syndrome

Unoki, M., Funabiki, H., Velasco, G., Francastel, C. & Sasaki, H., Jan 2 2019, In : Journal of Clinical Investigation. 129, 1, CI99751.

Research output: Contribution to journalArticle

Chromosome Segregation
Mutation
HEK293 Cells
Chromatin
Apoptosis

Cell-autonomous and redundant roles of Hey1 and HeyL in muscle stem cells: HeyL requires HeS1 to bind diverse DNA sites

Noguchi, Y. T., Nakamura, M., Hino, N., Nogami, J., Tsuji, S., Sato, T., Zhang, L., Tsujikawa, K., Tanaka, T., Izawa, K., Okada, Y., Doi, T., Kokubo, H., Harada, A., Uezumi, A., Gessler, M., Ohkawa, Y. & Fukada, S. I., Feb 1 2019, In : Development (Cambridge). 146, 4, dev163618.

Research output: Contribution to journalArticle

Open Access
Muscle Cells
Stem Cells
DNA
Myogenin
Chromatin

Comparison of sequential derivatization with concurrent methods for GC/MS-based metabolomics

Miyagawa, H. & Bamba, T., Feb 1 2019, In : Journal of Bioscience and Bioengineering. 127, 2, p. 160-168 9 p.

Research output: Contribution to journalArticle

Metabolomics
Metabolites
Gas chromatography
Gas Chromatography-Mass Spectrometry
Mass spectrometry

Computational investigation of the conformational dynamics in Tom20-mitochondrial presequence tethered complexes

Srivastava, A., Tama, F., Kohda, D. & Miyashita, O., Jan 1 2019, In : Proteins: Structure, Function and Bioinformatics. 87, 1, p. 81-90 10 p.

Research output: Contribution to journalArticle

Disulfides
Molecular Dynamics Simulation
Membranes
Peptides
Molecular dynamics
2 Citations (Scopus)

Development of a practical online supercritical fluid extraction–supercritical fluid chromatography/mass spectrometry system with an integrated split-flow method

Sakai, M., Hayakawa, Y., Funada, Y., Ando, T., Fukusaki, E. & Bamba, T., May 10 2019, In : Journal of Chromatography A. 1592, p. 161-172 12 p.

Research output: Contribution to journalArticle

Supercritical Fluid Chromatography
Supercritical fluids
Chromatography
Mass spectrometry
Mass Spectrometry

Diabetes Mellitus, A risk factor for Alzheimer's Disease

Nakabeppu, Y. (ed.) & Ninomiya, T. (ed.), May 7 2019, Singapore: Springer. 248 p. (Advances in Experimental Medicine and Biology)

Research output: Book/ReportBook

Diabetes Mellitus
Alzheimer Disease
Insulin
Glucose
Vascular Dementia
1 Citation (Scopus)

Disruption of FBXL5-mediated cellular iron homeostasis promotes liver carcinogenesis

Muto, Y., Moroishi, T., Ichihara, K., Nishiyama, M., Shimizu, H., Eguchi, H., Moriya, K., Koike, K., Mimori, K., Mori, M., Katayama, Y. & Nakayama, K., Apr 1 2019, In : Journal of Experimental Medicine. 216, 4, p. 950-965 16 p.

Research output: Contribution to journalArticle

Open Access
Carcinogenesis
Homeostasis
Iron
Iron Overload
Liver
2 Citations (Scopus)

Elucidating functions of DP1 and DP2 subunits from the Thermococcus kodakarensis family D DNA polymerase

Takashima, N., Ishino, S., Oki, K., Takafuji, M., Yamagami, T., Matsuo, R., Mayanagi, K. & Ishino, Y., Jan 22 2019, In : Extremophiles. 23, 1, p. 161-172 12 p.

Research output: Contribution to journalArticle

Thermococcus
Transcription Factor DP1
Archaea
DNA-Directed DNA Polymerase
DNA

Gas chromatography-mass spectrometry metabolomics-based prediction of potato tuber sprouting during long-term storage

Fukuda, T., Takamatsu, K., Bamba, T. & Fukusaki, E., Jan 1 2019, In : Journal of Bioscience and Bioengineering.

