Publication list

Books (in Japanese)

• 池祐一, E.G. エスカラ, 大林一平, 鍛冶静雄. 位相的データ解析から構造発見へ - パーシステントホモロジーを中心に. サイエンス社 (2023) https://www.saiensu.co.jp/search/?isbn=978-4-7819-1580-7&y=2023

• 伊藤聡 編・ 吉田亮・劉暢・Stephen Wu・野口瑶・山田寛尚・赤木和人・大林一平・山下智樹 著. マテリアルズインフォマティクス. 共立出版 (2022) https://www.kyoritsu-pub.co.jp/book/b10013510.html

Papers

• R. Nagaoka, K. Masuzawa, M. Taniwaki, A. L. Foggiatto, T. Yamazaki, I. Obayashi, Y. Hiraoka, C. Mitsumata, M. Kotsugi. Quantification of the coercivity factor in soft magnetic materials at different frequencies using topological data analysis. IEEE Transactions on Magnetics, online first article, 2024. https://doi.org/10.1109/TMAG.2024.3408002

• A. L. Foggiatto, R. Nagaoka, M. Taniwaki, T. Yamazaki, T. Ogasawara, I. Obayashi, Y. Hiraoka, C. Mitsumata, M. Kotsugi. Analysis of the excess loss in high-frequency magnetization process through machine learning and topological data analysis. IEEE Transactions on Magnetics, online first article, 2024. https://doi.org/10.1109/TMAG.2024.3406717

• Yuta Shuseki, Shinji Kohara, Tomoaki Kaneko, Keitaro Sodeyama, Yohei Onodera, Chihiro Koyama, Atsunobu Masuno, Shunta Sasaki, Shohei Hatano, Motoki Shiga, Ippei Obayashi, Yasuaki Hiraoka, Junpei T. Okada, Akitoshi Mizuno, Yuki Watanabe, Yui Nakata, Koji Ohara, Motohiko Murakami, Matthew G. Tucker, Marshall T. McDonnell, Hirohisa Oda, and Takehiko Ishikawa. Atomic and Electronic Structure in MgO–SiO2. J. Phys. Chem. A 128 (4), 716–726 (2024). https://doi.org/10.1021/acs.jpca.3c05561

• Kota Okamoto, Nozomi Akashi, Ippei Obayashi, Kohei Nakajima, Hiroshi Kokubu, Kei Senda, Kazuo Tsuchiya and Shinya Aoi. Sharp changes in fractal basin of attraction in passive dynamic walking. Nonlinear Dynamics (2023). https://doi.org/10.1007/s11071-023-08913-w

• Emi Minamitani, Ippei Obayashi, Koji Shimizu, and Satoshi Watanabe. Persistent homology-based descriptor for machine-learning potential of amorphous structures. The Journal of Chemical Physics 159, 084101 (2023). https://doi.org/10.1063/5.0159349

• Ippei Obayashi and Michio Yoshiwaki. Field choice problem in persistent homology. Discrete and Computational Geometry, 70, 645–670 (2023). https://doi.org/10.1007/s00454-023-00544-7

• Ippei Obayashi. Stable Volumes for Persistent Homology. Journal of Applied and Computational Topology, 7, 671–706 (2023). https://doi.org/10.1007/s41468-023-00119-8

• Ippei Obayashi, and Masao Kimura. Persistent homology analysis with nonnegative matrix factorization for 3D voxel data of iron ore sinters. JSIAM Letters 14, 151–154 (2022) https://doi.org/10.14495/jsiaml.14.151

• Emi Minamitani, Takuma Shiga, Makoto Kashiwagi, and Ippei Obayashi. Topological descriptor of thermal conductivity in amorphous Si. J. Chem. Phys. 156, 244502 (2022) https://doi.org/10.1063/5.0093441

• Kota Okamoto, Ippei Obayashi, Hiroshi Kokubu, Kei Senda, Kazuo Tsuchiya, and Shinya Aoi. Contribution of Phase Resetting to Statistical Persistence in Stride Intervals: A Modeling Study. Frontiers in Neural Circuits 16, (2022) https://doi.org/10.3389/fncir.2022.836121

• Ippei Obayashi, Takenobu Nakamura, Yasuaki Hiraoka. Persistent Homology Analysis for Materials Research and Persistent Homology Software: HomCloud. J. Phys. Soc. Jpn. 91, 091013 (2022) https://doi.org/10.7566/JPSJ.91.091013

• Emi Minamitani, Takuma Shiga, Makoto Kashiwagi, and Ippei Obayashi. Relationship between local coordinates and thermal conductivity in amorphous carbon. Journal of Vacuum Science & Technology A 40, 033408 (2022). https://doi.org/10.1116/6.0001744

