the proceedings contain 16 papers. the topics discussed include: filter position in networks of evolutionary processors does not matter: a direct proof;strand algebras for dnacomputing;a domain-specific language for ...
ISBN:
(纸本)364210603X
the proceedings contain 16 papers. the topics discussed include: filter position in networks of evolutionary processors does not matter: a direct proof;strand algebras for dnacomputing;a domain-specific language for programming in the tile assembly model;advancing the deoxyribozyme-based logic gate design process;dna chips for species identification and biological phylogenies;renewable, time-responsive dna logic gates for scalable digital circuits;self-assembly of the discrete Sierpinski carpet and related fractals;automatic design of dna logic gates based on kinetic simulation;design of a biomolecular device that executes process algebra;the effect of malformed tiles on tile assemblies within kTAM;positional state representation and its transition control for photonic dna automation;construction of AND gate for RTRACS withthe capacity of extension to NAND gate;and time-complexity of multilayered dna strand displacement circuits.
作者：
Murata, SatoshiKobayashi, SatoshiTohoku University
Graduate School of Engineering Department of Bioengineering and Robotics 6-6-01 Aoba-yama Sendai980-8579 Japan University of Electro-Communications
Graduate School of Informatics and Engineering Department of Communication Engineering and Informatics 1-5-1 Chofugaoka Chofu Tokyo182-8585 Japan
the proceedings contain 11 papers. the topics discussed include: robust digital molecular design of binarized neural networks;computing properties of thermodynamic binding networks: an integer programming approach;sel...
ISBN:
(纸本)9783959772051
the proceedings contain 11 papers. the topics discussed include: robust digital molecular design of binarized neural networks;computing properties of thermodynamic binding networks: an integer programming approach;self-replication via tile self-assembly;improved lower and upper bounds on the tile complexity of uniquely self-assembling a thin rectangle non-cooperatively in 3D;directed non-cooperative tile assembly is decidable;molecular machines from topological linkages;small tile sets that compute while solving mazes;reactamole: functional reactive molecularprogramming;parallel pairwise operations on data stored in dna: sorting, shifting, and searching;and predicting minimum free energy structures of multi-stranded nucleic acid complexes is APX-Hard.
the proceedings contain 10 papers. the special focus in this conference is on dnacomputing and molecularprogramming. the topics include: Design principles for single-stranded RNA origami structures;fast algorithmic ...
ISBN:
(纸本)9783319112947
the proceedings contain 10 papers. the special focus in this conference is on dnacomputing and molecularprogramming. the topics include: Design principles for single-stranded RNA origami structures;fast algorithmic self-assembly of simple shapes using random agitation;probability 1 computation with chemical reaction networks;the computational capability of chemical reaction automata;emulating cellular automata in chemical reaction-diffusion networks;output stability and semilinear sets in chemical reaction networks and deciders;parallel and scalable computation and spatial dynamics withdna-based chemical reaction networks on a surface;abstract modelling of tethered dna circuits;on decidability and closure properties of language classes with respect to bio-operations.
the proceedings contain 12 papers. the special focus in this conference is on dnacomputing and molecularprogramming. the topics include: Error-Free Stable Computation with Polymer-Supplemented Chemical Reaction Netw...
ISBN:
(纸本)9783030268060
the proceedings contain 12 papers. the special focus in this conference is on dnacomputing and molecularprogramming. the topics include: Error-Free Stable Computation with Polymer-Supplemented Chemical Reaction Networks;SIMD||dna: Single Instruction, Multiple Data Computation withdna Strand Displacement Cascades;Implementing Arbitrary CRNs Using Strand Displacing Polymerase;real-Time Equivalence of Chemical Reaction Networks and Analog Computers;a Reaction Network Scheme Which Implements Inference and Learning for Hidden Markov Models;Efficient Parameter Estimation for dna Kinetics Modeled as Continuous-Time Markov Chains;new Bounds on the Tile Complexity of thin Rectangles at Temperature-1;non-cooperatively Assembling Large Structures;simulation of Programmable Matter Systems Using Active Tile-Based Self-Assembly;combined Amplification and molecular Classification for Gene Expression Diagnostics.
the proceedings contain 12 papers. the special focus in this conference is on dnacomputing and molecularprogramming. the topics include: Construction of geometric structure by oritatami system;A reaction network sch...
