Towards a general-purpose sequence design system in DNA computing

Multiobjective Evolutionary Optimization of DNA Sequences for Reliable DNA Computing

“…The secondary structure is more prohibited due to the very low continuity and hairpin, and the width of the range of melting temperatures and GC ratio are better. In our sequences, the longest length of the [44] AND OUR SEQUENCES repeated base is three which appears only once, whereas it is five that of Deaton et al was applied.…”

“…We analyzed sequences from several publications and those generated by NACST/Seq with comparable restrictions. Sequences were taken from the results of Deaton et al [17], [43], Tanaka et al [44], and Faulhammer et al [26]. The parameters for NACST/Seq were as follows.…”

“…The population size was 3000 and the maximum generation was 200 for [26] and [43]. The population size was 5000 and the maximum generation was 300 for [44]. Here, we constrained only the GC ratio, since the range of melting temperature was not given in the references.…”

“…Here, we constrained only the GC ratio, since the range of melting temperature was not given in the references. For [43] and [44], Table III. NACST/Seq shows better results for all objectives.…”

“…Then, we compared the sequences in [44] generated by simulated annealing. Tanaka et al designed a set of 20 DNA sequences whose length is 20-mer, as shown in Table IV.…”