最近発表した研究の概要についてはこちらから
博士論文：
- 田邊 章洋：Numerical study for granular splash and force propagation caused by single granular impact onto granular bed (2018 広島大学大学院理学研究科)
- Prabhat Shankar：Adaptation and Gene Regulatory Networks: Properties and Structural Inference (2015 広島大学大学院理学研究科)
- 新屋 啓文：Theoretical study for morphodynamics of sand dunes and snow avalanches regulated by aeolian process in surface layer (2014 広島大学大学院理学研究科)
- 難波 利典：バクテリアの走化性精度を決めるシグナル伝達形の特性 (2013 広島大学大学院理学研究科)
- 藤井 雅史：様々な混雑を含む粒子群の挙動の解析と普遍性の解明 (2013 広島大学大学院理学研究科)
- 河合 良介：神経応答において非一様ノイズが果たす効果の理論的研究 (2012 広島大学大学院理学研究科)
出版物（2023）：
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Awazu, A., Takemoto, D., Watanabe, K., & Sakamoto, N.:
Possibilities of skin coat color-dependent risks and risk factors of squamous cell carcinoma and deafness of domestic cats inferred via RNA-seq data.
Genes to Cells 28. 893-905 (2023). https://doi.org/10.1111/gtc.13076
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Watanabe, K., Fujita, M., Okamoto, K., Yoshioka, H., Moriwaki, M., Tagashira, H., Awazu, A., Yamamoto, T., & Sakamoto, N.:
The crucial role of CTCF in mitotic progression during early development of sea urchin.
Development, Growth & Differentiation (2023) 65(7), 395-407. https://doi.org/10.1111/dgd.12875
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S. Wakao, N. Saitoh, and A. Awazu:
Mathematical model of structural changes in nuclear speckle
Biophysics and Physicobiology (2023) 20, e200020
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T. Nakanishi and A. Awazu:
Formation of Small-World Network Containing Module Networks in Globally and Locally Coupled Map System with Changes in Global Connection with Time Delay Effects
J. Phys. Soc. Jpn. 92, 034801.1-9 (2023)
出版物（2022）：
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T. Kameda, A. Awazu, Y. Togashi:
Molecular dynamics analysis of biomolecular systems including nucleic acids.
Biophysics and Physicobiology 19, e190027 (2022)
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M. Shirai, T. Nara, H. Takahashi, K. Takayama, Y. Chen, Y. Hirose, M. Fujii, A. Awazu, N. Shimoda, Y. Kikuchi:
Identification of aberrant transcription termination at specific gene loci with DNA hypomethylated transcription termination sites caused by DNA methyltransferase deficiency.
Genes Genet. Syst. 21, 00092 (2022)
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T. Komoto, M. Fujii, A. Awazu:
Epigenetic-structural changes in X chromosomes promote Xic pairing during early differentiation of mouse embryonic stem cells.
Biophysics and Physicobiology 19, e190018 (2022)
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O. Yamanaka, Y. Oki, Y. Imamura, Y. Tamura, M. Shiraishi*, S. Izumi, A. Awazu, H. Nishimori:
Ants Alter Collective Behavior After Feeding and Generate Shortcut Paths on a Two-Dimensional Foraging Area.
Front. Phys. 10, 896717 (2022)
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S. Nakahata, T. Komoto, M. Fujii, A. Awazu:
Mathematical model of chromosomal dynamics during DNA double strand break repair in budding yeast.
Biophysics and Physicobiology 19, e190012 (2022)
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K. Watanabe, Y. Yasui, Y. Kurose, M. Fujii, T. Yamamoto, N. Sakamoto, A. Awazu:
Partial exogastrulation due to apical-basal polarity of F-actin distribution disruption in sea urchin embryo by omeprazole.
