Estimation of the optimal electrophoretic temperature of DNA single-strand conformation polymorphism by DNA base composition.
To explore the relation between DNA base composition and the optimal single-strand conformation polymorphism (SSCP) electrophoretic temperature (T(s)), we analyzed DNA base composition and T(s) of 24 DNA fragments from different genes and found that T(s) was positively correlative with the ratio of base C/base A. T(s) could be estimated by the formula T(s) = [80 x C/(A+1)]/[2.71 + [C/(A+1)]]. T(s) could be increased dramatically by the complementary sequences in both 5'-and 3'-ends of a DNA single-strand.
Li
Wei
W
Laboratory of Pediatrics, Medical Scientific Research Center, Guangxi Medical University, China. liwei60@yahoo.com
Gao
Feng
F
Liang
Junlin
J
Li
Chensheng
C
Zhang
Haitian
H
Tang
Zongjiang
Z
Chen
Lisheng
L
Jin
Qi
Q
Tang
Weizhong
W
D001482:Base Composition; D004247:DNA / Q000032:analysis* / Q000737:chemistry; D017931:DNA Primers; D004591:Electrophoresis, Polyacrylamide Gel / Q000379:methods*; D018807:Polymorphism, Single-Stranded Conformational; D013696:Temperature
D017931:DNA Primers; D004247:DNA