DIROM: an experimental design interactive system for directed mutagenesis and nucleic acids engineering |
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Authors: | Makarova Kira S; Mazin Alexander V; Wolf Yury I; Soloviev Victor V |
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Institution: | Institute of Cytology and Genetics, Siberian Division of the Academy of Sciences of USSR Novosibirsk 630090, USSR
1Institute of Bioorganic Chemistry, Siberian Division of the Academy of Sciences of USSR Novosibirsk 630090, USSR |
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Abstract: | A computer system DIROM for oligonucleotide-directed mutagenesisand artificial gene design has been designed for better experimentalplanning and control. DIROM permits searching for optimal oligonucleotideswith respect to certain important parameters, namely sufficientenergy of oligonucleotide-target hybridization, the secondarystructure of oligonuc-tide and target DNA, the presence of alternatebinding sites in the target DNA and terminal G/C pairs. It canalso be used to plan polymerase chain reaction experiments,for optimal primer selection, in sequencing, etc. DIROM enablesone to search for both existing and potential restriction sites,to perform vector + target sequence construction. The systemconsists of a set of original algorithms that formalize theempirical knowledge of oligonucleotide action as primers. |
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