Genes to Cells 1-17 (2022) doi/epdf/10.1111/gtc.12934
プレスリリース
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H. Matsumori, K. Watanabe, H. Tachiwana, T. Fujita, Y. Ito, M. Tokunaga, K. Sakata-Sogawa, H. Osakada, T. Haraguchi, A. Awazu, H. Ochiai, Y. Sakata, K. Ochiai, T. Toki, E. Ito, P.G. Goldberg, K.Tokunaga, M. Nakao, N. Saitoh:
Ribosomal protein L5 facilitates rDNA-bundled condensate and nucleolar assembly
Life Sci. Alli. 5, e202101045 (2022)
（粟津は数理モデル構築とシミュレーションを行いました。）
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T. Nakanishi, M. Fujii, and A. Awazu:
Self-Organization of Diverse Directional Hierarchical Networks in Simple Coupled Maps with Connection Changes
J. Phys. Soc. Jpn. 91, 023801.1-4 (2022)
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S. Fujita, Y. Karasawa, M. Fujii, K. Hironaka, S. Uda, H. Kubota, H. Inoue, Y. Sumitomo, A. Hirayama, T. Soga, and S. Kuroda:
Four features of temporal patterns characterize similarity among individuals and molecules by glucose ingestion in humans
npj Syst. Biol. Appl. 8, 1-16 (2022)
出版物（2021）：
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R. Egami, T. Kokaji, A. Hatano, K. Yugi, M. Eto, K. Morita, S. Ohno, M. Fujii, K. Hironaka, S. Uematsu, A. Terakawa, Y. Bai, Y. Pan, T. Tsuchiya, H. Ozaki, H. Inoue, S. Uda, H. Kubota, Y. Suzuki, M. Matsumoto, K. I. Nakayama, A. Hirayama, T. Soga, and S. Kuroda:
Trans-omic analysis reveals obesity-associated dysregulation of inter-organ metabolic cycles between the liver and skeletal muscle
iScience (2021) Vol.24, 102217
- T. Kameda, M. M. Suzuki, A. Awazu, Y. Togashi:
Structural dynamics of DNA depending on methylation pattern
Phys. Rev. E 103, 012404 (2021).
出版物（2020）：
- Ohara, A., Fujii, M., & Awazu, A.:
Spontaneous Organizations of Diverse Network Structures in Coupled Logistic Maps with a Delayed Connection Change.
J. Phys. Soc. Jpn, 89, 114801 (2020).
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T. Kokaji, A. Hatano, Y. Ito, K. Yugi, M. Eto, K. Morita, S. Ohno, M. Fujii, K. Hironaka, R. Egami, A. Terakawa, T. Tsuchiya, H. Ozaki, H. Inoue, S. Uda, H. Kubota, Y. Suzuki, K. Ikeda, M. Arita, M. Matsumoto, K. I. Nakayama, A. Hirayama, T. Soga, S. Kuroda:
Transomics analysis reveals allosteric and gene regulation axes for altered hepatic glucose-responsive metabolism in obesity
Science Signaling (2020) Vol.13, eaaz1236
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T. Wada, K. Hironaka, M. Wataya, M. Fujii, M. Eto, S. Uda, D. Hoshino, K. Kunida, H. Inoue, H. Kubota, T. Takizawa, Y. Karasawa, H. Nakatomi, N. Saito, H. Hamaguchi, Y. Furuichi, Y. Manabe, N. L. Fujii, S. Kuroda:
Single-cell information analysis reveals that skeletal muscles incorporate cell-to-cell variability as information not noise
Cell Reports (2020) Vol. 32, 108051
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D. Hoshino, K. Kawata, K. Kunida, A. Hatano, K. Yugi, T. Wada, M. Fujii, T. Sano, Y. Ito, Y. Furuichi, Y. Manabe, Y. Suzuki, N. L. Fujii, T. Soga, S. Kuroda:
Trans-omic analysis reveals Ros-dependent pentose phosphate pathway activation after high-frequency electrical stimulation in C2C12 myotubes
iScience (2020) Vol. 23, 101558
- N. Matsuda, K. Hironaka, M. Fujii, T. Wada, K. Kunida, H. Inoue, M. Eto, D. Hoshino, Y. Furuichi, Y. Manabe, N. L. Fujii, H. Noji, H. Imamura, S. Kuroda:
Monitoring and mathematical modeling of mitochondrial ATP in myotubes at single-cell level reveals two distinct population with different kinetics
Quantitative Biology (2020)
- D. Aoki#, A. Awazu#, M. Fujii#, J. Uewaki#, M, Hashimoto, N. Tochio, T. Umehara, S. Tate (#:Equal contribution):
Ultrasensitive Change in Nucleosome Binding by Multiple Phosphorylations to the Intrinsically Disordered Region of the Histone Chaperone FACT
J. Mol. Biol. 432 (2020) 4637-4657, https://doi.org/
10.1016/j.jmb.2020.06.011.
- 粟津暁紀，松島佑樹，廣瀬湧大，坂本尚昭:
裸のDNA領域によるゲノム区画化
月刊細胞 52 (2020) 45-49.
- Y. Kaneshige, F. Hayashi, K. Morigaki, Y. Tanimoto, H. Yamashita, M. Fujii, A. Awazu:
Affinity of rhodopsin to raft enables the aligned oligomer formation from dimers: Coarse-grained molecular dynamics simulation of disk membranes
PLoS ONE 15 (2020) e0226123.