Research output: Contribution to journalArticle

Metabolomics
Biomarkers
Solanum tuberosum
Gas chromatography
Gas Chromatography-Mass Spectrometry

Generation of human oogonia from induced pluripotent stem cells in vitro

Yamashiro, C., Sasaki, K., Yabuta, Y., Kojima, Y., Nakamura, T., Okamoto, I., Yokobayashi, S., Murase, Y., Ishikura, Y., Shirane, K., Sasaki, H., Yamamoto, T. & Saitou, M., Mar 1 2019, In : Obstetrical and Gynecological Survey. 74, 3, p. 158-159 2 p.

Research output: Contribution to journalComment/debate

Oogonia
Induced Pluripotent Stem Cells
In Vitro Techniques
3 Citations (Scopus)

Genomic Imprinting and Physiological Processes in Mammals

the Erice Imprinting Group, Feb 21 2019, In : Cell. 176, 5, p. 952-965 14 p.

Research output: Contribution to journalReview article

Physiological Phenomena
Genomic Imprinting
Mammals
Physiology
Genes

Germline mutation: De novo mutation in reproductive lineage cells

Kunihiko, S., Jan 1 2019, In : Genes and Genetic Systems. 94, 1, p. 3-12 10 p.

Research output: Contribution to journalArticle

Open Access
Germ-Line Mutation
Mutation Rate
Genome
Mutation
Cell Division

Histone H3K9 Methyltransferase G9a in Oocytes Is Essential for Preimplantation Development but Dispensable for CG Methylation Protection

Au Yeung, W. K., Brind'Amour, J., Hatano, Y., Yamagata, K., Feil, R., Lorincz, M. C., Tachibana, M., Shinkai, Y. & Sasaki, H., Apr 2 2019, In : Cell Reports. 27, 1, p. 282-293.e4

Research output: Contribution to journalArticle

Open Access
Methylation
Oocytes
Chromatin
Chromosome Segregation
Chromosomes

Identification of genomic alterations acquired during treatment with EGFR-TKIs in non-small cell lung cancer

Kubo, N., Harada, T., Shiraishi, Y., Nosaki, K., Nakagaki, N., Takeshita, M., Ouchi, H., Iwama, E., Tanaka, K., Okamoto, I., Sasaki, H. & Nakanishi, Y., Feb 1 2019, In : Anticancer research. 39, 2, p. 671-677 7 p.

Research output: Contribution to journalArticle

Epidermal Growth Factor Receptor
Non-Small Cell Lung Carcinoma
Protein-Tyrosine Kinases
Therapeutics
Exome
1 Citation (Scopus)

Identification of metabolites associated with onset of CAD in diabetic patients using ce-ms analysis: A pilot study

Omori, K., Katakami, N., Yamamoto, Y., Ninomiya, H., Takahara, M., Matsuoka, T. A., Bamba, T., Fukusaki, E. & Shimomura, I., Jan 1 2019, In : Journal of atherosclerosis and thrombosis. 26, 3, p. 233-245 13 p.

Research output: Contribution to journalArticle

Open Access
Metabolites
Coronary Artery Disease
Medical problems
Arteries
Galactosamine

Identification of novel serum markers for the progression of coronary atherosclerosis in WHHLMI rabbits, an animal model of familial hypercholesterolemia

Shiomi, M., Takeda, H., Irino, Y., Kimura, N., Yamada, S., Kuniyoshi, N., Kikumori, A., Koike, Y., Koike, T., Yoshida, M., Izumi, Y., Shinohara, M., Bamba, T. & Ishida, T., May 1 2019, In : Atherosclerosis. 284, p. 18-23 6 p.

