トランスオミクス医学研究センター

研究成果 1994 2020

コメント/討論

Correction: "UV damage-induced phosphorylation of HBO1 triggers CRL4DDB2-mediated degradation to regulate cell proliferation" [Molecular and Cellular Biology 36, 3, (2016) (394-406)] doi 10.1128/MCB.00809-15

Matsunuma, R., Niida, H., Ohhata, T., Kitagawa, K., Sakai, S., Uchida, C., Shiotani, B., Matsumoto, M., Nakayama, K. I., Ogura, H., Shiiya, N. & Kitagawa, M., 4 1 2018, : : Molecular and cellular biology. 38, 7, e00572-17.

研究成果: ジャーナルへの寄稿コメント/討論

Cell Biology
Molecular Biology
Phosphorylation
Cell Proliferation

Erratum: PSMC5, a 19S proteasomal ATPase, regulates cocaine action in the nucleus accumbens (PLoS ONE (2015) 10:5 (e0126710) DOI: 10.1371/journal.pone.0126710)

Ohnishi, Y. H., Ohnishi, Y. N., Nakamura, T., Ohno, M., Kennedy, P. J., Ohkawa, Y., Nishi, A., Neve, R., Tsuzuki, T. & Nestler, E. J., 6 25 2015, : : PloS one. 10, 6, e0131263.

研究成果: ジャーナルへの寄稿コメント/討論

Erratum: Heterochromatin dynamics during the differentiation process revealed by the DNA methylation reporter mouse, MethylRO (Stem Cell Reports (2014) 2 (910-924))

Ueda, J., Maehara, K., Mashiko, D., Ichinose, T., Yao, T., Hori, M., Sato, Y., Kimura, H., Ohkawa, Y. & Yamagata, K., 7 8 2014, : : Stem Cell Reports. 3, 1, 1 p.

研究成果: ジャーナルへの寄稿コメント/討論

Heterochromatin
DNA Methylation
Stem Cells

Erratum: Structure and function of human histone H3.Y nucleosome (Nucleic acids research (2016) 44 13 (6127-6141))

Kujirai, T., Horikoshi, N., Sato, K., Maehara, K., Machida, S., Osakabe, A., Kimura, H., Ohkawa, Y. & Kurumizaka, H., 4 7 2017, : : Nucleic acids research. 45, 6, 1 p.

研究成果: ジャーナルへの寄稿コメント/討論

Nucleosomes
Histones
Nucleic Acids
Research
1 引用 (Scopus)

Erratum: Transcription Factor PU.1 Represses and Activates Gene Expression in Early T Cells by Redirecting Partner Transcription Factor Binding (Immunity (2018) 48(6) (1119–1134.e7), (S1074761318301936) (10.1016/j.immuni.2018.04.024))

Hosokawa, H., Ungerbäck, J., Wang, X., Matsumoto, M., Nakayama, K. I., Cohen, S. M., Tanaka, T. & Rothenberg, E. V., 10 16 2018, : : Immunity. 49, 4, 1 p.

研究成果: ジャーナルへの寄稿コメント/討論

Immunity
Transcription Factors
T-Lymphocytes
Gene Expression
proto-oncogene protein Spi-1
1 引用 (Scopus)
Western Blotting
Insulin
Liver

Erratum: New Insight into the Role of the Calvin Cycle: Reutilization of CO2 Emitted through Sugar Degradation (Scientific Reports 5 (2016) (11617) DOI: 10.1038/srep11617)

Shimizu, R., Dempo, Y., Nakayama, Y., Nakamura, S., Bamba, T., Fukusaki, E. & Fukui, T., 6 20 2016, : : Scientific reports. 6, 27961.

研究成果: ジャーナルへの寄稿コメント/討論

Erratum: A novel protein with RNA-binding motifs interacts with ataxin-2 (Human Molecular Genetics (2000) vol.9 (1303-1313))

Shibata, H., Huynh, D. P. & Pulst, S. M., 8 17 2000, : : Human Molecular Genetics. 9, 12, 1 p.

