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Efficient estimation of data structure from multiple tensors

Research Project

Project/Area Number 19H04169
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Review Section Basic Section 61030:Intelligent informatics-related
Research InstitutionKyoto University

Principal Investigator

Mamitsuka Hiroshi  京都大学, 化学研究所, 教授 (00346107)

Project Period (FY) 2019-04-01 – 2022-03-31
Project Status Completed (Fiscal Year 2022)
Budget Amount *help
¥17,160,000 (Direct Cost: ¥13,200,000、Indirect Cost: ¥3,960,000)
Fiscal Year 2021: ¥5,850,000 (Direct Cost: ¥4,500,000、Indirect Cost: ¥1,350,000)
Fiscal Year 2020: ¥6,240,000 (Direct Cost: ¥4,800,000、Indirect Cost: ¥1,440,000)
Fiscal Year 2019: ¥5,070,000 (Direct Cost: ¥3,900,000、Indirect Cost: ¥1,170,000)
Keywords機械学習 / バイオインフォマティクス / 高次元機械学習
Outline of Research at the Start

現代社会のデータに急増する以下2つの組み合わせに着目する。
1) テンソル:例えば、購買データは従来の「ユーザx商品」から購買履歴データとして「ユーザx商品x時間」が得られる。
2) 複数データ:購買データのみならずSNS等からユーザ間のリンク(隣接行列:「ユーザxユーザ」)等が補助情報として得られ、モード(例えばユーザ)を共有する複数データ(行列)が得られる。
従って、「モードを共有する複数テンソルの内在構造の効率的解析手法」構築を目指す。具体的に、複数テンソルを表現(近似)可能なノルムを設計し、ノルムの低ランクパラメータの効率的学習手法の構築及び学習誤差の解析から問題の包括・普遍的理解を行う。

Outline of Final Research Achievements

Modern big data has the following two properties: 1) High-dimensional data (i.e. tensors, for example, purchase data, like users x items x time), 2) multiple tensors sharing the same mode (for example, if we have users' mutual information with the above tensor, these two information sources share the mode of users). Thus, we developed a general method, which can extract latent components hidden in given multiple tensors, which share one or more modes. In reality, we design a norm to represent given multiple tensors, so that this norm allows to formulate optimization (learning) problems to be solved efficiently. At the same time, we analyzed the properties of the norm theoretically, and also evaluated the empirical performence of the norms in the settings of both synthetic and real data. Also, by using the experience we had cultivated through the development of the norms, we developed numerous solutions for the problems related with high-dimensional data, i.e. tensors, and matrices.

Academic Significance and Societal Importance of the Research Achievements

現在、科学、工学、ビジネス等、社会の様々な場所で多様なデータが生まれるビッグデータの時代を迎えており、データに内在する構造を効率的に理解する技術の整備が喫緊の課題である。特に、現代では、モードを共有する複数高次元データがよく見られる。このようなデータに対し、本研究は、データに内在する構造を理解する一般的な枠組みと実際の事例を与える。また、本研究で得られた知見を使うことにより、関係するデータに対しても、効率的で精度の高い手法の構築が可能なことを示した。以上から、本研究は、現代に増大しつつある、より複雑な複数の関係データに対するデータ科学および機械学習手法開発の進展に大きく貢献する。

Report

(4 results)
  • 2022 Final Research Report ( PDF )
  • 2021 Annual Research Report
  • 2020 Annual Research Report
  • 2019 Annual Research Report
  • Research Products

    (36 results)

All 2023 2022 2021 2020 2019 Other

All Int'l Joint Research (6 results) Journal Article (30 results) (of which Int'l Joint Research: 23 results,  Peer Reviewed: 29 results,  Open Access: 18 results)

  • [Int'l Joint Research] Semmelweis University(ハンガリー)

    • Related Report
      2021 Annual Research Report
  • [Int'l Joint Research] Fudan University(中国)

    • Related Report
      2021 Annual Research Report
  • [Int'l Joint Research] Aalto University(フィンランド)

    • Related Report
      2021 Annual Research Report
  • [Int'l Joint Research] Semmelweis University(ハンガリー)

    • Related Report
      2020 Annual Research Report
  • [Int'l Joint Research] Fudan University/XI'an Jiao Tong University(中国)

    • Related Report
      2020 Annual Research Report
  • [Int'l Joint Research] Aalto University(フィンランド)

    • Related Report
      2020 Annual Research Report
  • [Journal Article] Central-Smoothing Hypergraph Neural Networks for Predicting Drug?Drug Interactions2023

