Paper Info
Title
Localized hybridization circuits
Abstract
Molecular computing executed via local interactions of spatially contiguous sets of molecules has potential advantages of (i) speed due to increased local concentration of reacting species, (ii) generally sharper switching behavior and higher precision due to single molecule interactions, (iii) parallelism since each circuit operates independently of the others and (iv) modularity and scalability due to the ability to reuse DNA sequences in spatially separated regions. We propose detailed designs for local molecular computations that involve spatially contiguous molecules arranged on addressable substrates. The circuits act via enzyme-free DNA hybridization reaction cascades. Our designs include composable OR, AND and propagation Boolean gates, and techniques to achieve higher degree fan-in and fan-out. A biophysical model of localized hybridization reactions is used to estimate the effect of locality on reaction rates. We also use the Visual DSD simulation software in conjunction with localized reaction rates to simulate a localized circuit for computing the square root of a four bit number.
Year
Venue
Keywords
2011
DNA
spatially contiguous set,localized reaction rate,local interaction,enzyme-free dna hybridization reaction,reaction rate,increased local concentration,localized hybridization reaction,localized hybridization circuit,spatially contiguous molecule,localized circuit,local molecular computation,dna hybridization,simulation software,dna sequence,enzyme
Field
DocType
Volume
Simulation software,Biological system,Contiguity (probability theory),Chemistry,Theoretical computer science,Bit numbering,Reaction rate,Electronic circuit,Square root,Modularity,Scalability
Conference
6937
ISSN
Citations 
PageRank 
0302-9743
5
0.60
References 
Authors
5
4
Name
Order
Citations
PageRank
Harish Chandran1202.41
Nikhil Gopalkrishnan2202.07
Andrew Phillips322717.50
John H. Reif44180810.75