Hiroyuki Kubota

发表

Trans-omic Analysis Reveals Selective Responses to Induced and Basal Insulin across Signaling, Transcriptional, and Metabolic Networks

Yutaka Suzuki, K. Nakayama, Shinya Kuroda, 2018, iScience.

Trans-omic analysis reveals fed and fasting insulin signal across phosphoproteome, transcriptome, and metabolome

Yutaka Suzuki, K. Nakayama, Shinya Kuroda, 2017, bioRxiv.

Transomics analysis reveals allosteric and gene regulation axes for altered hepatic glucose-responsive metabolism in obesity

Yutaka Suzuki, K. Nakayama, Shinya Kuroda, 2020, Science Signaling.

Trans-omic analysis reveals allosteric and gene regulation-axes for altered glucose-responsive liver metabolism associated with obesity

Yutaka Suzuki, K. Nakayama, Shinya Kuroda, 2019, bioRxiv.

Temporal coding of insulin action through multiplexing of the AKT pathway.

Shinya Kuroda, Yu-ichi Ozaki, Hiroyuki Kubota, 2012, Molecular cell.

The selective control of glycolysis, gluconeogenesis and glycogenesis by temporal insulin patterns

Shinya Kuroda, T. Soga, K. Yugi, 2013 .

Robustness and Compensation of Information Transmission of Signaling Pathways

Shinya Kuroda, Yu-ichi Ozaki, Hiroyuki Kubota, 2013, Science.

Decoupling of Receptor and Downstream Signals in the Akt Pathway by Its Low-Pass Filter Characteristics

Hiroyuki Kubota, Shinsuke Uda, Yu Toyoshima, 2010, Science Signaling.

Single-Cell Information Analysis Reveals That Skeletal Muscles Incorporate Cell-to-Cell Variability as Information Not Noise.

N. Fujii, Shinya Kuroda, Hiroyuki Kubota, 2020, Cell reports.

Logical design of oral glucose ingestion pattern minimizing blood glucose in humans

Masanori Koyama, S. Ishii, Shinya Kuroda, 2018, npj Systems Biology and Applications.

Increase in hepatic and decrease in peripheral insulin clearance characterize abnormal temporal patterns of serum insulin in diabetic subjects

Shinya Kuroda, Hiroyuki Kubota, Masashi Fujii, 2018, npj Systems Biology and Applications.

System Identification Using Compressed Sensing Reveals Signaling-Decoding System by Gene Expression

Shinya Kuroda, Hiroyuki Kubota, Masashi Fujii, 2017, bioRxiv.

Logical design of oral glucose ingestion pattern minimizing blood glucose in humans

Masanori Koyama, S. Ishii, Shinya Kuroda, 2019, npj Systems Biology and Applications.

In Vivo Decoding Mechanisms of the Temporal Patterns of Blood Insulin by the Insulin-AKT Pathway in the Liver.

Shinya Kuroda, Hiroyuki Kubota, Shinsuke Uda, 2018, Cell systems.

Trans-omics Impact of Thymoproteasome in Cortical Thymic Epithelial Cells

T. Katagiri, Keiji Tanaka, V. Hoffmann, 2019, Cell reports.

System identification of signaling dependent gene expression with different time-scale data

Naoki Matsuda, Katsumi Konishi, Hiroyuki Kubota, 2017, PLoS Comput. Biol..

Temporal Coding of Insulin Signaling

Shinya Kuroda, Hiroyuki Kubota, 2015 .

The Extraction of Simple Relationships in Growth Factor-Specific Multiple-Input and Multiple-Output Systems in Cell-Fate Decisions by Backward Elimination PLS Regression

Hiroyuki Kubota, Shinsuke Uda, Takamasa Kudo, 2013, PloS one.

A Quantitative Image Cytometry Technique for Time Series or Population Analyses of Signaling Networks

Hiroyuki Kubota, Shinsuke Uda, Shinya Kuroda, 2010, PloS one.

Timing-Dependent Actions of NGF Required for Cell Differentiation

Hiroyuki Kubota, Shinsuke Uda, Shinya Kuroda, 2010, PloS one.

Multi-omics-based label-free metabolic flux inference reveals obesity-associated dysregulatory mechanisms in liver glucose metabolism

Yutaka Suzuki, K. Nakayama, Shinya Kuroda, 2021, bioRxiv.