研究成果: ジャーナルへの寄稿コメント/討論

Medical Genetics
Molecular Biology
Proteins
Ataxin-2
RNA-Binding Motifs
1 引用 (Scopus)

Relationship between 3-methyl-2,4-nonanedione concentration and intensity of light-induced off-odor in soy bean oil

Sano, T., Iwahashi, M., Imagi, J., Sato, T., Yamashita, T., Fukusaki, E. & Bamba, T., 5 1 2016, : : Journal of oleo science. 65, 5, p. 447-450 4 p.

研究成果: ジャーナルへの寄稿コメント/討論

Soybean Oil
Odors
Thermal desorption
3-methyl-2,4-nonanedione
Oils
レター
3 引用 (Scopus)

Brain-derived neurotrophic factor improves limited exercise capacity in mice with heart failure

Matsumoto, J., Takada, S., Kinugawa, S., Furihata, T., Nambu, H., Kakutani, N., Tsuda, M., Fukushima, A., Yokota, T., Tanaka, S., Takahashi, H., Watanabe, M., Hatakeyama, S., Matsumoto, M., Nakayama, K. I., Otsuka, Y., Sabe, H., Tsutsui, H. & Anzai, T., 1 1 2018, : : Circulation. 138, 18, p. 2064-2066 3 p.

研究成果: ジャーナルへの寄稿レター

Brain-Derived Neurotrophic Factor
Heart Failure
9 引用 (Scopus)

Identification of anti-Sez6l2 antibody in a patient with cerebellar ataxia and retinopathy

Yaguchi, H., Yabe, I., Takahashi, H., Okumura, F., Takeuchi, A., Horiuchi, K., Kano, T., Kanda, A., Saito, W., Matsumoto, M., Nakayama, K. I., Hatakeyama, S. & Sasaki, H., 1 1 2014, : : Journal of Neurology. 261, 1, p. 224-226 3 p.

研究成果: ジャーナルへの寄稿レター

Nerve Tissue Proteins
Retinal Diseases
Cerebellar Ataxia
Autoantibodies
Anti-Idiotypic Antibodies

Response to the letter to the editor by Berciano J & García A

Miura, S. & Shibata, H., 1 2018, : : European Journal of Medical Genetics. 61, 1, 1 p.

研究成果: ジャーナルへの寄稿レター

会議での発言
6 引用 (Scopus)

A BP-Based Algorithm for Performing Bayesian Inference in Large Perceptron-Type Networks

Kabashima, Y. & Uda, S., 2004, International Conference on Algorithmic Learning Theory. p. 479-493

研究成果: 著書/レポートタイプへの貢献会議での発言

DegSampler: Collapsed Gibbs sampler for detecting E3 binding sites

Maruyama, O. & Matsuzaki, F., 12 6 2018, Proceedings - 2018 IEEE 18th International Conference on Bioinformatics and Bioengineering, BIBE 2018. Institute of Electrical and Electronics Engineers Inc., p. 1-9 9 p. 8567448. (Proceedings - 2018 IEEE 18th International Conference on Bioinformatics and Bioengineering, BIBE 2018).

研究成果: 著書/レポートタイプへの貢献会議での発言

Binding sites
Binding Sites
Proteins
Substrates
Probability distributions

Matrix rank minimization approach to signal recovery and nonlinear function estimation for nonlinear ARX model with input nonlinearity

Konishi, K., Fujii, M., Kunida, K., Uda, S. & Kuroda, S., 2 7 2018, 2017 Asian Control Conference, ASCC 2017. Institute of Electrical and Electronics Engineers Inc., p. 1428-1431 4 p. (2017 Asian Control Conference, ASCC 2017; 巻数 2018-January).

