article · Nature Communications · 2022
A nanopore interface for higher bandwidth DNA computing
Karen Zhang, Yuan-Jyue Chen, Delaney Wilde, Kathryn J Doroschak, Karin Strauß, Luís Ceze, Georg Seelig, Jeff Nivala
Cited by 21Open access
Abstract
DNA has emerged as a powerful substrate for programming information processing machines at the nanoscale. Among the DNA computing primitives used today, DNA strand displacement (DSD) is arguably the most popular, with DSD-based circuit applications ranging from disease diagnostics to molecular artificial neural networks. The outputs of DSD circuits are generally read using fluorescence spectroscopy. However, due to the spectral overlap of typical small-molecule fluorescent reporters, the number of unique outputs that can be detected in parallel is limited, requiring complex optical setups or spatial isolation of reactions to make output bandwidths scalable. Here, we present a multiplexable sequencing-free readout method that enables real-time, kinetic measurement of DSD circuit activity through highly parallel, direct detection of barcoded output strands using nanopore sensor array technology (Oxford Nanopore Technologies' MinION device). These results increase DSD output bandwidth by an order of magnitude over what is currently feasible with fluorescence spectroscopy.
Cite this paper
Zhang, K., Chen, Y.-J., Wilde, D., Doroschak, K. J., Strauß, K., Ceze, L., Seelig, G., & Nivala, J. (2022). A nanopore interface for higher bandwidth DNA computing. Nature Communications, 13(1), 4904. https://doi.org/10.1038/s41467-022-32526-3
Zhang, Karen, et al. “A nanopore interface for higher bandwidth DNA computing.” Nature Communications, vol. 13, no. 1, 2022, p. 4904, https://doi.org/10.1038/s41467-022-32526-3.
Zhang, Karen, Yuan-Jyue Chen, Delaney Wilde, Kathryn J Doroschak, Karin Strauß, Luís Ceze, Georg Seelig, and Jeff Nivala. 2022. “A nanopore interface for higher bandwidth DNA computing.” Nature Communications 13 (1): 4904. https://doi.org/10.1038/s41467-022-32526-3.
Zhang, K. et al. (2022) ‘A nanopore interface for higher bandwidth DNA computing’, Nature Communications, 13(1), p. 4904. Available at: https://doi.org/10.1038/s41467-022-32526-3.
@article{zhang2022nanopore,
title = {{A nanopore interface for higher bandwidth DNA computing}},
author = {Zhang, Karen and Chen, Yuan-Jyue and Wilde, Delaney and Doroschak, Kathryn J and Strauß, Karin and Ceze, Luís and Seelig, Georg and Nivala, Jeff},
journal = {Nature Communications},
volume = {13},
number = {1},
pages = {4904},
year = {2022},
doi = {10.1038/s41467-022-32526-3}
}Made from the index record. Check names, capitalisation and page numbers against the paper. Need another style? AI for Research has over 10,000.