• Anna Suzuki, Miyuki Miyazawa, James M. Minto, Takeshi Tsuji, Ippei Obayashi, Yasuaki Hiraoka, an Takatoshi Ito. Flow estimation solely from image data through persistent homology analysis. Scientific Reports 11, 17948 (2021). https://doi.org/10.1038/s41598-021-97222-6

• Yohei Onodera, Shinji Kohara, Philip S. Salmon, Akihiko Hirata, Norimasa Nishiyama, Suguru Kitani, Anita Zeidler, Motoki Shiga, Atsunobu Masuno, Hiroyuki Inoue, Shuta Tahara, Annalisa Polidori, Henry E. Fischer, Tatsuya Mori, Seiji Kojima, Hitoshi Kawaji, Alexander I. Kolesnikov, Matthew B. Stone, Matthew G. Tucker, Marshall T. McDonnell, Alex C. Hannon, Yasuaki Hiraoka, Ippei Obayashi, Takenobu Nakamura, Jaakko Akola, Yasuhiro Fujii, Koji Ohara, Takashi Taniguchi and Osami Sakata. Structure and properties of densified silica glass: characterizing the order within disorder. NPG Asia Materials volume 12, 85 (2020). https://doi.org/10.1038/s41427-020-00262-z

• Akihiko Hirata, Tomohide Wada, Ippei Obayashi and Yasuaki Hiraoka. Structural changes during glass formation extracted by computational homology with machine learning. Communications Materials 1, 98 (2020). https://doi.org/10.1038/s43246-020-00100-3

• A.Suzuki, M.Miyazawa, A.Okamoto, H.Shimizu, I.Obayashi, Y.Hiraoka, T.Tsuji, P.K.Kang, and T.Ito. Inferring fracture forming processes by characterizing fracture network patterns with persistent homology. Computers & Geosciences 143, 104550 (2020). https://doi.org/10.1016/j.cageo.2020.104550

• Kota Okamoto, Shinya Aoi, Ippei Obayashi, Hiroshi Kokubu, Kei Senda, and Kazuo Tsuchiya. Fractal mechanism of basin of attraction in passive dynamic walking. Bioinspiration & Biomimetics 15 (5), 055002 (2020). https://doi.org/10.1088/1748-3190/ab9283

• Chihiro Koyama, Shuta Tahara, Shinji Kohara, Yohei Onodera, Didrik R. Småbråten, Sverre M. Selbach, Jaakko Akola, Takehiko Ishikawa, Atsunobu Masuno, Akitoshi Mizuno, Junpei. T. Okada, Yuki Watanabe, Yui Nakata, Koji Ohara, Haruka Tamaru, Hirohisa Oda, Ippei Obayashi, Yasuyuki Hiraoka, and Osami Sakata. Very sharp diffraction peak in non-glass forming liquid with the formation of distorted tetraclusters. NPG Asia Materials 12, 43, (2020). https://doi.org/10.1038/s41427-020-0220-0

• Takashi Ichinomiya, Ippei Obayashi, and Yasuaki Hiraoka. Protein folding analysis using features obtained by persistent homology. Biophysical Journal 118, 2926–2937, (2020). https://doi.org/10.1016/j.bpj.2020.04.032

• Yohei Onodera, Yasuyuki Takimoto, Hiroyuki Hijiya, Taketoshi Taniguchi, Shingo Urata, Seiji Inaba, Sanae Fujita, Ippei Obayashi, Yasuaki Hiraoka and Shinji Kohara. Origin of the mixed alkali effect in silicate glass. NPG Asia Materials 11 75 (2019). https://doi.org/10.1038/s41427-019-0180-4

• Yohei ONODERA, Shinji KOHARA, Shuta TAHARA, Atsunobu MASUNO, Hiroyuki INOUE, Motoki SHIGA, Akihiko HIRATA, Koichi TSUCHIYA, Yasuaki HIRAOKA, Ippei OBAYASHI, Koji OHARA, Akitoshi MIZUNO, and Osami SAKATA. Understanding diffraction patterns of glassy, liquid and amorphous materials via persistent homology analyses. Journal of the Ceramic Society of Japan 2019 127(12) 853–863, (2019). (article (open access))

• Asuka Oyama, Yasuaki Hiraoka, Ippei Obayashi, Yusuke Saikawa, Shigeru Furui, Kenshiro Shiraishi, Shinobu Kumagai, Tatsuya Hayashi and Jun’ichi Kotoku. Hepatic tumor classification using texture and topology analysis of non-contrast-enhanced three-dimensional T1-weighted MR images with a radiomics approach. Scientific Reports 9, 8764 (2019). (article (open access))