研究成果: 著書/レポートタイプへの貢献会議での発言

Nonlinear Estimation
Function Estimation
Autoregressive Model
Nonlinear Function
Nonlinear Model

Matrix rank minimization approach to signal recovery and nonlinear function estimation for nonlinear ARX model with input nonlinearity

Konishi, K., Fujii, M., Kunida, K., Uda, S. & Kuroda, S., 2 8 2018, Control Conference (ASCC), 2017 11th Asian. IEEE

研究成果: 著書/レポートタイプへの貢献会議での発言

Recovery
Signal transduction
Systems Biology

Sparse Gaussian graphical model with missing values

Uda, S. & Kubota, H., 1 8 2018, Proceedings of the 21st Conference of Open Innovations Association, FRUCT 2017. IEEE Computer Society, p. 336-343 8 p.

研究成果: 著書/レポートタイプへの貢献会議での発言

Signal transduction
Molecular interactions
Factorization
Genes
Proteins

Synthetic quorum sensing as a tunable cell density sensor-regulator for dynamic metabolic engineering

Hanai, T. & Soma, Y., 1 1 2016, Metabolic Engineering 11. AIChE, p. 181-182 2 p. (Metabolic Engineering 11).

研究成果: 著書/レポートタイプへの貢献会議での発言

記事
13 引用 (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., 2 1 2019, : : Nature Cell Biology. 21, 2, p. 287-296 10 p.

研究成果: ジャーナルへの寄稿記事

Epigenomics
Chromatin
Chromatin Immunoprecipitation
Histone Code
Immunoprecipitation
26 引用 (Scopus)

A cluster of noncoding RNAs activates the ESR1 locus during breast cancer adaptation

Tomita, S., Abdalla, M. O. A., Fujiwara, S., Matsumori, H., Maehara, K., Ohkawa, Y., Iwase, H., Saitoh, N. & Nakao, M., 4 29 2015, : : Nature communications. 6, 6966.

研究成果: ジャーナルへの寄稿記事

Untranslated RNA
loci
breast
estrogens
cancer
7 引用 (Scopus)

A co-localization model of paired ChIP-seq data using a large ENCODE data set enables comparison of multiple samples

Maehara, K., Odawara, J., Harada, A., Yoshimi, T., Nagao, K., Obuse, C., Akashi, K., Tachibana, T., Sakata, T. & Ohkawa, Y., 1 1 2013, : : Nucleic acids research. 41, 1, p. 54-62 9 p.

研究成果: ジャーナルへの寄稿記事

Encyclopedias
Chromatin Immunoprecipitation
RNA Polymerase III
RNA Polymerase II
DNA
12 引用 (Scopus)

A comparative study of the enzymologieal features of α-amylase in the Drosophila melanogaster species subgroup

Shibata, H. & Yamazaki, T., 1 1 1994, : : Japanese Journal of Genetics. 69, 3, p. 251-258 8 p.

研究成果: ジャーナルへの寄稿記事

Amylases
Drosophila melanogaster
Temperature
Phylogeny
Enzymes
21 引用 (Scopus)

Acute hyperglycemia impairs functional improvement after spinal cord injury in mice and humans

Kobayakawa, K., Kumamaru, H., Saiwai, H., Kubota, K., Ohkawa, Y., Kishimoto, J., Yokota, K., Ideta, R., Shiba, K., Tozaki-Saitoh, H., Inoue, K., Iwamoto, Y. & Okada, S., 10 1 2014, : : Science Translational Medicine. 6, 256, 256ra137.

研究成果: ジャーナルへの寄稿記事

Spinal Cord Injuries
Hyperglycemia
Obese Mice
Nervous System Trauma
Blood Glucose
1 引用 (Scopus)

Ad4BP/SF-1 regulates cholesterol synthesis to boost the production of steroids

Baba, T., Otake, H., Inoue, M., Sato, T., Ishihara, Y., Moon, J. Y., Tsuchiya, M., Miyabayashi, K., Ogawa, H., Shima, Y., Wang, L., Sato, R., Yamazaki, T., Suyama, M., Nomura, M., Choi, M. H., Ohkawa, Y. & Morohashi, K. I., 12 1 2018, : : Communications Biology. 1, 1, 18.

