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Shinya Kuroda · SciRah

Researcher profile · Semantic Scholar

Shinya Kuroda

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Shinya Kuroda — researcher profile on SciRah

h-index: 28
Works: 163
Citations: 3,554

Most-cited papers

Trans-Omics: How To Reconstruct Biochemical Networks Across Multiple 'Omic' Layers.
K. Yugi, Hiroyuki Kubota, A. Hatano, Shinya Kuroda
2016Trends in Biotechnology235 citations Open access
Semantic Scholar
ADARB1 catalyzes circadian A-to-I editing and regulates RNA rhythm
Hideki Terajima, H. Yoshitane, Haruka Ozaki, Yutaka Suzuki +4 more
2016Nature Genetics80 citations
Semantic Scholar
Dynamic Metabolomics Reveals that Insulin Primes the Adipocyte for Glucose Metabolism.
J. Krycer, K. Yugi, A. Hirayama, D. Fazakerley +17 more
2017Cell Reports67 citations Open access
Semantic Scholar
Faculty Opinions recommendation of Systems biology. Accurate information transmission through dynamic biochemical signaling networks.
Shinya Kuroda, Katsuyuki Kunida
201766 citations Open access
Semantic Scholar
Fat induces glucose metabolism in non-transformed liver cells and promotes liver tumorigenesis
Lindsay A. Broadfield, J. Duarte, R. Schmieder, D. Broekaert +27 more
2021Cancer Research64 citations Open access
Semantic Scholar
An optogenetic system for interrogating the temporal dynamics of Akt
Yoshihiro Katsura, Hiroyuki Kubota, Katsuyuki Kunida, A. Kanno +2 more
2015Scientific Reports60 citations Open access
Semantic Scholar
Robustness of MEK-ERK Dynamics and Origins of Cell-to-Cell Variability in MAPK Signaling
Sarah Filippi, C. Barnes, P. Kirk, Takamasa Kudo +6 more
2016Cell Reports58 citations Open access
Semantic Scholar
Analysis of cellular signal transduction from an information theoretic approach.
Shinsuke Uda, Shinya Kuroda
2016Seminars in Cell and Developmental Biology39 citations Open access
Semantic Scholar
Trans-omic Analysis Reveals Selective Responses to Induced and Basal Insulin across Signaling, Transcriptional, and Metabolic Networks
Kentaro Kawata, A. Hatano, K. Yugi, Hiroyuki Kubota +16 more
2018iScience36 citations Open access
Semantic Scholar
Trans-omic analysis reveals obesity-associated dysregulation of inter-organ metabolic cycles between the liver and skeletal muscle
Riku Egami, Toshiya Kokaji, A. Hatano, K. Yugi +20 more
2021iScience29 citations Open access
Semantic Scholar
Metabolism as a signal generator across trans-omic networks at distinct time scales
K. Yugi, Shinya Kuroda
201829 citations Open access
Semantic Scholar
Dynamic 13C Flux Analysis Captures the Reorganization of Adipocyte Glucose Metabolism in Response to Insulin
L. Quek, J. Krycer, S. Ohno, K. Yugi +12 more
2020iScience27 citations Open access
Semantic Scholar
Selective control of up-regulated and down-regulated genes by temporal patterns and doses of insulin
T. Sano, Kentaro Kawata, S. Ohno, K. Yugi +11 more
2016Science Signaling26 citations
Semantic Scholar
Transomics analysis reveals allosteric and gene regulation axes for altered hepatic glucose-responsive metabolism in obesity
Toshiya Kokaji, A. Hatano, Yuki Ito, K. Yugi +20 more
2020Science Signaling25 citations
Semantic Scholar
In Vivo Decoding Mechanisms of the Temporal Patterns of Blood Insulin by the Insulin-AKT Pathway in the Liver.
Hiroyuki Kubota, Shinsuke Uda, Fumiko Matsuzaki, Yukiyo Yamauchi +1 more
2018Cell Systems25 citations Open access
Semantic Scholar
Increase in hepatic and decrease in peripheral insulin clearance characterize abnormal temporal patterns of serum insulin in diabetic subjects
Kaoru Ohashi, Masashi Fujii, Shinsuke Uda, Hiroyuki Kubota +4 more
2018npj Systems Biology and Applications24 citations Open access
Semantic Scholar
Glucose Homeostatic Law: Insulin Clearance Predicts the Progression of Glucose Intolerance in Humans
Kaoru Ohashi, H. Komada, Shinsuke Uda, Hiroyuki Kubota +8 more
2015PLoS ONE24 citations Open access
Semantic Scholar
Metabolism-Centric Trans-Omics.
K. Yugi, Shinya Kuroda
2017Cell Systems23 citations Open access
Semantic Scholar
Kinetic Trans-omic Analysis Reveals Key Regulatory Mechanisms for Insulin-Regulated Glucose Metabolism in Adipocytes
S. Ohno, L. Quek, J. Krycer, K. Yugi +7 more
2020iScience20 citations Open access
