Efficient algorithms for regular expression constrained sequence alignment

DOI10.1016/J.IPL.2007.04.007MaRDI QIDQ2379980zbMATH OpenOpenAlexFDO

Authors Yun-Sheng Chung, Chin Lung Lu, Chuan Yi Tang

Publication date 24 March 2010

Published in Information Processing Letters (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1016/j.ipl.2007.04.007

zbMATH Keywords

algorithmsconstrained sequence alignmentdynamic programmingregular expression

Mathematics Subject Classification ID

Formal languages and automata (68Q45) Nonnumerical algorithms (68W05) Dynamic programming (90C39)

Recommendations

• Efficient Algorithms for Regular Expression Constrained Sequence Alignment
• Practical regular expression constrained sequence alignment
• Regular expression constrained sequence alignment
• Combinatorial Pattern Matching
• Regular language constrained sequence alignment revisited

Cites work

• A linear space algorithm for computing maximal common subsequences
• A simple algorithm for the constrained sequence problems
• Combinatorial Pattern Matching
• scientific article; zbMATH DE number 1517989 (Why is no real title available?)
• The constrained longest common subsequence problem

Cited in

(10)

• Practical regular expression constrained sequence alignment
• Regular language constrained sequence alignment revisited
• SA-REPC -- sequence alignment with regular expression path constraint
• Algorithms for path-constrained sequence alignment
• An algorithm and applications to sequence alignment with weighted constraints
• Efficient Algorithms for Regular Expression Constrained Sequence Alignment
• A fast algorithm for the constrained multiple sequence alignment problem
• Combinatorial Pattern Matching
• Regular expression constrained sequence alignment
• Efficient sequence alignment with side-constraints by cluster tree elimination

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Uses Software

• PROSITE
• MuSiC

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