研究成果: ジャーナルへの寄稿記事

公開
steroids
Steroids
Cholesterol
cholesterol
Metabolic Networks and Pathways
14 引用 (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. および1人, Shimomura, I., 4 19 2018, : : JCI Insight. 3, 8

研究成果: ジャーナルへの寄稿記事

公開
Exosomes
Ceramides
Adiponectin
Aorta
Multivesicular Bodies

A fail-safe system to prevent oncogenesis by senescence is targeted by SV40 small T antigen

Oshikawa, K., Matsumoto, M., Kodama, M., Shimizu, H. & Nakayama, K. I., 1 1 2019, (受理済み/印刷中) : : Oncogene.

研究成果: ジャーナルへの寄稿記事

Simian virus 40
Viral Tumor Antigens
Carcinogenesis
Oncogenes
Heterochromatin
12 引用 (Scopus)

A genome-wide analysis identifies a Notch-RBP-Jk-IL-7Ra axis that controls IL-17-Producing γδ T cell homeostasis in mice

Nakamura, M., Shibata, K., Hatano, S., Sato, T., Ohkawa, Y., Yamada, H., Ikuta, K. & Yoshikai, Y., 1 1 2015, : : Journal of Immunology. 194, 1, p. 243-251 9 p.

研究成果: ジャーナルへの寄稿記事

Interleukin-17
Homeostasis
Genome
T-Lymphocytes
Interleukin-7
26 引用 (Scopus)
Spinal Cord Injuries
Cytokines
Spinal Cord
Chemokines
Infiltration
7 引用 (Scopus)

Agplus: A rapid and flexible tool for aggregation plots

Maehara, K. & Ohkawa, Y., 7 31 2015, : : Bioinformatics. 31, 18, p. 3046-3047 2 p.

研究成果: ジャーナルへの寄稿記事

Nucleic Acid Regulatory Sequences
Transcription Initiation Site
Aggregation
Agglomeration
Transcription

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., 10 1 2019, : : Food Chemistry. 294, p. 486-492 7 p.

研究成果: ジャーナルへの寄稿記事

supercritical fluid chromatography
Supercritical Fluid Chromatography
Beverages
Acrylamide
acrylamides
8 引用 (Scopus)

A high phosphorus diet affects lipid metabolism in rat liver: A DNA microarray analysis

Chun, S., Bamba, T., Suyama, T., Ishijima, T., Fukusaki, E., Abe, K. & Nakai, Y., 5 2016, : : PloS one. 11, 5, e0155386.

研究成果: ジャーナルへの寄稿記事

Microarray Analysis
Microarrays
Nutrition
Oligonucleotide Array Sequence Analysis
Lipid Metabolism
11 引用 (Scopus)

Akt1-mediated Gata3 phosphorylation controls the repression of IFNÎ 3 in memory-type Th2 cells

Hosokawa, H., Tanaka, T., Endo, Y., Kato, M., Shinoda, K., Suzuki, A., Motohashi, S., Matsumoto, M., Nakayama, K. I. & Nakayama, T., 4 7 2016, : : Nature communications. 7, 11289.

研究成果: ジャーナルへの寄稿記事

Th2 Cells
phosphorylation
Phosphorylation
Cytokines
Data storage equipment
25 引用 (Scopus)

A large-scale targeted proteomics assay resource based on an in vitro human proteome

Matsumoto, M., Matsuzaki, F., Oshikawa, K., Goshima, N., Mori, M., Kawamura, Y., Ogawa, K., Fukuda, E., Nakatsumi, H., Natsume, T., Fukui, K., Horimoto, K., Nagashima, T., Funayama, R., Nakayama, K. & Nakayama, K. I., 2 28 2017, : : Nature Methods. 14, 3, p. 251-258 8 p.