In vivo transomic analyses of glucose-responsive metabolism in skeletal muscle reveal core differences between the healthy and obese states

Shinya Kuroda, T. Soga, Yunfan Bai, 2022, Scientific Reports.

An extensive and dynamic trans-omic network illustrating prominent regulatory mechanisms in response to insulin in the liver.

K. Nakayama, Shinya Kuroda, Y. Ohkawa, 2021, Cell reports.

Trans-Omics: How To Reconstruct Biochemical Networks Across Multiple 'Omic' Layers.

Hiroyuki Kubota, Katsuyuki Yugi, Shinya Kuroda, 2016, Trends in biotechnology.

Sparse Gaussian graphical model with missing values

Hiroyuki Kubota, Shinsuke Uda, Hiroyuki Kubota, 2017, 2017 21st Conference of Open Innovations Association (FRUCT).

Reconstruction of insulin signal flow from phosphoproteome and metabolome data.

K. Nakayama, Shinya Kuroda, K. Ikeda, 2014, Cell reports.

An optogenetic system for interrogating the temporal dynamics of Akt

Shinya Kuroda, Hiroyuki Kubota, T. Ozawa, 2015, Scientific Reports.

Selective control of up-regulated and down-regulated genes by temporal patterns and doses of insulin

Yutaka Suzuki, Shinya Kuroda, Miharu Sato, 2016, Science Signaling.

Four features of temporal patterns characterize similarity among individuals and molecules by glucose ingestion in humans

Shinya Kuroda, T. Soga, Hiroyuki Kubota, 2022, NPJ systems biology and applications.

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

K. Nakayama, Shinya Kuroda, Kentaro Kawata, 2018, Genes to cells : devoted to molecular & cellular mechanisms.

Trans-omic analysis reveals obesity-associated dysregulation of inter-organ metabolic cycles between the liver and skeletal muscle

Yutaka Suzuki, K. Nakayama, Shinya Kuroda, 2021, iScience.

Omics-based label-free metabolic flux inference reveals dysregulation of glucose metabolism in liver associated with obesity

Yutaka Suzuki, K. Nakayama, Shinya Kuroda, 2021 .

Glucose Homeostatic Law: Insulin Clearance Predicts the Progression of Glucose Intolerance in Humans

Hiroyuki Kubota, Shinsuke Uda, Yu Toyoshima, 2015, PloS one.

Four features of temporal patterns characterize similarity among individuals and molecules by glucose ingestion in humans

Shinya Kuroda, T. Soga, Hiroyuki Kubota, 2022, npj Systems Biology and Applications.

Increase in hepatic and decrease in peripheral insulin clearance characterize abnormal temporal patterns of serum insulin in diabetic subjects

Shinya Kuroda, Hiroyuki Kubota, Masashi Fujii, 2018, npj Systems Biology and Applications.

Comparison of hepatic responses to glucose perturbation between healthy and obese mice based on the edge type of network structures

Shinya Kuroda, T. Soga, Hiroyuki Kubota, 2023, Scientific Reports.

Bidirectional changes of hepatic and peripheral insulin clearance characterize abnormal temporal patterns of serum insulin concentration in diabetic subjects

Shinya Kuroda, Hiroyuki Kubota, Masashi Fujii, 2017, bioRxiv.

The selective control of glycolysis, gluconeogenesis and glycogenesis by temporal insulin patterns

Shinya Kuroda, K. Yugi, Hiroyuki Kubota, 2013, Molecular systems biology.

Temporal coding of insulin action through multiplexing of the AKT pathway.

Shinya Kuroda, Yu-ichi Ozaki, Hiroyuki Kubota, 2012, Molecular cell.

DNA hypomethylation characterizes genes encoding tissue-dominant functional proteins in liver and skeletal muscle

Shinya Kuroda, Atsushi Hatano, Hiroyuki Kubota, 2023, Scientific reports.

Multi-omics-based label-free metabolic flux inference reveals obesity-associated dysregulatory mechanisms in liver glucose metabolism

K. Nakayama, Shinya Kuroda, T. Soga, 2022, iScience.

System Identification Using Compressed Sensing Reveals Signaling-Decoding System by Gene Expression

Shinya Kuroda, Hiroyuki Kubota, Masashi Fujii, 2017, bioRxiv.

Single-cell information analysis reveals small intra- and large intercellular variations increase cellular information capacity

N. Fujii, Shinya Kuroda, Hiroyuki Kubota, 2019, bioRxiv.