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Erschienen in:
2006 | OriginalPaper | Buchkapitel
Specificity of Hybridization Between DNA Sequences Based on Free Energy
verfasst von : Fumiaki Tanaka, Atsushi Kameda, Masahito Yamamoto, Azuma Ohuchi
Erschienen in: DNA Computing
Verlag: Springer Berlin Heidelberg
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We investigated the specificity of hybridization based on a minimum free energy (Δ
G
min
) through gel electrophoresis analysis. The analysis, using 94 pairs of sequences with length 20, showed that sequences that hybridize each other can be separated using the constraint Δ
G
min
≤–14.0, but cannot be separated using the number of base pairs (
BP
) in the range from 9 to 18. This demonstrates that the Δ
G
min
is superior to the
BP
in terms of the capability to separate specific from non-specific sequences. Furthermore, the comparison between sequence design based on Δ
G
min
and that based on the
BP
, done through a computer simulation, showed that the former outperformed the latter in terms of the number of sequences designed successfully as well as the ratio of successfully designed sequences to the total number of sequences checked.