Learn More
Epistasis is a ubiquitous phenomenon in genetics, and is considered to be one of the main factors in current efforts to detect missing heritability for complex diseases. Simulation is a critical tool in developing methodologies that can more effectively detect and study epistasis. Here we present a simulator, epiSIM (epistasis SIMulator), that can simulate(More)
A DNA computing model for solving graph vertex coloring problem is proposed in this article. To illustrate the capability of the DNA computing model, a 3-colorable graph with 61 vertices was constructed as an example. Using this model, more than 99% of false solutions were deleted when the initial solution space was established and finally all solutions of(More)
Recently, the toehold-mediated DNA strand displacement reaction has been widely used in detecting molecular signals. However, traditional strand displacement, without cooperative signaling among DNA inputs, is insufficient for the design of more complicated nanodevices. In this work, a logic computing system is established using the cooperative(More)
Through the analysis of the transit network solution of optimal path algorithm, this paper proposes the bus route optimization algorithm of DNA to consider both the shortest distance by bus and the minimum interchange, and gives a detailed biological process. It not only puts forward a new feasible algorithm for transit network optimal path search, but also(More)
Sequential DNA detection is a fundamental issue for elucidating the interactive relationships among complex gene systems. Here, a sequential logic DNA gate was achieved by utilizing the two-ring DNA structure, with the ability to recognize "before" and "after" triggering sequences of DNA signals. By taking advantage of a "loop-open" mechanism, separations(More)
In this study, DNA strand displacement is utilized to control the aggregation of DNA/gold nanoparticles (AuNPs) based on circular DNA, in which DNA/AuNP conjugates are captured and released by adding different DNA signal strands. Using this strategy, single DNA/nanoparticle building blocks are capable of assembling into complex structures of two and three(More)
Rapid developments have been made in synthetic biology within the past two decades, particularly in combination with chemistry, computer science, and other disciplines. Genetic components and internal features have been a main focus of research for synthetic biologists. Logic gates can be applied in various disciplines, but have not yet been used for(More)