    • Author(s)
      Nguyen Duc Anh、Nguyen Canh Hao、Mamitsuka Hiroshi
    • Journal Title

      IEEE Transactions on Neural Networks and Learning Systems

      Volume: 0 Issue: 8 Pages: 1-6

    • DOI

      10.1109/tnnls.2023.3261860

    • Related Report
      2021 Annual Research Report 2020 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Sc2Mol: a scaffold-based two-step molecule generator with variational autoencoder and transformer2022

    • Author(s)
      Liao Zhirui、Xie Lei、Mamitsuka Hiroshi、Zhu Shanfeng
    • Journal Title

      Bioinformatics

      Volume: 39 Issue: 1

    • DOI

      10.1093/bioinformatics/btac814

    • Related Report
      2021 Annual Research Report 2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] SPARSE: a sparse hypergraph neural network for learning multiple types of latent combinations to accurately predict drug?drug interactions2022

    • Author(s)
      Nguyen Duc Anh、Nguyen Canh Hao、Petschner Peter、Mamitsuka Hiroshi
    • Journal Title

      Bioinformatics

      Volume: 38 Issue: Supplement_1 Pages: i333-i341

    • DOI

      10.1093/bioinformatics/btac250

    • Related Report
      2021 Annual Research Report 2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] DeepMHCII: a novel binding core-aware deep interaction model for accurate MHC-II peptide binding affinity prediction2022

    • Author(s)
      You Ronghui、Qu Wei、Mamitsuka Hiroshi、Zhu Shanfeng
    • Journal Title

      Bioinformatics

      Volume: 38 Issue: Supplement_1 Pages: i220-i228

    • DOI

      10.1093/bioinformatics/btac225

    • Related Report
      2021 Annual Research Report 2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] DIVERSE: Bayesian Data IntegratiVE Learning for Precise Drug ResponSE Prediction2022

    • Author(s)
      Paltun Betul Guvenc、Kaski Samuel、Mamitsuka Hiroshi
    • Journal Title

      IEEE/ACM Transactions on Computational Biology and Bioinformatics

      Volume: 19 Issue: 4 Pages: 2197-2207

    • DOI

      10.1109/tcbb.2021.3065535

    • Related Report
      2021 Annual Research Report 2020 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] HPODNets: deep graph convolutional networks for predicting human protein?phenotype associations2021

    • Author(s)
      Liu Lizhi、Mamitsuka Hiroshi、Zhu Shanfeng
    • Journal Title

      Bioinformatics

      Volume: 38 Issue: 3 Pages: 799-808

    • DOI

      10.1093/bioinformatics/btab729

    • Related Report
      2021 Annual Research Report 2020 Annual Research Report 2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Crop loss identification at field parcel scale using satellite remote sensing and machine learning2021

    • Author(s)
      Hiremath Santosh、Wittke Samantha、Palosuo Taru、Kaivosoja Jere、Tao Fulu、Proll Maximilian、Puttonen Eetu、Peltonen-Sainio Pirjo、Marttinen Pekka、Mamitsuka Hiroshi
    • Journal Title

      PLOS ONE

      Volume: 16 Issue: 12 Pages: e0251952-e0251952

    • DOI

      10.1371/journal.pone.0251952

    • Related Report
      2020 Annual Research Report 2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Machine Learning for Metabolic Identification2021

    • Author(s)
      Nguyen Dai Hai、Nguyen Canh Hao、Mamitsuka Hiroshi
    • Journal Title

      Creative Complex Systems

      Volume: - Pages: 329-350

    • DOI

      10.1007/978-981-16-4457-3_20

    • ISBN
      9789811644566, 9789811644573
    • Related Report
      2020 Annual Research Report 2019 Annual Research Report
  • [Journal Article] Drug3D-DTI: Improved Drug-target Interaction Prediction by Incorporating Spatial Information of Small Molecules2021

    • Author(s)
      Liao Zhirui、Huang Xiaodi、Mamitsuka Hiroshi、Zhu Shanfeng
    • Journal Title

      Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine (BIBM 2021)

      Volume: - Pages: 340-347

    • DOI

      10.1109/bibm52615.2021.9669707

    • Related Report
      2020 Annual Research Report 2019 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Machine learning approaches for drug combination therapies2021

    • Author(s)
      G?ven??Paltun Bet?l、Kaski Samuel、Mamitsuka Hiroshi
    • Journal Title

