Advancing the Deoxyribozyme-Based Logic Gate Design Process

M L Fanning; Joanne Macdonald; D Stefanovic

doi:10.1007/978-3-642-10604-0_5

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Advancing the Deoxyribozyme-Based Logic Gate Design Process

Conference paper

Peer reviewed

Advancing the Deoxyribozyme-Based Logic Gate Design Process

M L Fanning, Joanne Macdonald and D Stefanovic

DNA Computing and Molecular Programming: 15th International Conference, DNA 15, Fayetteville, AR, USA, June 8-11, 2009, Revised Selected Papers, pp.45-54

International Meeting on DNA Computing and Molecular Programming, 15th (Fayetteville, United States, 08-Jun-2009–11-Jun-2009)

Lecture Notes in Computer Science (LNCS), 5877, Springer New York LLC

2009

DOI: https://doi.org/10.1007/978-3-642-10604-0_5

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Abstract

Artificial Intelligence and Image Processing

We previously described a tic-tac-toe playing molecular auto- maton, MAYA-II, constructed from a molecular array of deoxyribozyme- based logic gates, that uses oligonucleotides as inputs and outputs. We are now developing an ensemble modeling tool for high-throughput oligonucleotide input and logic gate designs. The modeling tool is based on exhaustive reconstruction of both intended and unintended reactions between MAYA-II gates and inputs, and seeks to correlate empirical observations with computational predictions. We present results from computational analysis of the MAYA-II Yes logic gate and input interactions. Results indicate that in silico modeling correlates with experimental results, creating a predictive value and benchmark. These studies serve purpose towards our goal of constructing a generalized oligonucleotide library for expansion of molecular computation networks beyond hundreds, to millions of potential interactions, conferring greater functionality in terms of both reliability and complexity.

Details

Title: Advancing the Deoxyribozyme-Based Logic Gate Design Process
Authors: M L Fanning (Author) - University of New Mexico, United States
Joanne Macdonald (Author) - Columbia University, United States
D Stefanovic (Author) - University of New Mexico, United States
Contributors: R Deaton (Editor)
A Suyama (Editor)
Publication details: DNA Computing and Molecular Programming: 15th International Conference, DNA 15, Fayetteville, AR, USA, June 8-11, 2009, Revised Selected Papers, pp.45-54
Conference details: International Meeting on DNA Computing and Molecular Programming, 15th (Fayetteville, United States, 08-Jun-2009–11-Jun-2009)
Series: Lecture Notes in Computer Science (LNCS); 5877
Publisher: Springer New York LLC
Date published: 2009
DOI: 10.1007/978-3-642-10604-0_5
Organisation Unit: School of Science and Engineering - Legacy; University of the Sunshine Coast, Queensland; School of Science, Technology and Engineering; Centre for Bioinnovation
Language: English
Record Identifier: 99450232702621
Output Type: Conference paper

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