Semantic Scholar
Trans-omic Analysis Reveals ROS-Dependent Pentose Phosphate Pathway Activation after High-Frequency Electrical Stimulation in C2C12 Myotubes
Daisuke Hoshino, Kentaro Kawata, Katsuyuki Kunida, A. Hatano +11 more
2020iScience19 citations Open access
Semantic Scholar
Single-Cell Information Analysis Reveals That Skeletal Muscles Incorporate Cell-to-Cell Variability as Information Not Noise.
Takumi Wada, Ken-ichi Hironaka, Mitsutaka Wataya, Masashi Fujii +15 more
2020Cell Reports17 citations Open access
Semantic Scholar
Cell-to-cell variability serves as information not noise
Takumi Wada, Ken-ichi Hironaka, Shinya Kuroda
2021Current Opinion in Systems Biology14 citations Open access
Semantic Scholar
Rate-oriented trans-omics: integration of multiple omic data on the basis of reaction kinetics
K. Yugi, S. Ohno, J. Krycer, D. E. James +1 more
2019Current Opinion in Systems Biology14 citations Open access
Semantic Scholar
Logical design of oral glucose ingestion pattern minimizing blood glucose in humans
Masashi Fujii, Yohei Murakami, Y. Karasawa, Yohei Sumitomo +9 more
2018npj Systems Biology and Applications12 citations Open access
Semantic Scholar
An extensive and dynamic trans-omic network illustrating prominent regulatory mechanisms in response to insulin in the liver.
Fumiko Matsuzaki, Shinsuke Uda, Yukiyo Yamauchi, M. Matsumoto +6 more
2021Cell Reports11 citations Open access
Semantic Scholar
Small-Volume Effect Enables Robust, Sensitive, and Efficient Information Transfer in the Spine.
Masashi Fujii, Kaoru Ohashi, Y. Karasawa, Minori Hikichi +1 more
2016Biophysical Journal11 citations Open access
Semantic Scholar
Multi-omics-based label-free metabolic flux inference reveals obesity-associated dysregulatory mechanisms in liver glucose metabolism
Saori Uematsu, S. Ohno, Kaori Tanaka, A. Hatano +10 more
2022iScience10 citations Open access
Semantic Scholar
Trans-omics analysis of insulin action reveals a cell growth subnetwork which co-regulates anabolic processes
A. Terakawa, Yan-Hui Hu, Toshiya Kokaji, K. Yugi +10 more
2022iScience9 citations Open access
Semantic Scholar
DNA hypomethylation characterizes genes encoding tissue-dominant functional proteins in liver and skeletal muscle
Hideki Maehara, Toshiya Kokaji, A. Hatano, Yutaka Suzuki +17 more
2023Scientific Reports8 citations Open access
Semantic Scholar
Quantitative metabolic fluxes regulated by trans-omic networks
S. Ohno, Saori Uematsu, Shinya Kuroda
2022Biochemical Journal8 citations Open access
Semantic Scholar
DI/cle, a Measure Consisting of Insulin Sensitivity, Secretion, and Clearance, Captures Diabetic States
Hikaru Sugimoto, Ken-ichi Hironaka, Tomoko Yamada, K. Sakaguchi +2 more
2023bioRxiv7 citations Open access
Semantic Scholar
In vivo transomic analyses of glucose-responsive metabolism in skeletal muscle reveal core differences between the healthy and obese states
Toshiya Kokaji, M. Eto, A. Hatano, K. Yugi +20 more
2022Scientific Reports7 citations Open access
Semantic Scholar
Multi-omics-based label-free metabolic flux inference reveals obesity-associated dysregulatory mechanisms in liver glucose metabolism
Saori Uematsu, S. Ohno, Kaori Tanaka, A. Hatano +10 more
2021bioRxiv7 citations Open access
Semantic Scholar
Dynamic 13C Flux Analysis Captures the Reorganization of Adipocyte Glucose Metabolism in Response to Insulin
L. Quek, J. Krycer, S. Ohno, K. Yugi +12 more
2020iScience7 citations Open access
Semantic Scholar
Monitoring and mathematical modeling of mitochondrial ATP in myotubes at single-cell level reveals two distinct population with different kinetics
Naoki Matsuda, Ken-ichi Hironaka, Masashi Fujii, Takumi Wada +10 more
2020Quantitative Biology7 citations Open access
Semantic Scholar
System identification of signaling dependent gene expression with different time-scale data
Takaho Tsuchiya, Masashi Fujii, Naoki Matsuda, Katsuyuki Kunida +4 more
2017PLoS Comput. Biol.7 citations Open access
Semantic Scholar
Trans-omic analysis reveals opposite metabolic dysregulation between feeding and fasting in liver associated with obesity
Yunfan Bai, Keigo Morita, Toshiya Kokaji, A. Hatano +16 more
2023bioRxiv6 citations Open access
Semantic Scholar