プレスリリース
* 2020/2/29 中国新聞で紹介されました。
- Niiya, H., Awazu, A., & Nishimori, H.:
Simple Particle Model for Low-Density Granular Flow Interacting with Ambient Fluid.
Geosciences, 10 (2020) 69.
出版物（2019）：
- T. Kameda, A. Awazu, Y. Togashi:
Histone Tail Dynamics in Partially Disassembled Nucleosomes During Chromatin Remodeling
Front. Mol. Biosci. (2019) 6, 133.
- T. Tottori, M. Fujii, S. Kuroda:
Robustness against additional noise in cellular information transmission
Physical Recew E (2019) 100, 042403.
- M. Fujii, Y. Murakami, Y. Karasawa, Y. Sumitomo, S. Fujita, M. Koyama, S. Uda, H. Kubota, H. Inoue, K. Konishi, S. Oba, S. Ishii, S. Kuroda:
Logical design of oral glucose ingestion pattern minimizing blood glucose in humans
npj Systems Biology and Applications (2019) 5, 31.
- D. Liu, A. Awazu, T. Sakuma, T. Yamamoto, N. Sakamoto:
Establishment of knockout adult sea urchins by using a CRISPR-Cas9 system
Development Growrh and Differentiation (2019) 61, 378-388
プレスリリース
- O. Yamanaka, M. Shiraishi, A. Awazu, H. Nishimori:
Verification of mathematical models of response threshold through statistical characterisation of the foraging activity in ant societies
Scientific Reports 9, (2019) 8845.
- T. Tottori, M. Fujii, S. Kuroda,
NMDAR-mediated Ca2+ increase shows robust information transfer in dendritic spines
Biophysical Journal (2019) 116(9), 1748-1758.
- 粟津暁紀，永野惇:
遺伝子発現の確率性：ばらつきの特徴・背景・機能との関係
植物科学最前線 10:3 (2019) (BSJ-Review 10:3 (2019))
- Y. Matsushima, N. Sakamoto, A. Awazu:
Insulator Activities of Nucleosome-Excluding DNA Sequences Without Bound Chromatin Looping Proteins.
J. Phys. Chem. B 123 (2019) 5, 1035-1043. DOI: 10.1021/acs.jpcb.8b10518
- K. Takao, K. Takamiya, D-Q. Ding, T. Haraguchi, Y. Hiraoka, H. Nishimori, A. Awazu:
Torsional turning motion of chromosomes as an accelerating force to align homologous chromosomes during meiosis.
J. Phys. Soc. Jpn. (2019) 88, 023801
- M. Shiraishi, R. Takeuchi, H. Nakaghawa, S-I. Nishimura, A. Awazu, H. Nishimori:
Diverse stochasticity leads a colony of ants to optimal foraging
J. Theo. Bio. 465 (2019) 7-16
出版物（2018）：
- A. Awazu:
Formation by Small Numbers: Minority Biological Scenarios in Correlations Among the Structure, Dynamics, and Function of Nuclear Chromosomes.
Minorities and Small Numbers from Molecules to Organisms in Biology (Springer 2018)
- L. Shi, K. Fujioka, N. Sakurai-Ozato, W. Fukumoto, K. Satoh, J. Sun, A. Awazu, et al.:
Chromosomal Abnormalities in Human Lymphocytes after Computed Tomography Scan Procedure
Radiation Research (2018), https://doi.org/10.1667/RR14976.1.
- O. Yamanaka, R. Takeuchi:
UMATracker: an intuitive image-based tracking platform
Journal of Experimental Biology 2018 : jeb.182469 doi: 10.1242/jeb.182469
- A. Awazu, T. Tanabe, M. Kamitani, A. Tezuka, A. J. Nagano :
Broad distribution spectrum from Gaussian to power law appears in stochastic variations in RNA-seq data.
Scientific Reports 8, (2018) 8339.
出版物（2017）：
- M. Matsushita, H. Ochiai, K. T. Suzuki, S. Hayashi, T. Yamamoto, A. Awazu, N. Sakamoto :
Dynamic changes in the interchromosomal interaction of early histone gene loci during early development of sea urchin.
J. Cell Sci (2017) 130, 4097-4107.
最近の研究成果の紹介記事です。（プレスリリース 2017, 12月）
- T. Tanabe, T. Shimada, N. Ito, and H. Nishimori:
Splash detail due to a single grain incident on a granular bed.
Physical Review E, 022906.
