Research on multiple alignments for alternative splicing

Hongkai Ji, Qing Zhou, Fang Wen, Liang Ji

Research output: Contribution to journalArticlepeer-review


A heuristic algorithm for multiple alignment was developed to more effectively study alternative splicing patterns of eukaryotic genes. The segment-to-segment alignment is guided by a guide-tree. The time for constructing the guide-tree is reduced remarkably by adopting a similarity estimation model which estimates the similarities between sequences from the total number of hits. The segment-to-segment alignment eliminates the problem introduced by the gap which exits in traditional alignments so that alternative splicing patterns are revealed more precisely. The new method for constructing the guide-tree combined with the basic local alignment search tool increases the algorithm speed compared with other multiple alignment algorithms. This algorithm is a new way to study alternative splicing.

Original languageEnglish (US)
Pages (from-to)111-114
Number of pages4
JournalQinghua Daxue Xuebao/Journal of Tsinghua University
Issue number9
StatePublished - Sep 2001
Externally publishedYes


  • Alternative splicing
  • Guide-tree
  • Multiple alignment
  • Segment-to-segment alignment

ASJC Scopus subject areas

  • Engineering(all)
  • Computer Science Applications
  • Applied Mathematics


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