      Briefings in Bioinformatics

      Volume: 22 Issue: 6

    • DOI

      10.1093/bib/bbab293

    • Related Report
      2020 Annual Research Report 2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Learning subtree pattern importance for Weisfeiler-Lehman based graph kernels2021

    • Author(s)
      Nguyen Dai Hai、Nguyen Canh Hao、Mamitsuka Hiroshi
    • Journal Title

      Machine Learning

      Volume: 110 Issue: 7 Pages: 1587-1607

    • DOI

      10.1007/s10994-021-05991-y

    • Related Report
      2020 Annual Research Report 2019 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] DeepGraphGO: graph neural network for large-scale, multispecies protein function prediction2021

    • Author(s)
      You Ronghui、Yao Shuwei、Mamitsuka Hiroshi、Zhu Shanfeng
    • Journal Title

      Bioinformatics

      Volume: 37 Issue: Supplement_1 Pages: i262-i271

    • DOI

      10.1093/bioinformatics/btab270

    • Related Report
      2020 Annual Research Report 2019 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] HPOFiller: identifying missing protein?phenotype associations by graph convolutional network2021

    • Author(s)
      Liu Lizhi、Mamitsuka Hiroshi、Zhu Shanfeng
    • Journal Title

      Bioinformatics

      Volume: 37 Issue: 19 Pages: 3328-3336

    • DOI

      10.1093/bioinformatics/btab224

    • Related Report
      2020 Annual Research Report 2019 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] XGSEA: CROSS-species gene set enrichment analysis via domain adaptation2021

    • Author(s)
      Cai Menglan、Hao Nguyen Canh、Mamitsuka Hiroshi、Li Limin
    • Journal Title

      Briefings in Bioinformatics

      Volume: 22 Issue: 5

    • DOI

      10.1093/bib/bbaa406

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Eukaryotic virus composition can predict the efficiency of carbon export in the global ocean2021

    • Author(s)
      Kaneko Hiroto、Blanc-Mathieu Romain、Endo Hisashi、Chaffron Samuel、Delmont Tom O.、Gaia Morgan、Henry Nicolas、Hern?ndez-Vel?zquez Rodrigo、Nguyen Canh Hao、Mamitsuka Hiroshi、Forterre Patrick、Jaillon Olivier、de Vargas Colomban、Sullivan Matthew B.、Suttle Curtis A.、Guidi Lionel、Ogata Hiroyuki
    • Journal Title

      iScience

      Volume: 24 Issue: 1 Pages: 102002-102002

    • DOI

      10.1016/j.isci.2020.102002

    • NAID

      120006951684

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Reshaped tensor nuclear norms for higher order tensor completion2021

    • Author(s)
      Wimalawarne Kishan、Mamitsuka Hiroshi
    • Journal Title

      Machine Learning

      Volume: 110 Issue: 3 Pages: 507-531

    • DOI

      10.1007/s10994-020-05927-y

    • NAID

      120007002690

    • Related Report
      2020 Annual Research Report 2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] BERTMeSH: deep contextual representation learning for large-scale high-performance MeSH indexing with full text2020

    • Author(s)
      You Ronghui、Liu Yuxuan、Mamitsuka Hiroshi、Zhu Shanfeng
    • Journal Title

      Bioinformatics

      Volume: 37 Issue: 5 Pages: 684-692

    • DOI

      10.1093/bioinformatics/btaa837

    • Related Report
      2020 Annual Research Report 2019 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Learning on Hypergraphs with Sparsity2020

    • Author(s)
      Nguyen Hao Canh、Mamitsuka Hiroshi
    • Journal Title

      IEEE Transactions on Pattern Analysis and Machine Intelligence

      Volume: 1 Pages: 1-1

    • DOI

      10.1109/tpami.2020.2974746

    • Related Report
      2020 Annual Research Report 2019 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Scaled Coupled Norms and Coupled Higher-Order Tensor Completion2020

    • Author(s)
      Wimalawarne Kishan、Yamada Makoto、Mamitsuka Hiroshi
    • Journal Title

      Neural Computation

      Volume: 32 Issue: 2 Pages: 447-484

    • DOI

      10.1162/neco_a_01254

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Efficiently Enumerating Substrings with Statistically Significant Frequencies of Locally Optimal Occurrences in Gigantic String2020

    • Author(s)
      Nakamura Atsuyoshi、Takigawa Ichigaku、Mamitsuka Hiroshi
    • Journal Title