- T. Kameda, S. Isami, Y. Togashi, H. Nishimori, N. Sakamoto and A. Awazu:
The 1-Particle-per-k-Nucleotides (1PkN) Elastic Network Model of DNA Dynamics with Sequence-Dependent Geometry
Frontier in Physiology. (2017) DOI: 10.3389/fphys.2017.00103.
- A. Awazu:
Prediction of nucleosome positioning by the incorporation of frequencies and distributions of three different nucleotide segment lengths into a general pseudo k-tuple nucleotide composition
Bioinfomatics (2017) 33, 42-48.
-> See also (predictors)
- S. Seirin Lee, S. Tashiro, A. Awazu, R. Kobayashi:
A new application of the phase-field method for understanding the mechanisms of nuclear architecture reorganization
J. Math. Biol. (2017) 74, 333354.
出版物 2016
- T. Ogawa, E. Shoji, N. J. Suematsu, H. Nishimori, S. Izumi, A. Awazu, M. Iima :
The Flux of Euglena gracilis Cells Depends on the Gradient of Light Intensity
PLOS ONE. (2016) DOI:http://dx.doi.org/10.1371/journal.pone.0168114
- H. Kawazoe, Y. Nakano, ..., A. Awazu, ... :
Risk stratification of ventricular fibrillation in Brugada syndrome using noninvasive scoring methods
Heart Rhythm (2016) 13, 1947-1954.
- A. Takemoto, T. Miyamoto, F. Simono, N. Kurogi, M. Shirae-Kurabayashi, A. Awazu, K. T. Suzuki, T. Yamamoto, N. Sakamoto:
Cilia play a role in breaking left徨ight symmetry of the sea urchin embryo
Genes to Cells (2016) 12362
- Kazunori Takamiya, Keisuke Yamamoto, Shuhei Isami, Hiraku Nishimori, and Akinori Awazu:
Excluded volume effect enhances the homology pairing of model chromosomes
Nonlinear Theory and Its Applications, IEICE 7, (2016) 66-75.
出版物（2015）：
- Shuhei Isami, Naoaki Sakamoto, Hiraku Nishimori, and Akinori Awazu:
Simple Elastic Network Models for Exhaustive Analysis of Long Double-Stranded DNA Dynamics with Sequence Geometry Dependence
PLoS One 10, (2015) e0143760
- Koudai Hirao, Atsushi J. Nagano, and Akinori Awazu:
Noise-plasticity correlations of gene expression in the multicellular organism Arabidopsis thaliana
J. Theo. Bio. 387, (2015) 13-22
- Akinori Awazu:
Nuclear dynamical deformation-induced hetero- and euchromatin positioning
Phys. Rev. E 92, (2015) 032709
- Nobuhiko J. Suematsu, Kurina Tateno, Satoshi Nakata, Hiraku Nishimori:
Synchronized Intermittent Motion Induced by the Interactionbetween Camphor Disks
J. Phys. Soc. Jpn. 84, (2015) 034802
- Yusuke Ogihara, Osamu Yamanaka, Toshiaki Akino, Shunsuke Izumi, Akinori Awazu and Hiraku Nishimori(分担執筆):
Mathematical Approaches to Biological Systems Networks, Oscillations, and Collective Motions
Eds.T.Ohira, et al., Springer(2015)
出版物（2014）：
- 西森拓(分担執筆):
キリンの斑論争と寺田寅彦, 岩波科学ライブラリー(2014/1)
- 粟津 暁紀：
「生体高分子の排除体積と混み合いが生化学反応に及ぼす影響」, 生体の科学・特集「生命動態システム科学」65, 448-449 (2014) [招待総説]
- 坂本 尚昭, 粟津 暁紀：
「インスレーターとクロマチン構造」, 生体の科学・特集「生命動態システム科学」65, 412-413 (2014) [招待総説]
- A. Awazu:
Segregation and phase inversion of strongly and weakly fluctuating Brownian particle mixtures and a chain of such particle mixtures in spherical containers
Phys. Rev. E 90 (2014) 042308
- E. Shoji, H. Nishimori, A. Awazu, S. Izumi, and M. Iima:
Localized Bioconvection Patterns and Their Initial State Dependency in Euglena gracilis Suspensions in an Annular Container
J. Phys. Soc. Jpn. 83 (2014) 043001 1-4
- T. Tokuyama, Y. Nakano, A. Awazu, et al.:
Deterioration of the circadian variation of heart rate variability in Brugada syndrome may contribute to the pathogenesis of ventricular fibrillation
