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Sparse modeling of spatio-temporal data and phenonon understanding by application to real data

Research Project

Project/Area Number 19K11861
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Review Section Basic Section 60030:Statistical science-related
Research InstitutionNagasaki University

Principal Investigator

Nishii Ryuei  長崎大学, 情報データ科学部, 教授 (40127684)

Co-Investigator(Kenkyū-buntansha) 田中 章司郎  広島経済大学, メディアビジネス学部, 教授 (00197427)
持田 恵一  国立研究開発法人理化学研究所, 環境資源科学研究センター, チームリーダー (90387960)
Project Period (FY) 2019-04-01 – 2022-03-31
Project Status Completed (Fiscal Year 2021)
Budget Amount *help
¥4,290,000 (Direct Cost: ¥3,300,000、Indirect Cost: ¥990,000)
Fiscal Year 2021: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Fiscal Year 2020: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Fiscal Year 2019: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Keywords時空間データ解析 / スパースモデリング / ネットワーク推定 / 深層学習 / 非対称損失 / 精密農業 / カラーマッチング / 分子ネットワーク / 時空間モデリング / カーネル推定 / コンピュータービジョン / 植物表現型分析 / 時空間回帰分析 / スパース回帰分析 / パターン認識 / ADMM / 疎推定 / SVR / 時空間回帰モデル / 遺伝子間ネットワーク
Outline of Research at the Start

環境・社会から得られる時間的および空間的に依存するビッグデータを数理的に記述するとき、なるべく簡単なモデル(疎なモデル)で記述したい。ここでは疎なモデルを逐次的に推定する手法を研究し、それを時空間データに適応して知を発見する。研究期間中、次の課題を中心に研究する。[a] 新たな疎推定の手法を提案する。[b] 植物の成長に関わるゲノム要因や環境要因を抽出する。[c] 空間的な経済時系列から、空間依存性や経済成長にかかわる因子を抽出する。

Outline of Final Research Achievements

The purpose of this study is to develop and evaluate statistical models for real space-time data and to understand the characteristics of the phenomenon. During the three-year research period, statistical modeling was performed on various actual data. The following are the main research results.
・Estimation of ellipses in color recognition space, ・Computer vision review paper in plant phenotypic estimation, ・Sparse regression analysis and pattern recognition (text book), ・Efficient variable selection in regression analysis of spatio-temporal data, ・Unsupervised land use cover detection based on high-resolution hyperspectral images, and ・Identification of genes and environmental factors related to plant phenotypes, and ・Empirical analysis that solar wind is one of the triggers of earthquakes, were performed.

Academic Significance and Societal Importance of the Research Achievements

太陽風が地震に影響しているという仮説を,地震頻度や太陽風に関する9次元の物理計測値から検証し,マグニチュード6より小さい地震頻度に影響することを示した.このように異質なビッグデータを考察することで,新しい知見が得られることの好例である.またオオムギの収穫量等の表現形を,遺伝子タイプや生育方法のうち重要な変数を選んでモデル化することにより,穀物の増産や炭素固定に貢献できる.さらに電力売買において,明日の電力使用が不足せず,かつコストの意味で効率な予測方法を研究した.

Report

(4 results)
  • 2021 Annual Research Report   Final Research Report ( PDF )
  • 2020 Research-status Report
  • 2019 Research-status Report
  • Research Products

    (34 results)

All 2022 2021 2020 2019 2018 Other

All Int'l Joint Research (5 results) Journal Article (15 results) (of which Int'l Joint Research: 8 results,  Peer Reviewed: 15 results,  Open Access: 9 results) Presentation (9 results) (of which Int'l Joint Research: 5 results,  Invited: 2 results) Book (1 results) Remarks (4 results)

  • [Int'l Joint Research] ガジャマダ大学(インドネシア)

    • Related Report
      2021 Annual Research Report
  • [Int'l Joint Research] University of London(英国)

    • Related Report
      2021 Annual Research Report
  • [Int'l Joint Research] University of Trento(イタリア)

    • Related Report
      2021 Annual Research Report
  • [Int'l Joint Research] University of Trento(イタリア)

    • Related Report
      2019 Research-status Report
  • [Int'l Joint Research] Gadjah Mada University(インドネシア)

    • Related Report
      2019 Research-status Report
  • [Journal Article] Investigation of Relation between Solar Activity and Earthquakes with Deep Learning Method2021

    • Author(s)
      Leilei Li, Hong Gu, Ryosuke Kikuyama, Ryuei Nishii, Pan Qin
    • Journal Title

      International Journal of Geosciences

      Volume: 12 Issue: 08 Pages: 704-713

    • DOI

      10.4236/ijg.2021.128040

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Phosphate or nitrate imbalance induces stronger molecular responses than combined nutrient deprivation in roots and leaves of chickpea plants2021

    • Author(s)
      M. N. Esfahani, K. Inoue, K. H. Nguyen, H. D. Chu, Y. Watanabe, A. Kanatani, D.J. Burritt, K. Mochida, L.-S. P. Tran
    • Journal Title

