RAMHA(tm): Monte Carlo simulation of the random mutagenesis of
synthetic cDNAs David P. Siderovski Department of Medical
Biophysics, University of Toronto, Toronto, Ontario M4X 1K9
CANADA INTERNET: Siderovski@Galen.OCI.UToronto.CA (This text is
paraphrased from the article Siderovski, D.P. (1992) Computer
Applications in the Biosciences [submitted].) Random mutagenesis
is a powerful tool in protein structure-function analysis. One
approach is the synthesis of cDNA sequences using doped
nucleoside phosphoramidites. A Turbo PASCAL program, RAMHA(tm),
was written for modelling this method of random cDNA mutagenesis
on PC-compatible computers. With RAMHA(tm), one can enter cDNA
sequences and various parameters of the mutagenesis (e.g.,
nucleotide doping level, span of DNA sequence to be mutagenized,
position of codons known to be sensitive to mutation). RAMHA(tm)
will then simulate the synthesis of a user-specified number of
oligos, translate each into polypeptides, and accumulate various
statistics, including av