Research output: Contribution to journalArticle

Hyperlipoproteinemia Type II
Coronary Artery Disease
Animal Models
Biomarkers
Rabbits

Intragenic antagonistic roles of protein and circRNA in tumorigenesis

Guarnerio, J., Zhang, Y., Cheloni, G., Panella, R., Mae Katon, J., Simpson, M., Matsumoto, A., Papa, A., Loretelli, C., Petri, A., Kauppinen, S., Garbutt, C., Petur Nielsen, G., Deshpande, V., Castillo-Martin, M., Cordon-Cardo, C., Dimitrios, S., Clohessy, J. G., Batish, M. & Paolo Pandolfi, P., Jan 1 2019, In : Cell Research.

Research output: Contribution to journalArticle

Carcinogenesis
Neoplasms
Proteins
Angiogenesis Inducing Agents
Transcription Factors

Locomotor Training Increases Synaptic Structure With High NGL-2 Expression After Spinal Cord Hemisection

Kobayakawa, K., DePetro, K. A., Zhong, H., Pham, B., Hara, M., Harada, A., Nogami, J., Ohkawa, Y. & Edgerton, V. R., Jan 1 2019, In : Neurorehabilitation and Neural Repair.

Research output: Contribution to journalArticle

Spinal Cord
Synapses
RNA
Synaptophysin
Gene Ontology

Macrophage centripetal migration drives spontaneous healing process after spinal cord injury

Kobayakawa, K., Ohkawa, Y., Yoshizaki, S., Tamaru, T., Saito, T., Kijima, K., Yokota, K., Hara, M., Kubota, K., Matsumoto, Y., Harimaya, K., Ozato, K., Masuda, T., Makoto, T., Tamura, T., Inoue, K., Reggie Edgerton, V., Iwamoto, Y., Nakashima, Y. & Okada, S., May 15 2019, In : Science Advances. 5, 5, eaav5086.

Research output: Contribution to journalArticle

Open Access
spinal cord injuries
macrophages
healing
interferon
lesions

miR-124 dosage regulates prefrontal cortex function by dopaminergic modulation

Kozuka, T., Omori, Y., Watanabe, S., Tarusawa, E., Yamamoto, H., Chaya, T., Furuhashi, M., Morita, M., Sato, T., Hirose, S., Ohkawa, Y., Yoshimura, Y., Hikida, T. & Furukawa, T., Dec 1 2019, In : Scientific reports. 9, 1, 3445.

Research output: Contribution to journalArticle

Prefrontal Cortex
MicroRNAs
Central Nervous System
Methamphetamine
Pyramidal Cells

Molecular pathophysiology of insulin depletion, mitochondrial dysfunction, and oxidative stress in Alzheimer’s disease brain

Nakabeppu, Y., Jan 1 2019, Advances in Experimental Medicine and Biology. Springer New York LLC, p. 27-44 18 p. (Advances in Experimental Medicine and Biology; vol. 1128).

Research output: Chapter in Book/Report/Conference proceedingChapter

Oxidative stress
Brain
Alzheimer Disease
Oxidative Stress
Medical problems

Mouse polycomb group gene Cbx2 promotes osteoblastic but suppresses adipogenic differentiation in postnatal long bones

Katoh-Fukui, Y., Baba, T., Sato, T., Otake, H., Nagakui-Noguchi, Y., Shindo, M., Suyama, M., Ohkawa, Y., Tsumura, H., Morohashi, K-I. & Fukami, M., Mar 1 2019, In : Bone. 120, p. 219-231 13 p.

Research output: Contribution to journalArticle

Mesenchymal Stromal Cells
Bone and Bones
Cell Lineage
Genes
Polycomb-Group Proteins
1 Citation (Scopus)

Novel components of germline sex determination acting downstream of foxl3 in medaka

Kikuchi, M., Nishimura, T., Saito, D., Shigenobu, S., Takada, R., Gutierrez-Triana, J. A., Cerdán, J. L. M., Takada, S., Wittbrodt, J., Suyama, M. & Tanaka, M., Jan 1 2019, In : Developmental Biology. 445, 1, p. 80-89 10 p.

