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Estimation of high-dimensional causal networks based on multiple datasets and its applications to biomedical science

Research Project

Project/Area Number 24700275
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Statistical science
Research InstitutionOsaka University

Principal Investigator

Shimizu Shohei  大阪大学, 産業科学研究所, 准教授 (10509871)

Project Period (FY) 2012-04-01 – 2016-03-31
Project Status Completed (Fiscal Year 2015)
Budget Amount *help
¥4,420,000 (Direct Cost: ¥3,400,000、Indirect Cost: ¥1,020,000)
Fiscal Year 2015: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
Fiscal Year 2014: ¥650,000 (Direct Cost: ¥500,000、Indirect Cost: ¥150,000)
Fiscal Year 2013: ¥650,000 (Direct Cost: ¥500,000、Indirect Cost: ¥150,000)
Fiscal Year 2012: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Keywords因果探索 / 非ガウス性 / 構造方程式モデル / 複数データセット / 因果構造探索 / 国際情報交換 / 米国 / 潜在共通原因 / 因果推論 / 因果方向推定 / 非ガウス / LiNGAM
Outline of Final Research Achievements

We developed an estimation principle and estimation algorithms to estimate LiNGAM models from multiple datasets for causal structure learning. Moreover, we extended them to cases with latent confounding variables, latent classes, temporally changing causal structures. The latent class extension can be seen as a nonlinear extension. We applied those methods to brain imaging data.

Report

(5 results)
  • 2015 Annual Research Report   Final Research Report ( PDF )
  • 2014 Research-status Report
  • 2013 Research-status Report
  • 2012 Research-status Report
  • Research Products

    (34 results)

All 2016 2015 2014 2013 2012 Other

All Int'l Joint Research (2 results) Journal Article (5 results) (of which Peer Reviewed: 5 results,  Acknowledgement Compliant: 3 results,  Open Access: 1 results) Presentation (24 results) (of which Int'l Joint Research: 4 results,  Invited: 14 results) Remarks (3 results)

  • [Int'l Joint Research] University of Helsinki(フィンランド)

    • Related Report
      2015 Annual Research Report
  • [Int'l Joint Research] University of North Carolina(米国)

    • Related Report
      2015 Annual Research Report
  • [Journal Article] A non-Gaussian approach for causal discovery in the presence of hidden common causes2015

    • Author(s)
      Shohei Shimizu
    • Journal Title

      Advanced Methodologies for Bayesian Networks, Lecture Notes in Computer Science

      Volume: 9505 Pages: 222-223

    • DOI

      10.1007/978-3-319-28379-1_16

    • ISBN
      9783319283784, 9783319283791
    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Discriminative and Generative Models in Causal and Anticausal Settings2015

    • Author(s)
      Patrick Blobaum, Shohei Shimizu, Takashi Washio
    • Journal Title

      Advanced Methodologies for Bayesian Networks, Lecture Notes in Computer Science

      Volume: 9505 Pages: 209-221

    • DOI

      10.1007/978-3-319-28379-1_15

    • ISBN
      9783319283784, 9783319283791
    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Bayesian estimation of causal direction in acyclic structural equation models with individual-specific confounder variables and non-Gaussian distributions2014

    • Author(s)
      Shohei Shimizu and Kenneth Bollen
    • Journal Title

      Journal of Machine Learning Research

      Volume: 15 Pages: 2629-2652

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] ParceLiNGAM : A causal ordering method robust against latent confounders2014

    • Author(s)
      Tashiro, T., Shimizu, S., Hyvarinen, A. and Washio, T
    • Journal Title

      Neural Computation

      Volume: 26(1) Issue: 1 Pages: 57-83

    • DOI

      10.1162/neco_a_00533

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Joint estimation of linear non-Gaussian acyclic models2012

    • Author(s)
      S. Shimizu
    • Journal Title

      Neurocomputing

      Volume: 81 Pages: 104-107

    • DOI

      10.1016/j.neucom.2011.11.005

    • Related Report
      2012 Research-status Report
    • Peer Reviewed
  • [Presentation] Non-Gaussian structural equation models for causal discovery2016

    • Author(s)
      Shohei Shimizu
    • Organizer
      2016 Probabilistic Graphical Model Workshop: Sparsity, Structure and High-dimensionality
    • Place of Presentation
      統計数理研究所 (東京都)
    • Year and Date
      2016-03-23
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 因果探索: 基本から最近の発展までを概説2016