• M. Murakami, S. Kohara, N. Kitamura, J. Akola, H. Inoue, A. Hirata, Y. Hiraoka, Y. Onodera, I. Obayashi, J. Kalikka, N. Hirao, T. Musso, A. S. Foster, Y. Idemoto, O. Sakata, and Y. Ohishi. Ultrahigh-pressure form of SiO2 glass with dense pyrite-type crystalline homology. Phys. Rev. B 99, 045153 (2019). (article)

• Ippei Obayashi. Volume Optimal Cycle: Tightest representative cycle of a generator in persistent homology. SIAM Journal on Applied Algebra and Geometry 2(4), 508–534, (2018). (article (open access))

• Ippei Obayashi, Yasuaki Hiraoka, and Masao Kimura. Persistence diagrams with linear machine learning models. Journal of Applied and Computational Topology 1, 3-4, 421–449, (2018). (article)

• M. Kimura, I. Obayashi, Y. Takeichi, R. Murao, and Y. Hiraoka. Non-empirical identification of trigger sites in heterogeneous processes using persistent homology. Scientific Reports 8, 3553, (2018). (article (open access))

• Masaru Inatsu, Hayato Kato, Yuta Katsuyama, Yasuaki Hiraoka, and Ippei Ohbayashi. A Cyclone Identification Algorithm with Persistent Homology and Merge-Tree. Scientific Online Letters on the Atmosphere, 13, 214–218, (2017). (article (open access))

• Takashi Ichinomiya, Ippei Obayashi, and Yasuaki Hiraoka. Persistent homology analysis of craze formation. Phys. Rev. E 95, 012504, (2017) . (article)

• Ippei Obayashi, Shinya Aoi, Kazuo Tsuchiya, Hiroshi Kokubu. Formation Mechanism of a Basin of Attraction for Passive Dynamic Walking Induced by Intrinsic Hyperbolicity. Proceedings of the Royal Society A: Mathematical, Physical and Engineering Science, 472 (2190), (2016). (article, preprint)

• Marcio Gameiro, Yasuaki Hiraoka, and Ippei Obayashi. Continuation of point clouds via persistence diagrams. Physica D, 334, 118–132 (2016). (article, preprint)

• Ippei Obayashi, Shinya Aoi, Kazuo Tsuchiya, and Hiroshi Kokubu. Common formation mechanism of basin of attraction for bipedal walking models by saddle hyperbolicity and hybrid dynamics. Japan Journal of Industrial and Applied Mathematics 32 (2). 315–332 (2015) (article (open access))

• Justin Bush, Marcio Gameiro, Shaun Harker, Hiroshi Kokubu, Konstantin Mischaikow, Ippei Obayashi, and Pawel Pilarczyk. Combinatorial-topological framework for the analysis of global dynamics. Chaos 22, 047508, (2012). (article)

• Ippei Obayashi. Computer-assisted verification method for invariant densities and rates of decay of correlations. SIAM J. Appl. Dyn. Syst. 10 788–816, (2011). (aritcle)

• Ippei Obayashi. Exponential decay of correlations for surface semiflows with an expanding direction. J. Math. Kyoto University 49 427–440, (2009). (aritcle (open access))

Papers (written in Japanese, peer-reviewed)

• 山田 拓洋, 鈴木 雄太, 三俣 千春, 小野 寛太, 上野 哲朗, 大林 一平, 平岡 裕章, 小嗣 真人. パーシステントホモロジーを用いた迷路状磁区構造におけるトポロジカル欠陥の可視化. 表面と真空 62 巻 3 号, p. 153-160 (2019). (article)

• 平岡 裕章, 大林 一平. パーシステントホモロジーの基礎と材料工学への適用例. まてりあ 58巻1号 pp.17–22 (2019). article

• 木村 正雄, 武市 泰男, 大林 一平, 村尾 玲子, 平岡 裕章. X線顕微鏡による化学状態マッピングと応用数学による材料学的知見無しでの反応サイト特定. まてりあ 57巻12号 pp. 595 (2018). article

• 大林 一平. パーシステンス図の逆問題. 応用数理 26 (4), (2016). article (open access)

Proceedings (peer-reviewed)

• M. Kimura, I. Obayashi, Y. Takeichi, R. Murao, and Y. Hiraoka. Non-Empirical Identification of Trigger Sites in Image Data using Persistent Homology: Crack Formation during Heterogeneous Reduction of Iron-Ore Sinters. Proceedings of the 14th International Conference on X-ray Microscopy (XRM2018), Microscopy and Microanalysis, \textbf{24}(S2) 540–541, (2018). article

• M. Kimura and Y. Takeichi and R. Murao and I. Obayashi and Y. Hiraoka and Y. Liu. Chemical state mapping of heterogeneous reduction of iron ore sinter. Journal of Physics: Conference Series 849(1) 012015, X-Ray Microscopy Conference 2016 (XRM 2016) 15 – 19 August 2016, Oxford University, United Kingdom, (2017).

