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For: Badelt S, Grun C, Sarma KV, Wolfe B, Shin SW, Winfree E. A domain-level DNA strand displacement reaction enumerator allowing arbitrary non-pseudoknotted secondary structures. J R Soc Interface 2020;17:20190866. [PMID: 32486951 PMCID: PMC7328391 DOI: 10.1098/rsif.2019.0866] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2019] [Accepted: 04/21/2020] [Indexed: 12/30/2022]  Open
Number Cited by Other Article(s)
1
Kumar S, Lakin MR. A geometric framework for reaction enumeration in computational nucleic acid devices. J R Soc Interface 2023;20:20230259. [PMID: 37963554 PMCID: PMC10645505 DOI: 10.1098/rsif.2023.0259] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2023] [Accepted: 10/23/2023] [Indexed: 11/16/2023]  Open
2
Lakin MR. Design and Simulation of a Multilayer Chemical Neural Network That Learns via Backpropagation. ARTIFICIAL LIFE 2023;29:308-335. [PMID: 37141578 DOI: 10.1162/artl_a_00405] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/06/2023]
3
Chen C, Wen J, Wen Z, Song S, Shi X. DNA strand displacement based computational systems and their applications. Front Genet 2023;14:1120791. [PMID: 36911397 PMCID: PMC9992816 DOI: 10.3389/fgene.2023.1120791] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2022] [Accepted: 02/13/2023] [Indexed: 02/24/2023]  Open
4
Catalyst-Based Biomolecular Logic Gates. Catalysts 2022. [DOI: 10.3390/catal12070712] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]  Open
5
Fil J, Dalchau N, Chu D. Programming Molecular Systems To Emulate a Learning Spiking Neuron. ACS Synth Biol 2022;11:2055-2069. [PMID: 35622431 PMCID: PMC9208023 DOI: 10.1021/acssynbio.1c00625] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
6
Zarubiieva I, Spaccasassi C, Kulkarni V, Phillips A. Automated Leak Analysis of Nucleic Acid Circuits. ACS Synth Biol 2022;11:1931-1948. [PMID: 35544754 DOI: 10.1021/acssynbio.2c00084] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
7
Shang Z, Zhou C, Zhang Q. Chemical Reaction Networks’ Programming for Solving Equations. Curr Issues Mol Biol 2022;44:1725-1739. [PMID: 35723377 PMCID: PMC9164072 DOI: 10.3390/cimb44040119] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2022] [Revised: 04/11/2022] [Accepted: 04/12/2022] [Indexed: 11/16/2022]  Open
8
Poole W, Pandey A, Shur A, Tuza ZA, Murray RM. BioCRNpyler: Compiling chemical reaction networks from biomolecular parts in diverse contexts. PLoS Comput Biol 2022;18:e1009987. [PMID: 35442944 PMCID: PMC9060376 DOI: 10.1371/journal.pcbi.1009987] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2021] [Revised: 05/02/2022] [Accepted: 03/03/2022] [Indexed: 11/23/2022]  Open
9
Zamoskovtseva AA, Golyshev VM, Kizilova VA, Shevelev GY, Pyshnyi DV, Lomzov AA. Pairing nanoarchitectonics of oligodeoxyribonucleotides with complex diversity: concatemers and self-limited complexes. RSC Adv 2022;12:6416-6431. [PMID: 35424594 PMCID: PMC8981972 DOI: 10.1039/d2ra00155a] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2022] [Accepted: 02/15/2022] [Indexed: 11/21/2022]  Open
10
Cazenille L, Baccouche A, Aubert-Kato N. Automated exploration of DNA-based structure self-assembly networks. ROYAL SOCIETY OPEN SCIENCE 2021;8:210848. [PMID: 34754499 PMCID: PMC8493194 DOI: 10.1098/rsos.210848] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/12/2021] [Accepted: 09/15/2021] [Indexed: 06/13/2023]
11
Zou C, Wei X, Zhang Q, Zhou C, Zhou S. Encryption Algorithm Based on DNA Strand Displacement and DNA Sequence Operation. IEEE Trans Nanobioscience 2021;20:223-234. [PMID: 33577453 DOI: 10.1109/tnb.2021.3058399] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
12
Lakin MR, Phillips A. Domain-Specific Programming Languages for Computational Nucleic Acid Systems. ACS Synth Biol 2020;9:1499-1513. [PMID: 32589838 DOI: 10.1021/acssynbio.0c00050] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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