Research output: Contribution to journalArticle

Oryzias
Germ Cells
Sex Differentiation
Chromatids
Ubiquitin-Protein Ligases

Origins of brain insulin and its function

Nakabeppu, Y., Jan 1 2019, Advances in Experimental Medicine and Biology. Springer New York LLC, p. 1-11 11 p. (Advances in Experimental Medicine and Biology; vol. 1128).

Research output: Chapter in Book/Report/Conference proceedingChapter

Brain
Insulin
Neurology
Glucose
Central Nervous System

Pathological changes of distal motor neurons after complete spinal cord injury

Yokota, K., Kubota, K., Kobayakawa, K., Saito, T., Hara, M., Kijima, K., Maeda, T., Katoh, H., Ohkawa, Y., Nakashima, Y. & Okada, S., Jan 9 2019, In : Molecular Brain. 12, 1, 4.

Research output: Contribution to journalArticle

Motor Neurons
Spinal Cord Injuries
Spinal Cord
Microdissection
Thoracic Injuries
Heavy Ion Radiotherapy
Spontaneous Fractures
Single-Photon Emission-Computed Tomography
Bone and Bones
Bone Remodeling

Prevention of cancer dormancy by Fbxw7 ablation eradicates disseminated tumor cells

Shimizu, H., Takeishi, S., Nakatsumi, H. & Nakayama, K., Feb 21 2019, In : JCI insight. 4, 4

Research output: Contribution to journalArticle

Neoplasms
Breast Neoplasms
Drug Therapy
Paclitaxel
Heterografts
Arm Injuries
Ossification of Posterior Longitudinal Ligament
Pectoralis Muscles
Prone Position
Brachial Plexus

Reconstruction of global regulatory network from signaling to cellular functions using phosphoproteomic data

Kawata, K., Yugi, K., Hatano, A., Kokaji, T., Tomizawa, Y., Fujii, M., Uda, S., Kubota, H., Matsumoto, M., Nakayama, K. & Kuroda, S., Jan 1 2019, In : Genes to Cells. 24, 1, p. 82-93 12 p.

Research output: Contribution to journalArticle

Insulin
Phosphorylation
Proteins
Protein Kinases
Hepatocellular Carcinoma

SCF Fbxw7 ubiquitylates KLF7 for degradation in a manner dependent on GSK-3-mediated phosphorylation

Sugiyama, S., Yumimoto, K., Inoue, I. & Nakayama, K., May 1 2019, In : Genes to Cells. 24, 5, p. 354-365 12 p.

Research output: Contribution to journalArticle

Glycogen Synthase Kinase 3
Ligases
Ubiquitin
SKP Cullin F-Box Protein Ligases
Maintenance
1 Citation (Scopus)

Spinocerebellar ataxia 27 with a novel nonsense variant (Lys177X) in FGF14

Miura, S., Kosaka, K., Fujioka, R., Uchiyama, Y., Shimojo, T., Morikawa, T., Irie, A., Taniwaki, T. & Shibata, H., Mar 1 2019, In : European Journal of Medical Genetics. 62, 3, p. 172-176 5 p.

Research output: Contribution to journalArticle

Dysarthria
Ataxia
Gait
Progressive Myoclonic Epilepsy
Genes

The acute phase serum zinc concentration is a reliable biomarker for predicting the functional outcome after spinal cord injury

Kijima, K., Kubota, K., Hara, M., Kobayakawa, K., Yokota, K., Saito, T., Yoshizaki, S., Maeda, T., Konno, D., Matsumoto, Y., Nakashima, Y. & Okada, S., Mar 1 2019, In : EBioMedicine. 41, p. 659-669 11 p.