研究成果: ジャーナルへの寄稿記事

Proteome
Proteomics
Assays
Proteins
Monitoring
77 引用 (Scopus)

Alteration of intra-pancreatic target-organ specificity by abrogation of Aire in NOD mice

Niki, S., Oshikawa, K., Mouri, Y., Hirota, F., Matsushima, A., Yano, M., Han, H., Bando, Y., Izumi, K., Matsumoto, M., Nakayama, K. I., Kuroda, N. & Matsumoto, M., 5 1 2006, : : Journal of Clinical Investigation. 116, 5, p. 1292-1301 10 p.

研究成果: ジャーナルへの寄稿記事

Organ Specificity
Inbred NOD Mouse
Acinar Cells
Islets of Langerhans
Thymus Gland
3 引用 (Scopus)

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

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

研究成果: ジャーナルへの寄稿記事

Docosahexaenoic Acids
Inflammatory Bowel Diseases
Knockout Mice
Interleukin-10
Lipids
11 引用 (Scopus)

Alterations in Fetal Leydig Cell Gene Expression during Fetal and Adult Development

Miyabayashi, K., Shima, Y., Inoue, M., Sato, T., Baba, T., Ohkawa, Y., Suyama, M. & Morohashi, K. I., 5 1 2017, : : Sexual Development. 11, 2, p. 53-63 11 p.

研究成果: ジャーナルへの寄稿記事

Leydig Cells
Fetal Development
Gene Expression
Testis
Mitochondrial Genes

Alternative mRNA splicing in three venom families underlying a possible production of divergent venom proteins of the habu snake, protobothrops flavoviridis

Ogawa, T., Oda-Ueda, N., Hisata, K., Nakamura, H., Chijiwa, T., Hattori, S., Isomoto, A., Yugeta, H., Yamasaki, S., Fukumaki, Y., Ohno, M., Satoh, N. & Shibata, H., 10 9 2019, : : Toxins. 11, 10, 581.

研究成果: ジャーナルへの寄稿記事

公開
Trimeresurus
Snakes
Venoms
Alternative Splicing
Genes
3 引用 (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., 3 5 2018, : : European Journal of Pharmacology. 822, p. 147-153 7 p.

研究成果: ジャーナルへの寄稿記事

Hyperlipoproteinemia Type II
Lipid Metabolism
Animal Models
Rabbits
Fats

A metabolite of dietary glucosylceramide from pineapples improves the skin barrier function in hairless mice

Kuwata, T., Hashimoto, T., Ohto, N., Kuwahara, H., Lee, J. W., Bamba, T. & Mizuno, M., 3 1 2017, : : Journal of Functional Foods. 30, p. 228-236 9 p.

研究成果: ジャーナルへの寄稿記事

Ananas
Glucosylceramides
Hairless Mouse
pineapples
interleukins

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., 1 1 2018, : : Genes and Genetic Systems. 93, 4, p. 163-167 5 p.

研究成果: ジャーナルへの寄稿記事

Monophenol Monooxygenase
Snakes
Nonsense Codon
Pets
Genes
41 引用 (Scopus)

Analysis of CDMA systems that are characterized by eigenvalue spectrum

Takeda, K., Uda, S. & Kabashima, Y., 2006, : : Europhysics Letters. 76, p. 1193-1199

研究成果: ジャーナルへの寄稿記事

23 引用 (Scopus)

Analysis of long-chain polyprenols using supercritical fluid chromatography and matrix-assisted laser desorption ionization time-of-flight mass spectrometry

Bamba, T., Fukusaki, E., Nakazawa, Y., Sato, H., Ute, K., Kitayama, T. & Kobayashi, A., 5 2 2003, : : Journal of Chromatography A. 995, 1-2, p. 203-207 5 p.

