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Development of Practical Succinct Data Structures with Application to Huge Data

Research Project

Project/Area Number 19680001
Research Category

Grant-in-Aid for Young Scientists (A)

Allocation TypeSingle-year Grants
Research Field Fundamental theory of informatics
Research InstitutionKyushu University

Principal Investigator

SADAKANE Kunihiko  Kyushu University, 情報学プリンシプル研究系, 准教授 (20323090)

Project Period (FY) 2007 – 2010
Project Status Completed (Fiscal Year 2010)
Budget Amount *help
¥18,980,000 (Direct Cost: ¥14,600,000、Indirect Cost: ¥4,380,000)
Fiscal Year 2010: ¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000)
Fiscal Year 2009: ¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000)
Fiscal Year 2008: ¥4,680,000 (Direct Cost: ¥3,600,000、Indirect Cost: ¥1,080,000)
Fiscal Year 2007: ¥5,980,000 (Direct Cost: ¥4,600,000、Indirect Cost: ¥1,380,000)
Keywordsデータ圧縮 / 情報検索 / 文字列検索 / 簡潔データ構造 / 接尾辞配列 / 接尾辞木 / 圧縮接尾辞配列 / 順序木 / アルゴリズム理論 / データ構造
Research Abstract

There had been only theoretical researches on succinct data structures. In this research, we have developed succinct data structures which solve the problems of using them on actual computers. For ordinal trees, we have reduced the size of succinct data structures by 40%, while supporting various operations which had not been supported in existing data structures. We have also created a library of compressed suffix arrays and compressed suffix trees, which are succinct data structures for string searches. By using it, we can reduce the size of the data structure, which is used for searching text data of 110 Gigabytes, from 680 Gigabytes to 22 Gigabytes.

Report

(6 results)
  • 2010 Annual Research Report   Final Research Report ( PDF )
  • 2009 Annual Research Report   Self-evaluation Report ( PDF )
  • 2008 Annual Research Report
  • 2007 Annual Research Report
  • Research Products

    (47 results)

All 2011 2010 2009 2008 2007 Other

All Journal Article (34 results) (of which Peer Reviewed: 34 results) Presentation (9 results) Remarks (4 results)

  • [Journal Article] Random Access to grammar-Compressed Strings2011

    • Author(s)
      P.Bille, G.M.Landau, R.Raman, K.Sadakane, S.S.Rao, O.Weimann.
    • Journal Title

      Proceedings of ACM-SIAM SODA

      Pages: 373-389

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Random Access to grammar-Compressed Strings2011

    • Author(s)
      Philip Bille, Gad M.Landau, Rajeev Raman, Kunihiko Sadakane, Srinivasa Rao Satti, Oren Weimann
    • Journal Title

      Proceedings of ACM-SIAM SODA

      Pages: 373-389

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Faster Computation of the Robinson-Foulds Distance between Phylogenetic Networks2010

    • Author(s)
      T.Asano, J.Jansson, K.Sadakane, R.Uehara, G.Valiente
    • Journal Title

      Proceedings of CPM LNCS 6129

      Pages: 190-201

    • NAID

      120003184350

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] 高速復元可能な接尾辞配列圧縮法2010

    • Author(s)
      田中洋輔, 小野廣隆, 定兼邦彦, 山下雅史
    • Journal Title

      電子情報通信学会論文誌D J93-D(8)

      Pages: 1567-1575

    • NAID

      110007681693

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Fully-Functional Succinct Trees2010

    • Author(s)
      K.Sadakane, G.Navarro
    • Journal Title

      Proceedings of ACM-SIAM SODA

      Pages: 134-149

    • Related Report
      2010 Final Research Report 2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Succinct Trees in Practice2010

    • Author(s)
      D.Arroyuelo, R.Canovas, G.Navarro, K.Sadakane
    • Journal Title

      Proceedings of Workshop on Algorithm Engineering and Experiments (ALENEX)

      Pages: 84-97

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Faster Computation of the Robinson-Foulds Distance between Phylogenetic Networks2010

    • Author(s)
      Tetsuo Asano, Jesper Jansson, Kunihiko Sadakane, Ryuhei Uehara, Gabriel Valiente
    • Journal Title

      Proceedings of CPM

      Volume: LNCS 6129 Pages: 190-201

    • NAID

      120003184350

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] 高速復元可能な接尾辞配列圧縮法2010

    • Author(s)
      田中洋輔, 小野廣隆, 定兼邦彦, 山下雅史
    • Journal Title

      電子情報通信学会論文誌D

      Volume: J93-D(8) Pages: 1567-1575

    • NAID

      110007681693

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Fully- Functional Succinct Trees2010

    • Author(s)
      K. Sadakane, G. Navarro
    • Journal Title

      SODA

      Pages: 134-149

    • Related Report
      2009 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] Succinct Trees in Practice2010