Research output: Contribution to journalArticle

Open Access
Biomarkers
Spinal Cord Injuries
Zinc
Serum
Patient treatment
1 Citation (Scopus)

The jpost environment: An integrated proteomics data repository and database

Moriya, Y., Kawano, S., Okuda, S., Watanabe, Y., Matsumoto, M., Takami, T., Kobayashi, D., Yamanouchi, Y., Araki, N., Yoshizawa, A. C., Tabata, T., Iwasaki, M., Sugiyama, N., Tanaka, S., Goto, S. & Ishihama, Y., Jan 8 2019, In : Nucleic acids research. 47, D1, p. D1218-D1224

Research output: Contribution to journalArticle

Proteomics
Databases
Mass Spectrometry
Peptides
Proteome

Transcriptome profiling of refractory atopic keratoconjunctivitis by RNA sequencing

Matsuda, A., Asada, Y., Suita, N., Iwamoto, S., Hirakata, T., Yokoi, N., Ohkawa, Y., Okada, Y., Yokomizo, T. & Ebihara, N., Apr 1 2019, In : Journal of Allergy and Clinical Immunology. 143, 4, p. 1610-1614.e6

Research output: Contribution to journalArticle

Keratoconjunctivitis
RNA Sequence Analysis
Gene Expression Profiling
1 Citation (Scopus)

Tricarboxylic acid cycle activity suppresses acetylation of mitochondrial proteins during early embryonic development in Caenorhabditis elegans

Hada, K., Hirota, K., Inanobe, A., Kako, K., Miyata, M., Araoi, S., Matsumoto, M., Ohta, R., Arisawa, M., Daitoku, H., Hanada, T. & Fukamizu, A., Jan 1 2019, In : Journal of Biological Chemistry. 294, 9, p. 3091-3099 9 p.

Research output: Contribution to journalArticle

Acetylation
Citric Acid Cycle
Mitochondrial Proteins
Caenorhabditis elegans
Embryonic Development

Zfp281 Shapes the Transcriptome of Trophoblast Stem Cells and Is Essential for Placental Development

Ishiuchi, T., Ohishi, H., Sato, T., Kamimura, S., Yorino, M., Abe, S., Suzuki, A., Wakayama, T., Suyama, M. & Sasaki, H., May 7 2019, In : Cell Reports. 27, 6, p. 1742-1754.e6

Research output: Contribution to journalArticle

Open Access
Placentation
Trophoblasts
Stem cells
Transcriptome
Stem Cells
2018
2 Citations (Scopus)

Accurate estimation of 5-methylcytosine in mammalian mitochondrial DNA

Matsuda, S., Yasukawa, T., Sakaguchi, Y., Ichiyanagi, K., Unoki, M., Gotou, K., Fukuda, K., Sasaki, H., Suzuki, T. & Kang, D., 2018, In : Scientific Reports. 8, 1

Research output: Contribution to journalArticle

Open Access

Acetaldehyde administrationinduces salsolinol formation in vivo in the dorsal striatum of Aldh2-knockout and C57BL/6N mice

Ito, A., Jamal, M., Ameno, K., Tanaka, N., Takakura, A., Kawamoto, T., Kitagawa, K., Nakayama, K., Matsumoto, A., Miki, T. & Kinoshita, H., Oct 15 2018, In : Neuroscience Letters. 685, p. 50-54 5 p.

Research output: Contribution to journalArticle

Acetaldehyde
Inbred C57BL Mouse
Knockout Mice
Dopamine
Serotonin
8 Citations (Scopus)

Adiponectin/T-cadherin system enhances exosome biogenesis and decreases cellular ceramides by exosomal release

Obata, Y., Kita, S., Koyama, Y., Fukuda, S., Takeda, H., Takahashi, M., Fujishima, Y., Nagao, H., Masuda, S., Tanaka, Y., Nakamura, Y., Nishizawa, H., Funahashi, T., Ranscht, B., Izumi, Y., Bamba, T., Fukusaki, E., Hanayama, R., Shimada, S., Maeda, N. & 1 othersShimomura, I., Apr 19 2018, In : JCI insight. 3, 8

Research output: Contribution to journalArticle

Open Access
Exosomes
Ceramides
Adiponectin
Aorta
Multivesicular Bodies
2 Citations (Scopus)

Alterations in Docosahexaenoic Acid-Related Lipid Cascades in Inflammatory Bowel Disease Model Mice

Nishiumi, S., Izumi, Y. & Yoshida, M., Jun 1 2018, In : Digestive Diseases and Sciences. 63, 6, p. 1485-1496 12 p.

