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12. DNA 2006: Seoul, Korea
- Chengde Mao, Takashi Yokomori:
DNA Computing, 12th International Meeting on DNA Computing, DNA12, Seoul, Korea, June 5-9, 2006, Revised Selected Papers. Lecture Notes in Computer Science 4287, Springer 2006, ISBN 3-540-49024-8
Molecular and Membrane Computing Models
- Mihai Ionescu, Andrei Paun, Gheorghe Paun, Mario J. Pérez-Jiménez
:
Computing with Spiking Neural P Systems: Traces and Small Universal Systems. 1-16 - Tseren-Onolt Ishdorj
Minimal Parallelism for Polarizationless P Systems. 17-32 - Petr Sosík
P Systems with Active Membranes Characterize PSPACE. 33-46 - Florin Manea, Carlos Martín-Vide, Victor Mitrana
All NP-Problems Can Be Solved in Polynomial Time by Accepting Networks of Splicing Processors of Constant Size. 47-57 - Erzsébet Csuhaj-Varjú, Sergey Verlan
Length-Separating Test Tube Systems. 58-70 - Lucian Ilie
Gene Assembly Algorithms for Ciliates. 71-82
Complexity Analysis
- Natasa Jonoska, Gregory L. McColm, Ana Staninska:
Spectrum of a Pot for DNA Complexes. 83-94 - Stanislav Angelov, Sanjeev Khanna, Mirkó Visontai:
On the Complexity of Graph Self-assembly in Accretive Systems. 95-110 - Lucian Ilie
Viral Genome Compression. 111-126
Sequence and Tile Designs and Their Properties
- Lila Kari, Kalpana Mahalingam
DNA Codes and Their Properties. 127-142 - Max H. Garzon, Vinhthuy T. Phan, Sujoy Roy
In Search of Optimal Codes for DNA Computing. 143-156 - Suguru Kawashimo, Hirotaka Ono
DNA Sequence Design by Dynamic Neighborhood Searches. 157-171 - Naoki Iimura, Masahito Yamamoto, Fumiaki Tanaka, Atsushi Kameda, Azuma Ohuchi:
Sequence Design for Stable DNA Tiles. 172-181 - Michael Domaratzki
Hairpin Structures Defined by DNA Trajectories. 182-194
DNA Tile Self-assembly Models
- Urmi Majumder, Sudheer Sahu, Thomas H. LaBean, John H. Reif:
Design and Simulation of Self-repairing DNA Lattices. 195-214 - Yuliy M. Baryshnikov
On Times to Compute Shapes in 2D Tile Self-assembly. 215-222 - Sudheer Sahu, John H. Reif:
Capabilities and Limits of Compact Error Resilience Methods for Algorithmic Self-assembly in Two and Three Dimensions. 223-238 - Thomas Keef:
A Mathematical Approach to Cross-Linked Structures in Viral Capsids: Predicting the Architecture of Novel Containers for Drug Delivery. 239-249
Simulator and Software for DNA Computing
- Sudheer Sahu, Bei Wang, John H. Reif:
A Framework for Modeling DNA Based Molecular Systems. 250-265 - Bryan Wei, Zhengyu Wang, Yongli Mi:
Uniquimer: A de Novo DNA Sequence Generation Computer Software for DNA Self-assembly. 266-273 - Masashi Shiozaki, Hirotaka Ono
A Probabilistic Model of the DNA Conformational Change. 274-285 - Joseph Ibershoff, Jerzy W. Jaromczyk, Danny van Noort
Simulations of Microreactors: The Order of Things. 286-297
DNA Computing Algorithms and New Applications
- Byoung-Tak Zhang, Joo-Kyung Kim:
DNA Hypernetworks for Information Storage and Retrieval. 298-307 - William Thies, John Paul Urbanski, Todd Thorsen, Saman P. Amarasinghe:
Abstraction Layers for Scalable Microfluidic Biocomputers. 308-323 - Don Jyh-Fu Jeng, Junzo Watada, Berlin Wu, Jui-Yu Wu:
Fuzzy Forecasting with DNA Computing. 324-336 - Kiranchand V. Bobba, Andrew Neel, Vinhthuy T. Phan, Max H. Garzon:
"Reasoning" and "Talking" DNA: Can DNA Understand English? 337-349
Novel Experimental Approaches
- Zuwairie Ibrahim, John A. Rose, Yusei Tsuboi, Osamu Ono, Marzuki Khalid:
A New Readout Approach in DNA Computing Based on Real-Time PCR with TaqMan Probes. 350-359 - Clifford R. Johnson:
Automating the DNA Computer: Solving n-Variable 3-SAT Problems. 360-373 - Rui Shogenji, Naoya Tate, Taro Beppu, Yusuke Ogura
Local Area Manipulation of DNA Molecules for Photonic DNA Memory. 374-380
Experimental Solutions
- Atsushi Kameda, Masahito Yamamoto, Azuma Ohuchi, Satsuki Yaegashi, Masami Hagiya:
Unravel Four Hairpins! 381-392 - John A. Rose, Ken Komiya
Displacement Whiplash PCR: Optimized Architecture and Experimental Validation. 393-403 - Nevenka Dimitrova, Susannah Gal:
MethyLogic: Implementation of Boolean Logic Using DNA Methylation. 404-417 - Masahito Yamamoto, Yutaka Kita, Satoshi Kashiwamura, Atsushi Kameda, Azuma Ohuchi:
Development of DNA Relational Database and Data Manipulation Experiments. 418-427 - Ken Komiya
Experimental Validation of the Statistical Thermodynamic Model for Prediction of the Behavior of Autonomous Molecular Computers Based on DNA Hairpin Formation. 428-438
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