• Zin Arai, Hiroshi Kokubu and Ippei Obayashi. Capturing the global behavior of dynamical systems with Conley-Morse graphs. Advances in Cognitive Neurodynamics (III) 665–672, (2012). article

Proceeding (written in Japanese)

• 大林一平. パーシステントホモロジーの理論と応用. 交通流と自己駆動粒子系シンポジウム論文集 24 (2018). article (open access)

Book chapters

• Motoki Shiga and Ippei Obayashi. Structural-Order Analysis Based on Applied Mathematics. In: Hayashi, K. (eds) Hyperordered Structures in Materials. The Materials Research Society Series, Springer, Singapore, 2024. https://doi.org/10.1007/978-981-99-5235-9_11

• M. Buchet, Y. Hiraoka, and I. Obayashi. Persistent homology and materials informatics. Nanoinformatics 75-95, Springer (2018). article (open access)

Magazine articles

• 大林一平. ソフトウェア紹介：パーシステントホモロジーに基づくデータ解析ソフトウェア「HomCloud」による材料科学データ解析. 分子シミュレーション学会誌 "アンサンブル" 26 (1), 83–90 (2024).

• 南谷英美, 志賀拓麿, 柏木誠, 大林一平. アモルファス材料の熱伝導率とトポロジカルデータ解析. 固体物理. 58 (6), 319–330, (2023).

• 大林一平. パーシステントホモロジーの数学的基礎 (特集：トポロジカルデータ解析の拡がり). 数理科学 2023年6月号 Ｎｏ.720, (2023).

• 志賀元紀, 森田秀利, 大林一平. 数理情報科学を用いた構造秩序解析. セラミックス 58, 527–530 (2023).

• 大林一平. パーシステントホモロジーによる材料科学データ解析. New Glass 129, 35 (1), (2020).

• 小原真司, 小野寺陽平, 大林一平, 志賀元紀, 平田秋彦, 平岡裕章, 坂田修身. ガラスの二体相関に隠れたトポロジーの抽出. New Glass 129, 35 (1), (2020).

• 小原 真司, 坂田 修身, 小野寺 陽平, 大林 一平, 志賀 元紀, 平田 秋彦, 平岡 裕章. パーシステントホモロジーを用いた非晶質物質の回折パターンの理解と二体相関に潜んだトポロジーの抽出. 日本結晶学会誌 62 (1), (2020).

• 平岡裕章, 大林一平, 赤木和人. パーシステントホモロジーと材料構造解析. 人工知能学会学会誌「人口知能」 34 (3), (2019).

• 國府 寛司, 大林 一平. 非線型現象のダイナミクスの大域的構造を理解するための1つの試み. 日本神経回路学会誌, 22 (2), (2015).

• 大林一平, 國府寛司. 歩行と力学系. 数学セミナー 2014年7月号.

Other Articles

• 大林一平. パーシステントホモロジーの optimal volume と stable volume について. 数理解析研究所講究録 No.2209, RIMS 共同研究 一般位相幾何学の動向と諸分野との連携. (2022). article website

• 大林一平. パーシステントホモロジーに基づくデータ解析パッケージHomCloudの紹介. 数理解析研究所講究録 No.2166, RIMS 共同研究 第16回生物数学の理論とその応用 - 生命現象の定量的理解に向けて -. (2020). article website

• 大林一平, 位相的データ解析の現在, 数理解析研究所講究録 No.2057, 統計的モデリングと予測理論のための統合的数理研究 (2016). article website

Preprint

• Yasuaki Hiraoka, Ken Nakashima, Ippei Obayashi, and Chenguang Xu. Refinement of Interval Approximations for Fully Commutative Quivers. Arxiv preprint (2023). https://arxiv.org/abs/2310.03649

• Koichi Mayumi, Shinya Miyajima, Ippei Obayashi, and Kazuaki Tanaka. Error evaluation of partial scattering functions obtained from contrast variation small-angle neutron scattering. Arxiv preprint (2024). https://arxiv.org/abs/2406.00311

• Emi Minamitani, Takenobu Nakamura, Ippei Obayashi, and Hideyuki Mizuno. Persistent homology elucidates hierarchical structures in amorphous solids responsible for mechanical properties. Arxiv preprint (2024). https://arxiv.org/abs/2407.17707