Journal of Cardiology 64 (2014) 133-138
出版物（2013）：
- 西森拓(分担執筆):
現象数理学入門, 東大出版会(2013)
- 西森拓(分担執筆):
応用数理学ハンドブック, 朝倉書店(2013)
- 西森拓(分担執筆):
行動生物学辞典, 東京化学同人(2013/11)
- Y S. Ikura, E. Heisler, A. Awazu, H. Nishimori, and S. Nakata:
Collective motion of symmetric camphor papers in an annular water channel
Phys. Rev. E 88, (2013) 012911 1-5
- L. Guignier, H. Niiya, H. Nishimori, D. Lague, and A. Valance:
Sand dunes as migrating strings
Phys. Rev. E 87, (2013) 052206
- S. Nakata, M. Hata, Y. S. Ikura, E. Heisler, A. Awazu, H. Kitahata, and H. Nishimori：
Motion with Memory of a Self-Propelled Object
J. Phys. Chem. C 117, (2013) 24490-24495
- H. Niiya, A. Awazu, H. Nishimori:
Stability of transverse dunes against perturbations: A theoretical study using dune skeleton model
AEOLIAN RESEARCH 9, (2013) 63-68
- M. Fujii, H. Nishimor, and A. Awazu：
Influences of Excluded Volume of Molecules on Signaling Processes on Biomembrane
PLoS One 8 (2013) e62218
出版物（2012）：
- E. Heisler, N. J. Suematsu, A. Awazu, and H. Nishimor：
Collective motion and phase transitions of symmetric camphor boats
J. Phys. Soc. Jpn. 81 (2012) 074605
- E. Heisler, N. J. Suematsu, A. Awazu, and H. Nishimor：
Swarming of self-propelled camphor boats
Phys. Rev. E 85, (2012) 055201(R) 1-4
- M. Fujii, A. Awazu, and H. Nishimori:
Segregation pattern reorientation of granular mixture on horizontally oscillating tray
Phys. Rev. E 85, (2012) 041304 1-4
- SI. Nishimura, M. Ueda, and M. Sasai:
Non-Brownian dynamics and strategy of amoeboid cell locomotion
Phys. Rev. E (in press)
- H. Niiya, A. Awazu, H. Nishimori:
Bifurcation Analysis of the Transition of Dune Shapes Under a Unidirectional
Wind
Phys. Rev. Lett. 108, (2012) 158001 1-4
出版物（2011）：
- R. Kawai, A. Awazu, and H. Nishimori:
Effective stochastic resonance of coupled excitable elements under noise of unequal amplitude
Phys. Rev. E 84 (2011) 021135-1-5
- N. J. Suematsu, A. Awazu, S. Izumi, S. Nakata, H. Nishimori:
Localized bioconvection of Euglena caused by phototaxis in the lateral direction
J. Phys. Soc. Jpn. 80 (2011) 064003-1-8
- K.Katsuki., M.Kikuchi, H,Nishimori, N.Endo, and K.Taniguchi:
Cellular model for sand dunes with saltation, avalanche and strong erosion:
collisional simulation of barhans,
Earth Surface Processes and Landforms, 36 (2011) 373
出版物（2010）：
- R. Kawai, S. Torigoe, K. Yoshida, A. Awazu, and H. Nishimori:
Effective stochastic resonance under noise of heterogeneous amplitude
Phys. Rev. E 82 (2010) 051122
- M. Fujii, A. Awazu, and H. Nishimori:
Saddle-Node Bifurcation to Jammed State for Quasi-One-Dimensional Counter Chemotactic Flow
Phys. Rev. E 82 (2010) 015102(R)
- H. Niiya, A. Awazu, H. Nishimori:
Three-Dimensional Dune Skeleton Model as a Coupled Dynamical System of Two-Dimensional Cross Sections
J. Phys. Soc. Jpn. (2010) 063002
- N. J. Suematsu, S. Nakata, A. Awazu, and H. Nishimori:
Collective behavior of inanimate boats
Phys. Rev. E 81 (2010) 056210
- A. Awazu and K. Kaneko:
Discreteness-Induced Slow Relaxation in Reversible Catalytic Reaction Networks
Phys. Rev. E 81 (2010) 051920
- 勝木厚成, 西森拓:
砂丘のダイナミクス
日本物理学会誌, 65 (2010)953
- 西森拓:
行動・進化の数理生物学, 日本数理生物学会編 シリーズ数理生物学要論3巻
共立出版(2010) (分担執筆 第５章 アリの採餌ダイナミクスと数理モデル)
出版物（2009）：
出版物（2008 以前）： 作成中
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