    • Author(s)
      清水昌平
    • Organizer
      第23回情報論的学習理論と機械学習研究会 (IBISML)
    • Place of Presentation
      統計数理研究所 (東京都)
    • Year and Date
      2016-03-17
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] 因果探索: 観察データから因果仮説を探索する2016

    • Author(s)
      清水昌平
    • Organizer
      日本社会心理学会: 第3回春の方法論セミナー
    • Place of Presentation
      上智大学 (東京都)
    • Year and Date
      2016-03-16
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] 因果探索と非ガウス性2016

    • Author(s)
      清水昌平
    • Organizer
      第11回協定講座シンポジウム: 計算科学とビジュアル・アナリティクス
    • Place of Presentation
      神戸大学 (兵庫県)
    • Year and Date
      2016-03-06
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] Statistical estimation of causal directions based on observational data2016

    • Author(s)
      Shohei Shimizu
    • Organizer
      The 3rd CiNet Conference - Neural Mechanism of Decision Making: Achievements and New Directions
    • Place of Presentation
      大阪大学 (大阪府)
    • Year and Date
      2016-02-05
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Non-Gaussian methods for causal discove2016

    • Author(s)
      Shohei Shimizu
    • Organizer
      International Workshop on Causal Inference
    • Place of Presentation
      統計数理研究所 (東京都)
    • Year and Date
      2016-01-07
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] A non-Gaussian approach for causal discovery in the presence of hidden common causes2015

    • Author(s)
      Shohei Shimizu
    • Organizer
      Second Workshop on Advanced Methodologies for Bayesian Networks (AMBN2015)
    • Place of Presentation
      慶應義塾大学 (神奈川県)
    • Year and Date
      2015-11-17
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 因果探索: データから因果の方向性等を調べる2015

    • Author(s)
      清水昌平
    • Organizer
      日本行動計量学会 第43回大会
    • Place of Presentation
      首都大学東京 (東京都)
    • Year and Date
      2015-09-02
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] 非ガウス性を利用した因果構造探索2015

    • Author(s)
      清水昌平
    • Organizer
      2015年日本生態学会関東地区会シンポジウム「非ガウス性/非線形性/非対称性からの因果推論手法:その使いどころ・原理・実装を学ぶ」
    • Place of Presentation
      東京大学 (東京都)
    • Year and Date
      2015-08-06
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] 構造方程式モデルによる因果探索と非ガウス性2015

    • Author(s)
      清水昌平
    • Organizer
      数学協働プログラム(数学・数理科学と諸科学・産業との協働によるイノベーション創出のための研究促進プログラム) ワークショップ: 確率的グラフィカルモデル
    • Place of Presentation
      電気通信大学, 東京
    • Year and Date
      2015-03-20
    • Related Report
      2014 Research-status Report
    • Invited
  • [Presentation] Estimation of causal direction in the presence of latent confounders and linear non-Gaussian structural equation models2014

    • Author(s)
      Shohei Shimizu
    • Organizer
      Causal Modeling and Machine Learning (Post-ICML workshop)
    • Place of Presentation
      Beijing, China
    • Year and Date
      2014-06-25
    • Related Report
      2014 Research-status Report
    • Invited
  • [Presentation] A non-Gaussian approach for estimating possible causal direction in the presence of latent confounders2014

    • Author(s)
      Shohei Shimizu
    • Organizer
      Conference on Statistics and Causality 2014
    • Place of Presentation
      Vienna, Austria
    • Year and Date
      2014-05-23
    • Related Report
      2014 Research-status Report
    • Invited
  • [Presentation] 潜在クラスが存在する場合のベイズ的アプローチによる非ガウス因果構造推定法2014

    • Author(s)
      田中 直樹, 清水昌平, 鷲尾 隆
    • Organizer
      第28回人工知能学会全国大会
    • Place of Presentation
      ひめぎんホール, 愛媛
    • Year and Date
      2014-05-13
    • Related Report
      2014 Research-status Report
  • [Presentation] 潜在交絡変数が存在する場合のベイズ的アプローチによる非ガウス因果構造推定法2013

    • Author(s)
      田中直樹, 清水昌平, 鷲尾 隆
    • Organizer
      第27回人工知能学会全国大会
    • Place of Presentation
      富山国際会議場(富山)
    • Related Report
      2013 Research-status Report
  • [Presentation] Estimation of causal direction in the presence of latent confounders using a Bayesian LiNGAM mixture model2013

