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A Dynamic Programming Algorithm for Circular Single-stranded DNA Tiles Secondary Structure Prediction |
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PP: 2533-2538 |
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Author(s) |
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Zhang Kai,
Huang Xinquan,
Shi Xiaolong,
Qiang Xiaoli,
Song Tao,
Shi Xinzhu,
Chen Zhihua,
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Abstract |
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| The design of DNA sequences is critical for many research fields such as DNA self-assembly, DNA hybridization arrays,
DNA computing, and PCR-based applications. DNA secondary structure prediction is the key part for these DNA nanotechnologies. In
this paper, we present a dynamic programming algorithm to predict the secondary structure of single-stranded DNA tiles. The algorithm
calculates all possible maximum matches based on the nearest-neighbour model and global energy minimization. Experimental results
show that the algorithm performers significantly to predict secondary structures for single-stranded DNA tiles. |
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