Hairpin-based state machine and conformational addressing: Design and experiment
Natural Computing: an international journal
Chain reaction systems based on loop dissociation of DNA
DNA'05 Proceedings of the 11th international conference on DNA Computing
DNA hybridization catalysts and catalyst circuits
DNA'04 Proceedings of the 10th international conference on DNA computing
Aqueous computing with DNA hairpin-based RAM
DNA'04 Proceedings of the 10th international conference on DNA computing
An inexpensive LED-Based fluorometer used to study a hairpin-based DNA nanomachine
DNA'04 Proceedings of the 10th international conference on DNA computing
Dynamic neighborhood searches for thermodynamically designing DNA sequence
DNA13'07 Proceedings of the 13th international conference on DNA computing
A geometrical allosteric DNA switch
UC'10 Proceedings of the 9th international conference on Unconventional computation
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DNA machines consisting of consecutive hairpins, which we have previously described, have various potential applications in DNA computation. In the present study, a 288-base DNA machine containing four consecutive hairpins was successfully constructed by ligation and PCR. PAGE and fluorescence spectroscopy experiments verified that all four hairpins were successfully opened by four opener oligomers, and that hairpin opening was dependent on the proper openers added in the correct order. Quantitative analysis of the final results by fluorescence spectroscopy indicated that all four hairpins were open in about 1/4 to 1/3 of the DNA machines.