ISBN:
(纸本)9783030000295
the proceedings contain 12 papers. the special focus in this conference is on dnacomputing and molecularprogramming. the topics include: Construction of geometric structure by oritatami system;A reaction network scheme which implements the EM algorithm;know when to fold ’Em: Self-assembly of shapes by folding in Oritatami;Optimizing tile set size while preserving proofreading with a dna self-assembly compiler;A content-addressable dna database with learned sequence encodings;Temporal dna barcodes: A time-based approach for single-molecule imaging;hierarchical growth is necessary and (sometimes) sufficient to self-assemble discrete self-similar fractals;self-assembly of 3-D structures using 2-D folding tiles;forming tile shapes with simple robots;transcript design problem of oritatami systems.
the proceedings contain 15 papers. the topics discussed include: extending dna-sticker arithmetic to arbitrary size using staples;parallel computation using active self-assembly;dna walker circuits: computational pote...
ISBN:
(纸本)9783319019277
the proceedings contain 15 papers. the topics discussed include: extending dna-sticker arithmetic to arbitrary size using staples;parallel computation using active self-assembly;dna walker circuits: computational potential, design, and verification;leaderless deterministic chemical reaction networks;dna sticky end design and assignment for robust algorithmic self-assembly;dna reservoir computing: a novel molecularcomputing approach;signal transmission across tile assemblies: 3D static tiles simulate active self-assembly by 2D signal-passing tiles;3-color bounded patterned self-assembly;exponential replication of patterns in the signal tile assembly model;modular verification of dna strand displacement networks via serializability analysis;iterative self-assembly with dynamic strength transformation and temperature control;probabilistic reasoning with an enzyme-driven dna device;staged self-assembly and polyomino context-free grammars;and functional analysis of large-scale dna strand displacement circuits.
the proceedings contain 5 papers. the topics discussed include: geometric enumeration of localized dna strand displacement reaction networks;domain-based nucleic-acid minimum free energy: algorithmic hardness and para...
ISBN:
(纸本)9783959773447
the proceedings contain 5 papers. the topics discussed include: geometric enumeration of localized dna strand displacement reaction networks;domain-based nucleic-acid minimum free energy: algorithmic hardness and parameterized bounds;simulation of the abstract tile assembly model using crisscross slats;designing 3D RNA Origami nanostructures with a minimum number of kissing loops;and learning and inference in a lattice model of multicomponent condensates.
the proceedings contain 14 papers. the topics discussed include: an autonomous dna nanodevice captures pH maps of living cells in culture and in vivo;the computer science of molecularprogramming;cooperation in an all...
ISBN:
(纸本)9783642236372
the proceedings contain 14 papers. the topics discussed include: an autonomous dna nanodevice captures pH maps of living cells in culture and in vivo;the computer science of molecularprogramming;cooperation in an all-RNA network;designer dna architectures for bionanotechnology;an improved dna-sticker addition algorithm and its application to logarithmic arithmetic;graph-theoretic formalization of hybridization in dna sticker complexes;less haste, less waste: on recycling and its limits in strand displacement systems;computing maximal Kleene closures that are embeddable in a given constrained dna language;modelling, simulating and verifying Turing-powerful strand displacement systems;synthesizing small and reliable tile sets for patterned dna self-assembly;exact shapes and Turing universality at temperature 1 with a single negative glue;and multiple molecular spiders with a single localized source - the one-dimensional case.
the proceedings contain 10 papers. the topics discussed include: minimum free energy, partition function and kinetics simulation algorithms for a multistranded scaffolded dna computer;dna tile self-assembly for 3d-sur...
ISBN:
(纸本)9783959772976
the proceedings contain 10 papers. the topics discussed include: minimum free energy, partition function and kinetics simulation algorithms for a multistranded scaffolded dna computer;dna tile self-assembly for 3d-surfaces: towards genus identification;on the runtime of chemical reaction networks beyond idealized conditions;rational design of dna sequences with non-orthogonal binding interactions;revisiting hybridization kinetics with improved elementary step simulation;reversible bond logic;accelerating self-assembly of crisscross slat systems;thermodynamically driven signal amplification;optimal information encoding in chemical reaction networks;and complexity of reconfiguration in surface chemical reaction networks.
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