    • Author(s)
      D. Arroyuelo, R. Canovas, G. Navarro, K. Sadakane
    • Journal Title

      ALENEX

      Pages: 84-97

    • Related Report
      2009 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] Succinct Trees in Practice2010

    • Author(s)
      D.Arroyuelo, R.Canovas, G.Navarro, K.Sadakane
    • Journal Title

      Proceedings of Workshop on Algorithm Engineering and Experiments(ALENEX)

      Pages: 84-97

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] A Linear-Time Burrows-Wheeler Transform Using Induced Sorting2009

    • Author(s)
      D.Okanohara, K.Sadakane
    • Journal Title

      Proceedings of SPIRE LNCS5721

      Pages: 90-101

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Breaking a Time-and-Space Barrier in Constructing Full-Text Indices2009

    • Author(s)
      W.K.Hon, K.Sadakane, W.K.Sung
    • Journal Title

      SIAM Journal on Computing 38(6)

      Pages: 2162-2178

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] A Linear-Time Burrows-Wheeler Transform Using Induced Sorting.2009

    • Author(s)
      Daisuke Okanohara, Kunihiko Sadakane
    • Journal Title

      SPIRE

      Pages: 90-101

    • Related Report
      2009 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] Breaking a Time-and-Space Barrier in Constructing Full-Text Indices.2009

    • Author(s)
      Wing-Kai Hon, Kunihiko Sadakane, Wing-Kin Sung
    • Journal Title

      SIAM J. Comput. 38(6)

      Pages: 2162-2178

    • Related Report
      2009 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] A Linear-Time Burrows-Wheeler Transform Using Induced Sorting2009

    • Author(s)
      D.Okanohara, K.Sadakane
    • Journal Title

      Proceedings of SPIRE LNCS 5721

      Pages: 90-101

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Breaking a Time-and-Space Barrier in Constructing Full-Text Indices2009

    • Author(s)
      W. K. Hon, K. Sadakane, W. K. Sung
    • Journal Title

      SIAM Journal on Computing 38(6)

      Pages: 2162-2178

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] An Online Algorithm for Finding the Longest Previous Factors2009

    • Author(s)
      D. Okanohara, K. Sadakane
    • Journal Title

      Proc. 16th Annual European Symposium (ESA) LNCS 5193

      Pages: 696-707

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] An Online Algorithm for Finding the Longest Previous Factors2008

    • Author(s)
      D.Okanohara, K.Sadakane
    • Journal Title

      Proc.16th Annual European Symposium (ESA) LNCS 5193

      Pages: 696-707

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] An Online Algorithm for Finding the Longest Previous Factors.2008

    • Author(s)
      Daisuke Okanohara, Kunihiko Sadakane
    • Journal Title

      ESA

      Pages: 696-707

    • Related Report
      2009 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] Faster Suffix Sorting2007

    • Author(s)
      J.Larsson, K.Sadakane
    • Journal Title

      Theoretical Computer Science 387(3)

      Pages: 258-272

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Compressed Suffix Trees with Full Functionality.2007

    • Author(s)
      K.Sadakane
    • Journal Title

      Theory of Computing Systems. 41(4)

      Pages: 589-607

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Succinct Data Structures for Flexible Text Retrieval Systems2007

    • Author(s)
      K.Sadakane
    • Journal Title

      Journal of Discrete Algorithms 5(1)

      Pages: 12-22

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Practical Entropy-Compressed Rank/Select Dictionary.2007

    • Author(s)
      Daisuke Okanohara, Kunihiko Sadakane
    • Journal Title

      ALENEX

    • Related Report
      2009 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] Compressed Dynamic Tries with Applications to LZ-Compression in Sublinear Time and Space.2007

    • Author(s)
      Jesper Jansson, Kunihiko Sadakane, Wing-Kin Sung
    • Journal Title

      FSTTCS

      Pages: 424-435

    • Related Report
      2009 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] Ultra-succinct representation of ordered trees.2007

    • Author(s)
      Jesper Jansson, Kunihiko Sadakane, Wing-Kin Sung
    • Journal Title

      SODA

      Pages: 575-584

    • Related Report
      2009 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] Compressed indexes fordynamiext collectionACM2007

    • Author(s)
      Ho-Leung Chan, Wing-Kai Hon, Tak Wah Lam, Kunihiko Sadakane
    • Journal Title

      Transactions on Algorithms 3(2)

    • Related Report
      2009 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] A Space and Time Efficient Algorithm for Constructing Compressed Suffix Arrays.2007

    • Author(s)
      Wing-Kai Hon, Tak Wah Lam, Kunihiko Sadakane, Wing-Kin Sung, Siu-Ming Yiu
    • Journal Title

      Algorithmica 48(1)

      Pages: 23-36

    • Related Report
      2009 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] Succinct data structures for flexible text retrieval systems.2007