研究成果: ジャーナルへの寄稿記事

Supercritical Fluid Chromatography
Ionization
Mass spectrometry
Desorption
Mass Spectrometry
6 引用 (Scopus)

An approach to peak detection in GC-MS chromatograms and application of KNApSAcK database in prediction of candidate metabolites

Oishi, T., Tanaka, K. I., Hashimoto, T., Shinbo, Y., Jumtee, K., Bamba, T., Fukusaki, E., Suzuki, H., Shibata, D., Takahashi, H., Asahi, H., Kurokawa, K., Nakamura, Y., Hirai, A., Nakamura, K., Altaf-Ul-Amin, M. & Kanaya, S., 2009, : : Plant Biotechnology. 26, 1, p. 167-174 8 p.

研究成果: ジャーナルへの寄稿記事

Metabolomics
Databases
metabolites
metabolomics
prediction

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., 7 2018, : : PloS one. 13, 7, e0200170.

研究成果: ジャーナルへの寄稿記事

Bacterial Artificial Chromosomes
bacterial artificial chromosomes
Chromosomes
baits
Genes
445 引用 (Scopus)

An F-box protein, FWD1, mediates ubiquitin-dependent proteolysis of β-catenin

Kitagawa, M., Hatakeyama, S., Shirane, M., Matsumoto, M., Ishida, N., Hattori, K., Nakamichi, I., Kikuchi, A., Nakayama, K. & Nakayama, K., 5 4 1999, : : EMBO Journal. 18, 9, p. 2401-2410 10 p.

研究成果: ジャーナルへの寄稿記事

F-Box Proteins
Proteolysis
Catenins
Ubiquitin
Ubiquitination
18 引用 (Scopus)
Flavonoids
Methylation
Liquid chromatography
Liquid Chromatography
Isotopes
25 引用 (Scopus)

An optogenetic system for interrogating the temporal dynamics of Akt

Katsura, Y., Kubota, H., Kunida, K., Kanno, A., Kuroda, S. & Ozawa, T., 10 1 2015, : : Scientific reports. 5, 14589.

研究成果: ジャーナルへの寄稿記事

Optogenetics
Light
Muscular Atrophy
Protein-Serine-Threonine Kinases
Lighting
2 引用 (Scopus)

A novel frameshift mutation of DDHD1 in a Japanese patient with autosomal recessive spastic paraplegia

Miura, S., Morikawa, T., Fujioka, R., Kosaka, K., Yamada, K., Hattori, G., Motomura, M., Taniwaki, T. & Shibata, H., 8 1 2016, : : European Journal of Medical Genetics. 59, 8, p. 413-416 4 p.

研究成果: ジャーナルへの寄稿記事

Frameshift Mutation
Mutation
Paraplegia
Genes
Lower Extremity
3 引用 (Scopus)

A novel missense mutation of RYR1 in familial idiopathic hyper CK-emia

Sano, K., Miura, S., Fujiwara, T., Fujioka, R., Yorita, A., Noda, K., Kida, H., Azuma, K., Kaieda, S., Yamamoto, K., Taniwaki, T., Fukumaki, Y. & Shibata, H., 9 15 2015, : : Journal of the Neurological Sciences. 356, 1-2, p. 142-147 6 p., 13864.

研究成果: ジャーナルへの寄稿記事

Missense Mutation
Creatine Kinase
Pedigree
Nucleotides
Genes
3 引用 (Scopus)

A novel missense variant (Gln220Arg) of GNB4 encoding guanine nucleotide-binding protein, subunit beta-4 in a Japanese family with autosomal dominant motor and sensory neuropathy

Miura, S., Morikawa, T., Fujioka, R., Noda, K., Kosaka, K., Taniwaki, T. & Shibata, H., 9 2017, : : European Journal of Medical Genetics. 60, 9, p. 474-478 5 p.

研究成果: ジャーナルへの寄稿記事

Guanine Nucleotides
Protein Subunits
Carrier Proteins
Exome
Lower Extremity