      Plant Cell Environ

      Volume: 44 Issue: 2 Pages: 574-597

    • DOI

      10.1111/pce.13935

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Diverse Biosynthetic Pathways and Protective Functions against Environmental Stress of Antioxidants in Microalgae2021

    • Author(s)
      Shun Tamaki, Keiichi Mochida, Kengo Suzuki
    • Journal Title

      Plants

      Volume: 19 Issue: 6 Pages: 1-17

    • DOI

      10.3390/plants10061250

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Diversified amino acid-mediated allosteric regulation of phosphoglycerate dehydrogenase for serine biosynthesis in land plants2021

    • Author(s)
      E. Okamura, K. Ohtaka, R. Nishihama, K. Uchida, A. Kuwahara, K. Mochida. M. Yokota Hirai
    • Journal Title

      Biochemical Journal

      Volume: 478 Issue: 12 Pages: 2217-2232

    • DOI

      10.1042/bcj20210191

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Cellular and transcriptomic analyses reveal two-staged chloroplast biogenesis underpinning photosynthesis build-up in the wheat leaf2021

    • Author(s)
      N. Loudya, P. Mishra, K. Takahagi, Y. Uehara-Yamaguchi, K. Inoue, L. Bogre, K. Mochida, E. Lopez-Juez
    • Journal Title

      Genome Biology

      Volume: 22 Issue: 1 Pages: 1-30

    • DOI

      10.1186/s13059-021-02366-3

    • NAID

      120007053369

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Unsupervised spectral-spatial feature extraction with generalized autoencoder for hyperspectral imagery2020

    • Author(s)
      S. Koda, F. Melgani and R. Nishii
    • Journal Title

      IEEE Geoscience and Remote Sensing Letters

      Volume: 17 Issue: 3 Pages: 469-473

    • DOI

      10.1109/lgrs.2019.2921225

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Minimizing the expected value of the asymmetric loss function and an inequality for the variance of the loss2020

    • Author(s)
      N. Yamaguchi, Y. Yamaguchi and R. Nishii
    • Journal Title

      Journal of Applied Statistics

      Volume: - Issue: 13-15 Pages: 2348-2368

    • DOI

      10.1080/02664763.2020.1761951

    • Related Report
      2020 Research-status Report
    • Peer Reviewed
  • [Journal Article] Decoding plant-environment interactions that influence crop agronomic traits2020

    • Author(s)
      K. Mochida, R. Nishii and T. Hirayama
    • Journal Title

      Plant and Cell Physiology

      Volume: 61 Issue: 8 Pages: 1408-1418

    • DOI

      10.1093/pcp/pcaa064

    • NAID

      120006953494

    • Related Report
      2020 Research-status Report
    • Peer Reviewed
  • [Journal Article] Exploration of Life-Course Factors Influencing Phenotypic Outcomes in Crops.2020

    • Author(s)
      Keiichi Mochida, Alexander E Lipka, Takashi Hirayama
    • Journal Title

      Plant & Cell Physiology

      Volume: 61 Issue: 8 Pages: 1381-1383

    • DOI

      10.1093/pcp/pcaa087

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Genetic Engineering Strategies for Euglena gracilis and Its Industrial Contribution to Sustainable Development Goals: A Review.2020

    • Author(s)
      Ryo Harada, Toshihisa Nomura, Koji Yamada, Keiichi Mochida, Kengo Suzuki
    • Journal Title

      Frontiers in Bioengineering and Biotechnology

      Volume: 8 Pages: 790-790

    • DOI

      10.3389/fbioe.2020.00790

    • Related Report
      2020 Research-status Report
    • Peer Reviewed
  • [Journal Article] Life-course monitoring of endogenous phytohormone levels under field conditions reveals diversity of physiological states among barley accessions2020

    • Author(s)
      Hirayama T, Saisho D, Matsuura T, Okada S, Takahagi K, Kanatani A, Ito J, Tsuji H, Ikeda Y, Mochida K
    • Journal Title

      Plant Cell Physiologists

      Volume: pcaa046 Issue: 8 Pages: 1-32

    • DOI

      10.1093/pcp/pcaa046

    • NAID

      120007019116

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Highly efficient transgene-free targeted mutagenesis and single-stranded oligodeoxynucleotide-mediated precise knock-in in the industrial microalga Euglena gracilis using Cas9 ribonucleoproteins2019

    • Author(s)
      Nomura T, Inoue K, Uehara-Yamaguchi Y, Yamada K, Iwata O, Suzuki K, Mochida K
    • Journal Title

      Plant Biotechnolgy Journal

      Volume: 11 Issue: 11 Pages: 2032-2034

    • DOI

      10.1111/pbi.13174

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Plastic transport systems of rice for mineral elements in response to diverse soil environmental changes2019

