Literature DB >> 25597946

A survey of advancements in nucleic acid-based logic gates and computing for applications in biotechnology and biomedicine.

Cuichen Wu1, Shuo Wan, Weijia Hou, Liqin Zhang, Jiehua Xu, Cheng Cui, Yanyue Wang, Jun Hu, Weihong Tan.   

Abstract

Nucleic acid-based logic devices were first introduced in 1994. Since then, science has seen the emergence of new logic systems for mimicking mathematical functions, diagnosing disease and even imitating biological systems. The unique features of nucleic acids, such as facile and high-throughput synthesis, Watson-Crick complementary base pairing, and predictable structures, together with the aid of programming design, have led to the widespread applications of nucleic acids (NA) for logic gate and computing in biotechnology and biomedicine. In this feature article, the development of in vitro NA logic systems will be discussed, as well as the expansion of such systems using various input molecules for potential cellular, or even in vivo, applications.

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Year:  2015        PMID: 25597946      PMCID: PMC4442017          DOI: 10.1039/c4cc10047f

Source DB:  PubMed          Journal:  Chem Commun (Camb)        ISSN: 1359-7345            Impact factor:   6.222


  90 in total

1.  Parallel G-quadruplex-specific fluorescent probe for monitoring DNA structural changes and label-free detection of potassium ion.

Authors:  Tao Li; Erkang Wang; Shaojun Dong
Journal:  Anal Chem       Date:  2010-09-15       Impact factor: 6.986

2.  Deoxyribozyme-based three-input logic gates and construction of a molecular full adder.

Authors:  Harvey Lederman; Joanne Macdonald; Darko Stefanovic; Milan N Stojanovic
Journal:  Biochemistry       Date:  2006-01-31       Impact factor: 3.162

3.  Specific interactions between silver(I) ions and cytosine-cytosine pairs in DNA duplexes.

Authors:  Akira Ono; Shiqi Cao; Humika Togashi; Mitsuru Tashiro; Takashi Fujimoto; Tomoya Machinami; Shuji Oda; Yoko Miyake; Itaru Okamoto; Yoshiyuki Tanaka
Journal:  Chem Commun (Camb)       Date:  2008-08-22       Impact factor: 6.222

4.  Design of a DNA electronic logic gate (INHIBIT gate) with an assaying application for Ag+ and cysteine.

Authors:  Xi Zhu; Huifeng Xu; Xiaoyao Gao; Xianghui Li; Qida Liu; Zhenyu Lin; Bin Qiu; Guonan Chen
Journal:  Chem Commun (Camb)       Date:  2011-07-12       Impact factor: 6.222

5.  A DNA enzyme that cleaves RNA.

Authors:  R R Breaker; G F Joyce
Journal:  Chem Biol       Date:  1994-12

6.  A DNA enzyme with Mg(2+)-dependent RNA phosphoesterase activity.

Authors:  R R Breaker; G F Joyce
Journal:  Chem Biol       Date:  1995-10

7.  Easy design of colorimetric logic gates based on nonnatural base pairing and controlled assembly of gold nanoparticles.

Authors:  Li Zhang; Zhong-Xia Wang; Ru-Ping Liang; Jian-Ding Qiu
Journal:  Langmuir       Date:  2013-06-28       Impact factor: 3.882

8.  Aptamer-based sensing platform using three-way DNA junction-driven strand displacement and its application in DNA logic circuit.

Authors:  Jinbo Zhu; Libing Zhang; Zhixue Zhou; Shaojun Dong; Erkang Wang
Journal:  Anal Chem       Date:  2013-12-09       Impact factor: 6.986

9.  Nucleic acid based logical systems.

Authors:  Da Han; Huaizhi Kang; Tao Zhang; Cuichen Wu; Cuisong Zhou; Mingxu You; Zhuo Chen; Xiaobing Zhang; Weihong Tan
Journal:  Chemistry       Date:  2014-04-01       Impact factor: 5.236

