scholarly journals GENESUS: A two-step sequence design program for DNA nanostructure self-assembly

BioTechniques ◽  
2014 ◽  
Vol 56 (4) ◽  
Author(s):  
Takanobu Tsutsumi ◽  
Takeshi Asakawa ◽  
Akemi Kanegami ◽  
Takao Okada ◽  
Tomoko Tahira ◽  
...  
Keyword(s):  
Self Assembly ◽  
Sequence Design ◽  
Dna Nanostructure ◽  
Design Program

scholarly journals FOLDNA, a Web Server for Self-Assembled DNA Nanostructure Autoscaffolds and Autostaples

2012 ◽  
Vol 2012 ◽  
pp. 1-5 ◽  
Author(s):  
Chensheng Zhou ◽  
Heng Luo ◽  
Xiaolu Feng ◽  
Xingwang Li ◽  
Jie Zhu ◽  
...  
Keyword(s):  
Drug Delivery ◽  
Dna Sequences ◽  
Self Assembly ◽  
Web Server ◽  
Automatic Design ◽  
Dna Nanostructures ◽  
Complementary Dna ◽  
Dna Nanostructure ◽  
Comprehensive Information ◽  
Self Assembled

DNA self-assembly is a nanotechnology that folds DNA into desired shapes. Self-assembled DNA nanostructures, also known as origami, are increasingly valuable in nanomaterial and biosensing applications. Two ways to use DNA nanostructures in medicine are to form nanoarrays, and to work as vehicles in drug delivery. The DNA nanostructures perform well as a biomaterial in these areas because they have spatially addressable and size controllable properties. However, manually designing complementary DNA sequences for self-assembly is a technically demanding and time consuming task, which makes it advantageous for computers to do this job instead. We have developed a web server, FOLDNA, which can automatically design 2D self-assembled DNA nanostructures according to custom pictures and scaffold sequences provided by the users. It is the first web server to provide an entirely automatic design of self-assembled DNA nanostructure, and it takes merely a second to generate comprehensive information for molecular experiments including: scaffold DNA pathways, staple DNA directions, and staple DNA sequences. This program could save as much as several hours in the designing step for each DNA nanostructure. We randomly selected some shapes and corresponding outputs from our server and validated its performance in molecular experiments.

Infrared emitting quantum dots: DNA conjugation and DNA origami directed self-assembly

Nanoscale ◽  
2014 ◽  
Vol 6 (9) ◽  
pp. 4486-4490 ◽  
Author(s):  
Anirban Samanta ◽  
Zhengtao Deng ◽  
Yan Liu
Keyword(s):  
Quantum Dots ◽  
Self Assembly ◽  
Dna Origami ◽  
Dna Nanostructure

DNA conjugation of infrared emitting hydrophilic QDs and their organization site specifically onto DNA nanostructure.

Autonomous dynamic control of DNA nanostructure self-assembly

2019 ◽  
Vol 11 (6) ◽  
pp. 510-520 ◽  
Author(s):  
Leopold N. Green ◽  
Hari K. K. Subramanian ◽  
Vahid Mardanlou ◽  
Jongmin Kim ◽  
Rizal F. Hariadi ◽  
...  
Keyword(s):  
Self Assembly ◽  
Dynamic Control ◽  
Dna Nanostructure

scholarly journals Orthogonal regulation of DNA nanostructure self-assembly and disassembly using antibodies

2019 ◽  
Vol 10 (1) ◽  
Author(s):  
Simona Ranallo ◽  
Daniela Sorrentino ◽  
Francesco Ricci
Keyword(s):  
Self Assembly ◽  
Functional Unit ◽  
Tubular Structures ◽  
Igg Antibodies ◽  
Specific Antibodies ◽  
Dna Nanostructure ◽  
Control Assembly ◽  
Recognition Elements ◽  
Specific Igg ◽  
Specific Igg Antibodies

AbstractHere we report a rational strategy to orthogonally control assembly and disassembly of DNA-based nanostructures using specific IgG antibodies as molecular inputs. We first demonstrate that the binding of a specific antibody to a pair of antigen-conjugated split DNA input-strands induces their co-localization and reconstitution into a functional unit that is able to initiate a toehold strand displacement reaction. The effect is rapid and specific and can be extended to different antibodies with the expedient of changing the recognition elements attached to the two split DNA input-strands. Such an antibody-regulated DNA-based circuit has then been employed to control the assembly and disassembly of DNA tubular structures using specific antibodies as inputs. For example, we demonstrate that we can induce self-assembly and disassembly of two distinct DNA tubular structures by using DNA circuits controlled by two different IgG antibodies (anti-Dig and anti-DNP antibodies) in the same solution in an orthogonal way.

Maximum Sampling Sequence Design in Teaching Management Application Based on Genetic Algorithm

2013 ◽  
Vol 321-324 ◽  
pp. 2089-2092
Author(s):  
Xiao Xu Zhu
Keyword(s):  
Random Sequence ◽  
Computer Experiments ◽  
Teaching Management ◽  
Sequence Design ◽  
Environmental Statistics ◽  
Spatial Design ◽  
Business Power ◽  
Design Program ◽  
Sampling Sequence ◽  
Design Idea

The spatial design of experiment and information subset had been studied by correlated random sequence sampling. The problems in many applied region had been found, such as statistical geology, sampling sequence, and environmental statistics. In all applications, maximum sampling sequence can be selected and different location and times. In maximum sampling sequence design, the feasible design program would be taken when the design domain and time are discrete from the design goal and expected result. The main problem is how to solve the maximum sampling sequence design idea. This is the algorithm GA sequence theory problem. In order to apply the GA design in computer experiments, in many cases, the design space is not possible to calculate accurately. In order to improve the efficient experiment of sampling sequence, the GA algorithm is developed to take advantage of business power of sequence algorithm. The results show that design idea and construction are very efficient for solving the mistake.

Aptamer-Directed Self-Assembly of Protein Arrays on a DNA Nanostructure

2005 ◽  
Vol 44 (28) ◽  
pp. 4333-4338 ◽  
Author(s):  
Yan Liu ◽  
Chenxiang Lin ◽  
Hanying Li ◽  
Hao Yan
Keyword(s):  
Self Assembly ◽  
Protein Arrays ◽  
Dna Nanostructure

DNA nanotechnology for nanophotonic applications

Nanoscale ◽  
2015 ◽  
Vol 7 (6) ◽  
pp. 2210-2220 ◽  
Author(s):  
Anirban Samanta ◽  
Saswata Banerjee ◽  
Yan Liu
Keyword(s):  
Self Assembly ◽  
Dna Nanotechnology ◽  
Comprehensive Review ◽  
Dna Nanostructure

A comprehensive review of DNA nanostructure directed self-assembly of nanoparticles that have significantly contributed to the field of nanophotonics.

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