      Proceedings of the AAAI Conference on Artificial Intelligence

      Volume: 34 Issue: 04 Pages: 5240-5247

    • DOI

      10.1609/aaai.v34i04.5969

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Scalable Probabilistic Matrix Factorization with Graph-Based Priors2020

    • Author(s)
      Strahl Jonathan、Peltonen Jaakko、Mamitsuka Hirsohi、Kaski Samuel
    • Journal Title

      Proceedings of the AAAI Conference on Artificial Intelligence

      Volume: 34 Issue: 04 Pages: 5851-5858

    • DOI

      10.1609/aaai.v34i04.6043

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] HPOLabeler: improving prediction of human protein?phenotype associations by learning to rank2020

    • Author(s)
      Liu Lizhi、Huang Xiaodi、Mamitsuka Hiroshi、Zhu Shanfeng
    • Journal Title

      Bioinformatics

      Volume: 36 Issue: 14 Pages: 4180-4188

    • DOI

      10.1093/bioinformatics/btaa284

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Improving drug response prediction by integrating multiple data sources: matrix factorization, kernel and network-based approaches2019

    • Author(s)
      Guvenq Paltun Betel、Mamitsuka Hiroshi、Kaski Samuel
    • Journal Title

      Briefings in Bioinformatics

      Volume: - Issue: 1 Pages: 346-359

    • DOI

      10.1093/bib/bbz153

    • Related Report
      2020 Annual Research Report 2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] A survey on adverse drug reaction studies: data, tasks and machine learning methods2019

    • Author(s)
      Nguyen Duc Anh、Nguyen Canh Hao、Mamitsuka Hiroshi
    • Journal Title

      Briefings in Bioinformatics

      Volume: 1 Issue: 1 Pages: 1-1

    • DOI

      10.1093/bib/bbz140

    • Related Report
      2020 Annual Research Report 2019 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] ADAPTIVE: leArning DAta-dePendenT, concIse molecular VEctors for fast, accurate metabolite identification from tandem mass spectra2019

    • Author(s)
      Dai Hai Nguyen, Canh Hao Nguyen, Hiroshi Mamitsuka
    • Journal Title

      Bioinformatics

      Volume: 35 Issue: 14 Pages: 164-172

    • DOI

      10.1093/bioinformatics/btz319

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] NetGO: improving large-scale protein function prediction with massive network information2019

    • Author(s)
      You Ronghui、Yao Shuwei、Xiong Yi、Huang Xiaodi、Sun Fengzhu、Mamitsuka Hiroshi、Zhu Shanfeng
    • Journal Title

      Nucleic Acids Research

      Volume: 47 Issue: W1 Pages: W379-W387

    • DOI

      10.1093/nar/gkz388

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Fast and Robust Multi-View Multi-Task Learning via Group Sparsity2019

    • Author(s)
      Sun Lu、Nguyen Canh Hao、Mamitsuka Hiroshi
    • Journal Title

      Proceedings of the 28th International Joint Conference on Artificial Intelligence (IJCAI 2019)

      Volume: - Pages: 3499-3505

    • DOI

      10.24963/ijcai.2019/485

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Multiplicative Sparse Feature Decomposition for Efficient Multi-View Multi-Task Learning2019

    • Author(s)
      Sun Lu、Nguyen Canh Hao、Mamitsuka Hiroshi
    • Journal Title

      Proceedings of the 28th International Joint Conference on Artificial Intelligence (IJCAI 2019)

      Volume: - Pages: 3506-3512

    • DOI

      10.24963/ijcai.2019/486

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] AttentionXML: Label Tree-based Attention-Aware Deep Model for High-Performance Extreme Multi-Label Text Classification.2019

    • Author(s)
      You, R., Dai, S., Zhang, Z., Mamitsuka, H. and Zhu, S.
    • Journal Title

      Proceedings of the 33rd Annual Conference on Neural Information Processing Systems (NeurIPS 2019)

      Volume: - Pages: 5820-5830

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] FullMeSH: improving large-scale MeSH indexing with full text2019

    • Author(s)
      Dai Suyang、You Ronghui、Lu Zhiyong、Huang Xiaodi、Mamitsuka Hiroshi、Zhu Shanfeng
    • Journal Title

      Bioinformatics

      Volume: 36 Issue: 5 Pages: 1533-1541

    • DOI

      10.1093/bioinformatics/btz756

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research

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Published: 2019-04-18   Modified: 2024-01-30  

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