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A binary coding method of RNA secondary structure and its application
Author(s) -
Liao Bo,
Chen Weiyang,
Sun Xingming,
Zhu Wen
Publication year - 2009
Publication title -
journal of computational chemistry
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.907
H-Index - 188
eISSN - 1096-987X
pISSN - 0192-8651
DOI - 10.1002/jcc.21227
Subject(s) - coding (social sciences) , nucleic acid secondary structure , binary number , sort , rna , computer science , protein secondary structure , theoretical computer science , computational biology , basis (linear algebra) , base pair , algorithm , base (topology) , binary code , mathematics , genetics , biology , arithmetic , dna , information retrieval , gene , mathematical analysis , biochemistry , statistics , geometry
Abstract According to the three classifications of nucleotides, we introduce a sort of binary coding method of RNA secondary structures. On the basis of this representation, we can reduce a RNA secondary structure into three binary digit sequences. We also propose coding rules based on the exclusive‐OR operation. Associating with the proposed coding rules, we can judge the mutation between bases or between base and base pair, and make sequence alignment easily. © 2009 Wiley Periodicals, Inc. J Comput Chem, 2009