Whole‐body clearing of beetles by successive treatment with hydrogen peroxide and CUBIC reagents
Monto Kuroda, Shinya Kuroda
2020Entomological Science6 citations Open access
Semantic Scholar
Optogenetic decoding of Akt2-regulated metabolic signaling pathways in skeletal muscle cells using transomics analysis
Genki Kawamura, Toshiya Kokaji, Kentaro Kawata, Yuka Sekine +6 more
2023Science Signaling5 citations
Semantic Scholar
Features extracted using tensor decomposition reflect the biological features of the temporal patterns of human blood multimodal metabolome
Suguru Fujita, Y. Karasawa, Ken-ichi Hironaka, Y-h. Taguchi +1 more
2022bioRxiv5 citations Open access
Semantic Scholar
Four features of temporal patterns characterize similarity among individuals and molecules by glucose ingestion in humans
Suguru Fujita, Y. Karasawa, Masashi Fujii, Ken-ichi Hironaka +7 more
2022npj Systems Biology and Applications4 citations Open access
Semantic Scholar
NMDAR-Mediated Ca2+ Increase Shows Robust Information Transfer in Dendritic Spines.
Takehiro Tottori, Masashi Fujii, Shinya Kuroda
2019Biophysical Journal4 citations Open access
Semantic Scholar
Automatic Quantitative Segmentation of Myotubes Reveals Single-cell Dynamics of S6 Kinase Activation.
Haruki Inoue, Katsuyuki Kunida, Naoki Matsuda, Daisuke Hoshino +4 more
2018Cell Structure and Function4 citations Open access
Semantic Scholar
In Vivo Decoding Mechanisms of the Temporal Patterns of Blood Insulin by the Insulin-AKT Pathway in the Liver.
Hiroyuki Kubota, Shinsuke Uda, Fumiko Matsuzaki, Yukiyo Yamauchi +1 more
2018Cell Systems4 citations Open access
Semantic Scholar
Reconstruction of global regulatory network from signaling to cellular functions using phosphoproteomic data
Kentaro Kawata, K. Yugi, A. Hatano, Toshiya Kokaji +7 more
2018Genes to Cells4 citations Open access
Semantic Scholar
Robustness against additional noise in cellular information transmission.
Takehiro Tottori, Masashi Fujii, Shinya Kuroda
2019Physical Review E3 citations Open access
Semantic Scholar
ANALYSIS ON THE COMMUNICATION, ASSISTANCE AND INHERITANCE EFFECTED BY SPATIAL STRUCTURES OF MULTI-HOUSEHOLD FAMILIES
Fei-Chun Cheng, H. Yamanaka, Shinya Kuroda, K. Ôno
20182 citations Open access
Semantic Scholar
Faculty of 1000 evaluation for A Map of Protein-Metabolite Interactions Reveals Principles of Chemical Communication.
Shinya Kuroda, A. Hatano
20182 citations
Semantic Scholar
Model-based control of the temporal patterns of intracellular signaling in silico
Yohei Murakami, M. Koyama, S. Oba, Shinya Kuroda +1 more
2017Biophysics and Physicobiology2 citations Open access
Semantic Scholar
Laguerre Filter Analysis with Partial Least Square Regression Reveals a Priming Effect of ERK and CREB on c-FOS Induction
Takamasa Kudo, Shinsuke Uda, Takaho Tsuchiya, Takumi Wada +4 more
2016PLoS ONE2 citations Open access
Semantic Scholar

Frequent co-authors

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Hiroyuki Kubota×20
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Hiroyuki Kubota — researcher profile on SciRah
Masashi Fujii×19
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Masashi Fujii — researcher profile on SciRah
K. Yugi×17
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K. Yugi — researcher profile on SciRah
Shinsuke Uda×16
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Shinsuke Uda — researcher profile on SciRah

×14

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T. Soga — researcher profile on SciRah

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A. Hatano — researcher profile on SciRah

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S. Ohno — researcher profile on SciRah

A. Hirayama×12

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A. Hirayama — researcher profile on SciRah

Ken-ichi Hironaka×12

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Ken-ichi Hironaka — researcher profile on SciRah

Toshiya Kokaji×11

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Toshiya Kokaji — researcher profile on SciRah

Katsuyuki Kunida×9

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Katsuyuki Kunida — researcher profile on SciRah

Yutaka Suzuki×7

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Yutaka Suzuki — researcher profile on SciRah