    • Author(s)
      Kunihiko Sadakane
    • Journal Title

      J. Discrete Algorithms 5(1)

      Pages: 12-22

    • Related Report
      2009 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] Faster suffix sorting.2007

    • Author(s)
      N. Jesper Larsson, Kunihiko Sadakane
    • Journal Title

      Theoretical Computer Science 387(3)

      Pages: 258-272

    • Related Report
      2009 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] Compressed Suffix Trees with Full Functionality.2007

    • Author(s)
      Kunihiko Sadakane
    • Journal Title

      Theory of Computing Systems 41(4)

      Pages: 589-607

    • Related Report
      2009 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] Faster Suffix Sorting2007

    • Author(s)
      J, Larsson・K, Sadakane
    • Journal Title

      Theoretical Computer Science 387(3):

      Pages: 258-272

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Compressed Suffix Trees with Full Functionality2007

    • Author(s)
      K, Sadakane
    • Journal Title

      Theory of Computing Systems 41(4):

      Pages: 589-607

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Succinct Data Structures for Flexible Text Retrieval Systems2007

    • Author(s)
      K, Sadakane
    • Journal Title

      Journal of Discrete Algorithms 5(1):

      Pages: 12-22

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Presentation] 文法圧縮された文字列のランダムアクセス2010

    • Author(s)
      定兼邦彦
    • Organizer
      日本オペレーションズ・リサーチ学会研究部会画期における最適化
    • Place of Presentation
      京都大学
    • Year and Date
      2010-12-07
    • Related Report
      2010 Final Research Report
  • [Presentation] 文法圧縮された文字列のランダムアクセス2010

    • Author(s)
      定兼邦彦
    • Organizer
      日本オペレーションズ・リサーチ学会研究部会画期における最適化
    • Place of Presentation
      京都大学(京都府)
    • Year and Date
      2010-12-07
    • Related Report
      2010 Annual Research Report
  • [Presentation] 順序木の簡単・簡潔な表現法2009

    • Author(s)
      定兼邦彦
    • Organizer
      日本オペレーションズ・リサーチ学会研究部会画期における最適化
    • Place of Presentation
      京都大学
    • Year and Date
      2009-11-26
    • Related Report
      2010 Final Research Report
  • [Presentation] 順序木の簡単・簡潔な表現法2009

    • Author(s)
      定兼邦彦
    • Organizer
      日本オペレーションズ・リサーチ学会研究部会
    • Place of Presentation
      京都大学
    • Year and Date
      2009-11-26
    • Related Report
      2009 Self-evaluation Report
  • [Presentation] 順序木の簡単・簡潔な表現法2009

    • Author(s)
      定兼邦彦
    • Organizer
      日本オペレーションズ・リサーチ学会研究部会 画期における最適化
    • Place of Presentation
      京都大学
    • Year and Date
      2009-11-26
    • Related Report
      2009 Annual Research Report
  • [Presentation] 動的簡潔順序木2009

    • Author(s)
      定兼邦彦
    • Organizer
      電子情報通信学会コンピュテーション研究会
    • Place of Presentation
      京都大学
    • Year and Date
      2009-04-17
    • Related Report
      2010 Final Research Report 2009 Self-evaluation Report
  • [Presentation] 括弧列の簡単・簡潔な表現法2008

    • Author(s)
      定兼邦彦
    • Organizer
      電子情報通信学会コンピュテーション研究会
    • Place of Presentation
      東北大学
    • Year and Date
      2008-10-10
    • Related Report
      2010 Final Research Report 2009 Self-evaluation Report
  • [Presentation] 括弧列の簡単・簡潔な表現法2008

    • Author(s)
      定兼邦彦
    • Organizer
      電子情報通信学会コンピュテーション研究会
    • Place of Presentation
      東北大学(仙台市)
    • Year and Date
      2008-10-10
    • Related Report
      2008 Annual Research Report
  • [Presentation] DNA配列に適した圧縮全文索引2008

    • Author(s)
      定兼邦彦
    • Organizer
      電子情報通信学会コンピュテーション研究会
    • Place of Presentation
      日本IBM東京基礎研究所
    • Year and Date
      2008-03-10
    • Related Report
      2010 Final Research Report 2009 Self-evaluation Report 2007 Annual Research Report
  • [Remarks] ホームページ等

    • URL

      http://researchmap.jp/sada/csalib/

    • Related Report
      2010 Final Research Report
  • [Remarks] 圧縮接尾辞配列ライブラリcsalib

    • URL

      http://researchmap.jp/sada/csalib/

    • Related Report
      2010 Annual Research Report
  • [Remarks]

    • URL

      http://researchmap.jp/sada

    • Related Report
      2009 Self-evaluation Report
  • [Remarks]

    • URL

      http://tcslab.csce.kyushu-u.ac.jp/~sada/

    • Related Report
      2007 Annual Research Report

URL: 

Published: 2007-04-01   Modified: 2016-04-21  

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