Research output: Contribution to journalArticle

Docosahexaenoic Acids
Inflammatory Bowel Diseases
Knockout Mice
Interleukin-10
Lipids
1 Citation (Scopus)

Ameliorating effects of D-47, a newly developed compound, on lipid metabolism in an animal model of familial hypercholesterolemia (WHHLMI rabbits)

Tamura, S., Koike, Y., Takeda, H., Koike, T., Izumi, Y., Nagasaka, R., Tsunoda, T., Tori, M., Ogawa, K., Bamba, T. & Shiomi, M., Mar 5 2018, In : European Journal of Pharmacology. 822, p. 147-153 7 p.

Research output: Contribution to journalArticle

Hyperlipoproteinemia Type II
Lipid Metabolism
Animal Models
Rabbits
Fats
7 Citations (Scopus)

A molecular roadmap for the emergence of early-embryonic-like cells in culture

Rodriguez-Terrones, D., Gaume, X., Ishiuchi, T., Weiss, A., Kopp, A., Kruse, K., Penning, A., Vaquerizas, J. M., Brino, L. & Torres-Padilla, M. E., Jan 1 2018, In : Nature genetics. 50, 1, p. 106-119 14 p.

Research output: Contribution to journalArticle

Cell Culture Techniques
Embryonic Stem Cells
Epigenomics
Pluripotent Stem Cells
Small Interfering RNA

An albino mutant of the Japanese rat snake (Elaphe climacophora) carries a nonsense mutation in the tyrosinase gene

Iwanishi, S., Zaitsu, S., Shibata, H. & Nitasaka, E., Jan 1 2018, In : Genes and Genetic Systems. 93, 4, p. 163-167 5 p.

Research output: Contribution to journalArticle

Monophenol Monooxygenase
Snakes
Nonsense Codon
Pets
Genes

A new targeted capture method using bacterial artificial chromosome (BAC) libraries as baits for sequencing relatively large genes

Koganebuchi, K., Gakuhari, T., Takeshima, H., Sato, K., Fujii, K., Kumabe, T., Kasagi, S., Sato, T., Tajima, A., Shibata, H., Ogawa, M. & Oota, H., Jul 1 2018, In : PloS one. 13, 7, e0200170.

Research output: Contribution to journalArticle

Bacterial Artificial Chromosomes
bacterial artificial chromosomes
Chromosomes
baits
Genes

An intronic single nucleotide polymorphism in the MUTYH gene is associated with increased risk for HCV-induced hepatocellular carcinoma

Sakurada, A., Miyanishi, K., Tanaka, S., Sato, M., Sakamoto, H., Kawano, Y., Takada, K., Nakabeppu, Y., Kobune, M. & Kato, J., Dec 1 2018, In : Free Radical Biology and Medicine. 129, p. 88-96 9 p.

Research output: Contribution to journalArticle

Polymorphism
Single Nucleotide Polymorphism
Hepatocellular Carcinoma
Nucleotides
Genes
1 Citation (Scopus)

A Novel Autoantibody against Plexin D1 in Patients with Neuropathic Pain

Fujii, T., Yamasaki, R., Iinuma, K., Tsuchimoto, D., Hayashi, Y., Saitoh, B. Y., Matsushita, T., Kido, M. A., Aishima, S., Nakanishi, H., Nakabeppu, Y. & Kira, J. I., Aug 2018, In : Annals of Neurology. 84, 2, p. 208-224 17 p.

Research output: Contribution to journalArticle

Neuralgia
Autoantibodies
Spinal Ganglia
Neurons
Unmyelinated Nerve Fibers