The Longest Common Subsequence Problem for Arc-Annotated Sequences

  • Tao Jiang
  • Guo-Hui Lin
  • Bin Ma
  • Kaizhong Zhang
Conference paper
Part of the Lecture Notes in Computer Science book series (LNCS, volume 1848)


Arc-annotated sequences are useful in representing the structural information of RNA and protein sequences. Recently, the longest arc-preserving common subsequence problem has been introduced in [[6],[7]] as a framework for studying the similarity of arc-annotated sequences. In this paper, we consider arc-annotated sequences with various arc structures and present some new algorithmic and complexity results on the longest arc-preserving common subsequence problem. Some of our results answer an open question in [[6],[7]] and some others improve the hardness results in [[6],[7]].


Sequence annotation longest common subsequence approximation algorithm maximum independent set MAX SNP-hard dynamic programming 


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Copyright information

© Springer-Verlag Berlin Heidelberg 2000

Authors and Affiliations

  • Tao Jiang
    • 1
    • 4
  • Guo-Hui Lin
    • 2
    • 4
  • Bin Ma
    • 2
  • Kaizhong Zhang
    • 3
  1. 1.Department of Computer ScienceUniversity of CaliforniaRiverside
  2. 2.Department of Computer ScienceUniversity of WaterlooWaterlooCanada
  3. 3.Department of Computer ScienceUniversity of Western OntarioLondonCanada
  4. 4.Department of Computing and SoftwareMcMaster University HamiltonOntarioCanada

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