    • Author(s)
      N. Tanaka, S. Shimizu and T. Washio
    • Organizer
      Causality: Perspectives from Different Disciplines
    • Place of Presentation
      Vals (Switzerland)
    • Related Report
      2013 Research-status Report
  • [Presentation] 経時データにおける非ガウス性を用いた因果構造探索2013

    • Author(s)
      門脇健人, 清水昌平, 鷲尾隆
    • Organizer
      第27回人工知能学会全国大会
    • Place of Presentation
      富山国際会議場(富山)
    • Related Report
      2013 Research-status Report
  • [Presentation] K. Kadowaki, S. Shimizu and T. Washio2013

    • Author(s)
      K. Kadowaki, S. Shimizu and T. Washio
    • Organizer
      23rd IEEE International Workshop on Machine Learning for Signal Processing (MLSP2013)
    • Place of Presentation
      Southampton (United Kingdom)
    • Related Report
      2013 Research-status Report
  • [Presentation] Bootstrapping confidence intervals in linear non-Gaussian causal model2012

    • Author(s)
      Kittitat Thamvitayakul, 清水昌平, 鷲尾 隆, 田代竜也
    • Organizer
      第26回人工知能学会全国大会
    • Place of Presentation
      山口県教育会館 (山口)
    • Related Report
      2012 Research-status Report
  • [Presentation] 非ガウス性を用いた線形非巡回なデータ生成過程部分の発見と同定2012

    • Author(s)
      田代竜也, 清水昌平, 鷲尾 隆
    • Organizer
      第26回人工知能学会全国大会
    • Place of Presentation
      山口県教育会館 (山口)
    • Related Report
      2012 Research-status Report
  • [Presentation] 構造方程式モデルによる因果推論: 因果構造探索に関する最近の発展2012

    • Author(s)
      清水昌平
    • Organizer
      日本行動計量学会第40回大会
    • Place of Presentation
      新潟県立大学 (新潟)
    • Related Report
      2012 Research-status Report
    • Invited
  • [Presentation] Estimation of causal orders in a linear non-Gaussian acyclic model: a method robust against latent confounders2012

    • Author(s)
      T. Tashiro, S. Shimizu, Aapo Hyvarinen, T. Washio
    • Organizer
      22nd Int. Conf. on Articial Neural Networks (ICANN2012)
    • Place of Presentation
      Lausanne (Switzerland)
    • Related Report
      2012 Research-status Report
  • [Presentation] 非ガウス構造方程式モデルにおける因果順序の推定: 潜在交絡変数に頑健な方法2012

    • Author(s)
      田代竜也, 清水昌平, Aapo Hyvarinen, 鷲尾 隆
    • Organizer
      第3回Latent Dynamicsワークショップ
    • Place of Presentation
      東京大学 (東京)
    • Related Report
      2012 Research-status Report
  • [Presentation] 因果構造探索と非ガウス構造方程式モデル2012

    • Author(s)
      清水昌平
    • Organizer
      人工知能学会 第87回 人工知能基本問題研究会 (SIG-FPAI)
    • Place of Presentation
      慶應義塾大学 (神奈川)
    • Related Report
      2012 Research-status Report
    • Invited
  • [Presentation] Bootstrap confidence intervals in DirectLiNGAM2012

    • Author(s)
      K. Thamvitayakul, S. Shimizu, T. Ueno, T. Washio, T. Tashiro
    • Organizer
      2012 IEEE 12th International Conference on Data Mining Workshops (ICDMW2012)
    • Place of Presentation
      Brussels (Belgium)
    • Related Report
      2012 Research-status Report
  • [Remarks] 清水昌平

    • URL

      https://sites.google.com/site/sshimizu06/indexj

    • Related Report
      2015 Annual Research Report 2014 Research-status Report
  • [Remarks] 未観測交絡変数に頑健な因果構造推定法

    • URL

      http://www.ar.sanken.osaka-u.ac.jp/~sshimizu/code/Plingamcode.html

    • Related Report
      2013 Research-status Report
  • [Remarks] Publications

    • URL

      http://www.ar.sanken.osaka-u.ac.jp/~sshimizu/publications.html

    • Related Report
      2012 Research-status Report

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Published: 2013-05-31   Modified: 2019-07-29  

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