10.  Autonomous molecular cascades for evaluation of cell surfaces.

Authors:  Maria Rudchenko; Steven Taylor; Payal Pallavi; Alesia Dechkovskaia; Safana Khan; Vincent P Butler; Sergei Rudchenko; Milan N Stojanovic
Journal:  Nat Nanotechnol       Date:  2013-07-28       Impact factor: 39.213

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  10 in total

1.  The Effect of Basepair Mismatch on DNA Strand Displacement.

Authors:  D W Bo Broadwater; Harold D Kim
Journal:  Biophys J       Date:  2016-04-12       Impact factor: 4.033

2.  Molecular Recognition-Based DNA Nanoassemblies on the Surfaces of Nanosized Exosomes.

Authors:  Shuo Wan; Liqin Zhang; Sai Wang; Yuan Liu; Cuichen Wu; Cheng Cui; Hao Sun; Muling Shi; Ying Jiang; Long Li; Liping Qiu; Weihong Tan
Journal:  J Am Chem Soc       Date:  2017-04-07       Impact factor: 15.419

3.  Anhydrous Nucleic Acid Nanoparticles for Storage and Handling at Broad Range of Temperatures.

Authors:  Allison N Tran; Morgan Chandler; Justin Halman; Damian Beasock; Adam Fessler; Riley Q McKeough; Phuong Anh Lam; Daniel P Furr; Jian Wang; Edward Cedrone; Marina A Dobrovolskaia; Nikolay V Dokholyan; Susan R Trammell; Kirill A Afonin
Journal:  Small       Date:  2022-02-06       Impact factor: 13.281

4.  Nanowire Aptasensors for Electrochemical Detection of Cell-Secreted Cytokines.

Authors:  Ying Liu; Ali Rahimian; Sergiy Krylyuk; Tam Vu; Bruno Crulhas; Gulnaz Stybayeva; Meruyert Imanbekova; Dong-Sik Shin; Albert Davydov; Alexander Revzin
Journal:  ACS Sens       Date:  2017-10-09       Impact factor: 7.711

5.  Multi-threshold and multi-input DNA logic design style for profiling the microRNA biomarkers of real cancers.

Authors:  Mercedeh Sanjabi; Ali Jahanian
Journal:  IET Nanobiotechnol       Date:  2019-09       Impact factor: 1.847

6.  Repressor logic modules assembled by rolling circle amplification platform to construct a set of logic gates.

Authors:  Hua Wei; Bo Hu; Suming Tang; Guojie Zhao; Yifu Guan
Journal:  Sci Rep       Date:  2016-11-21       Impact factor: 4.379

7.  Antibody-controlled actuation of DNA-based molecular circuits.

Authors:  Wouter Engelen; Lenny H H Meijer; Bram Somers; Tom F A de Greef; Maarten Merkx
Journal:  Nat Commun       Date:  2017-02-17       Impact factor: 14.919

8.  A high-throughput and ultrasensitive identification methodology for unauthorized GMP component based on suspension array and logical calculator.

Authors:  Pengyu Zhu; Wei Fu; Shuang Wei; Xiao Liu; Chenguang Wang; Yun Lu; Ying Shang; Xiyang Wu; Yuping Wu; Shuifang Zhu
Journal:  Sci Rep       Date:  2019-05-13       Impact factor: 4.379

9.  Implementation of novel boolean logic gates for IMPLICATION and XOR functions using riboregulators.

Authors:  Chaoxin Chen; Qi Wu; Qingying Ke; Ting Wang; Yifan Zhang; Feiwen Wei; Xiaolong Wang; Guanglei Liu
Journal:  Bioengineered       Date:  2022-01       Impact factor: 3.269

10.  Simultaneous Monitoring of Cell-surface Receptor and Tumor-targeted Photodynamic Therapy via TdT-initiated Poly-G-Quadruplexes.

Authors:  Tianhui Shi; Menglin Wang; Hao Li; Miao Wang; Xingyu Luo; Yan Huang; Hong-Hui Wang; Zhou Nie; Shouzhuo Yao
Journal:  Sci Rep       Date:  2018-04-03       Impact factor: 4.379

  10 in total

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