    • Author(s)
      Wang P, Yamaji N, Inoue K, Mochida K, Ma JF.
    • Journal Title

      New Phytologist

      Volume: 11 Issue: 1 Pages: 156-169

    • DOI

      10.1111/nph.16335

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Computer vision-based phenotyping for improvement of plant productivity: a machine learning perspective2018

    • Author(s)
      Mochida Keiichi、Koda Satoru、Inoue Komaki、Hirayama Takashi、Tanaka Shojiro、Nishii Ryuei、Melgani Farid
    • Journal Title

      GigaScience

      Volume: 8 Issue: 1 Pages: 1-12

    • DOI

      10.1093/gigascience/giy153

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Strong model dependence in statistical analysis: goodness of fit is not enough for model choice2018

    • Author(s)
      Copas, J. & Eguchi, S.
    • Journal Title

      Ann Inst Stat Math

      Volume: 印刷中 Issue: 01 Pages: 1-10

    • DOI

      10.1142/s2661335219500023

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Presentation] Diversity of developmental trajectories in barley illustrated through deep phenotyping ディープフェノタイピングによるオオムギの成長トラジェクトリの多様性の解明2022

    • Author(s)
      持田恵一、金俊植、高萩航太郎、金谷麻加、井上小槙、上原由紀子、清水みなみ、最相大輔、井藤純、服部公央亮、岡田聡史、池田陽子、梅崎太造、辻寛之、平山隆志
    • Organizer
      第63回日本植物生理学会年会
    • Related Report
      2021 Annual Research Report
  • [Presentation] Attesting Interlinkages between Income Inequality and the Covariates by Variable Selection for Sustainable Regional Development: A Case Study of Palm Oil Industry in Sumatra Island, Indonesia2022

    • Author(s)
      Gigih Fitrianto, Ryuei Nishii, Shojiro Tanaka
    • Organizer
      Hiroshima International Conference on Peace and Sustainability
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Solar activity is one of triggers of earthquakes with magnitudes less than 62020

    • Author(s)
      R. Nishii, P. Qin and R. Kikuyama
    • Organizer
      Proc. IEEE International Geoscience and Remote Sensing Symposium
    • Related Report
      2020 Research-status Report
    • Int'l Joint Research
  • [Presentation] Two stage estimation procedure of non-linear regression functions for spatially-dependent data2020

    • Author(s)
      R. Nishii and S. Tanaka
    • Organizer
      Proc. IEEE International Geoscience and Remote Sensing Symposium
    • Related Report
      2020 Research-status Report
    • Int'l Joint Research
  • [Presentation] 野外生育環境におけるオオムギ成長過程の多様性2020

    • Author(s)
      持田 恵一、高萩 航太郎、上原 由紀子、井上 小槙、金谷 麻加、清水 みなみ、最相 大輔、平山 隆志
    • Organizer
      第61回日本植物生理学会年会
    • Related Report
      2019 Research-status Report
  • [Presentation] Two stage estimation procedure for spatial regression models and model selection2019

    • Author(s)
      S. Tanaka, R. Nishii and G. Fitrianto
    • Organizer
      IGARSS 2019
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] Analysis of regional economic growth against crisis2019

    • Author(s)
      G. Fitrianto, S. Tanaka and R. Nishii
    • Organizer
      ISI World Statistics Congress
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] オオムギのライフコース研究2019

    • Author(s)
      持田 恵一
    • Organizer
      第136回日本育種学会講演会
    • Related Report
      2019 Research-status Report
    • Invited
  • [Presentation] 正定値行列の一般化平均 - 色認知空間上の楕円予測-2019

    • Author(s)
      江口 真透, 中本 尊元, 西井 龍映
    • Organizer
      統計関連学会連合大会
    • Related Report
      2019 Research-status Report
  • [Book] スパース回帰分析とパターン認識2020

    • Author(s)
      梅津 佑太, 西井 龍映, 上田 勇祐
    • Total Pages
      208
    • Publisher
      講談社
    • ISBN
      9784065186206
    • Related Report
      2020 Research-status Report 2019 Research-status Report
  • [Remarks] 理化学研究所 環境資源科学研究センター バイオ生産情報研究チーム

    • URL

      https://www.csrs.riken.jp/jp/labs/birt/index.html

    • Related Report
      2021 Annual Research Report
  • [Remarks] 長崎大学 情報データ科学部 教員紹介

    • URL

      https://www.idsci.nagasaki-u.ac.jp/staff/staff1.html

    • Related Report
      2019 Research-status Report
  • [Remarks] 理化学研究所 環境資源研究センター バイオ生産情報研究チーム

    • URL

      http://www.csrs.riken.jp/jp/labs/birt/index.html

    • Related Report
      2019 Research-status Report
  • [Remarks] 田中章司郎のウェブページ

    • URL

      http://www.shojiro-tanaka.net/

    • Related Report
      2019 Research-status Report

URL: 

Published: 2019-04-18   Modified: 2023-01-30  

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