TY - JOUR
T1 - RAMHA
T2 - A PC-based Monte-Carlo simulation of random saturation mutagenesis
AU - Siderovski, David P.
AU - Mak, Tak W.
N1 - Funding Information:
Acknowledgements-The authors thank Drs K. Pfeffer and S. L. Siderovski for manuscriptD. . P. S. was supportedb y an MRC (Canada)P h.D. Studentship.
PY - 1993/11
Y1 - 1993/11
N2 - Random mutagenesis is a powerful tool in protein structure-function analyses. One approach to random mutagenesis is the de novo synthesis of polypeptide-encoding oligodeoxy-nucleotides using doped nucleoside phosphoramidites. A Turbo PASCAL program, RAMHA, is described for modeling such mutagenesis. Upon entering the target sequence and the desired level of nucleotide contamination, RAMHA performs a Monte Carlo simulation of the mutagenesis, compiling statistics on the similarity of resultant mutant polypeptides to the wild-type sequence, the frequency of premature open-reading frame terminations, and other relevant outcomes. Simulated mutagenesis of two DNA targets has led to the development of two different strategies to avoid the random introduction of stop codons within mutagenized gene segments.
AB - Random mutagenesis is a powerful tool in protein structure-function analyses. One approach to random mutagenesis is the de novo synthesis of polypeptide-encoding oligodeoxy-nucleotides using doped nucleoside phosphoramidites. A Turbo PASCAL program, RAMHA, is described for modeling such mutagenesis. Upon entering the target sequence and the desired level of nucleotide contamination, RAMHA performs a Monte Carlo simulation of the mutagenesis, compiling statistics on the similarity of resultant mutant polypeptides to the wild-type sequence, the frequency of premature open-reading frame terminations, and other relevant outcomes. Simulated mutagenesis of two DNA targets has led to the development of two different strategies to avoid the random introduction of stop codons within mutagenized gene segments.
KW - Anti-termination strategies
KW - Computer program
KW - DNA systhesis
KW - HIV-1 Tat
KW - Modeling
KW - Monte Carlo simulation
KW - Random saturation mutagenesis
UR - http://www.scopus.com/inward/record.url?scp=0027495561&partnerID=8YFLogxK
U2 - 10.1016/0010-4825(93)90094-H
DO - 10.1016/0010-4825(93)90094-H
M3 - Article
C2 - 8306625
AN - SCOPUS:0027495561
SN - 0010-4825
VL - 23
SP - 463
EP - 474
JO - Computers in Biology and Medicine
JF - Computers in Biology and Medicine
IS - 6
ER -