The invention discloses a multi-constraint-based anti-parallel
DNA triplex design method and
system, and relates to the technical field of
DNA triplex targeting genes, and the method comprises the following steps: constructing an mCGR initialization model, adjusting a
matrix iteration rule according to a sequence length and a basic constraint, and generating all possible sequence sets satisfying the constraint; mapping the sequence set into flow network nodes, screening out approximate nodes through similarity search, constructing to-be-screened edges, then performing
sequence comparison on the to-be-screened edges, only reserving the edges of the sequence within a preset
stem length range, and deleting the edges beyond the range, so as to overcome the problem of
high complexity of mCGR during combined constraint calculation; and finally, outputting
a DNA triplex coding sequence meeting all constraint conditions. According to the method, the anti-parallel
DNA triplex TFO sequence meeting multiple constraints can be efficiently generated, the sequence set scale is large, the stability is high, the
crosstalk rate is low, and a key
technical support is provided for research and development of
nucleic acid drugs in the field of targeted
gene therapy.