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DNA Computing

9th International Workshop on DNA Based Computers, DNA9, Madison, WI, USA, June 1-3, 2003, revised Papers

  • Conference proceedings
  • © 2004

Overview

Editors:
  1. Junghuei Chen

    1. Department of Chemistry, New York University, New York, USA

  2. John Reif

    1. Department of Computer Science, Duke University, Durham, USA

Part of the book series: Lecture Notes in Computer Science (LNCS, volume 2943)

Included in the following conference series:

Conference proceedings info: DNA 2003.

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Table of contents (22 papers)

  1. Front Matter

    Download chapter PDF

  2. New Experimental Tools

    1. A Lab-on-a-Chip Module for Bead Separation in DNA-Based Concept Learning

      • Hee-Woong Lim, Hae-Man Jang, Sung-Mo Ha, Young-Gyu Chai, Suk-In Yoo, Byoung-Tak Zhang
      Pages 1-9

    2. Parallel Translation of DNA Clusters by VCSEL Array Trapping and Temperature Control with Laser Illumination

      • Yusuke Ogura, Takashi Kawakami, Fumika Sumiyama, Akira Suyama, Jun Tanida
      Pages 10-18

    3. Chemical Switching and Molecular Logic in Fluorescent-Labeled M-DNA

      • Shawn D. Wettig, Grant A. Bare, Ryan J. S. Skinner, Jeremy S. Lee
      Pages 19-31

    4. RCA-Based Detection Methods for Resolution Refutation

      • In-Hee Lee, Ji Yoon Park, Young-Gyu Chai, Byoung-Tak Zhang
      Pages 32-36

  3. Theory

    1. Word Design for Molecular Computing: A Survey

      • G. Mauri, C. Ferretti
      Pages 37-47

    2. Time-Varying Distributed H Systems with Parallel Computations: The Problem Is Solved

      • Maurice Margenstern, Yurii Rogozhin, Sergey Verlan
      Pages 48-54

    3. Deadlock Decidability in Partial Parallel P Systems

      • Daniela Besozzi, Giancarlo Mauri, Claudio Zandron
      Pages 55-60

  4. Computer Simulation and Sequence Design

    1. Languages of DNA Based Code Words

      • NataÅ¡a Jonoska, Kalpana Mahalingam
      Pages 61-73

    2. Secondary Structure Design of Multi-state DNA Machines Based on Sequential Structure Transitions

      • Hiroki Uejima, Masami Hagiya
      Pages 74-85

    3. Analyzing Secondary Structure Transition Paths of DNA/RNA Molecules

      • Hiroki Uejima, Masami Hagiya
      Pages 86-90

  5. Self-Assembly and Autonomous Molecular Computation

    1. Self-Assembled Circuit Patterns

      • Matthew Cook, Paul W. K. Rothemund, Erik Winfree
      Pages 91-107

    2. One Dimensional Boundaries for DNA Tile Self-Assembly

      • Rebecca Schulman, Shaun Lee, Nick Papadakis, Erik Winfree
      Pages 108-125

    3. Proofreading Tile Sets: Error Correction for Algorithmic Self-Assembly

      • Erik Winfree, Renat Bekbolatov
      Pages 126-144

  6. Experimental Solutions

    1. A DNA-Based Memory with In Vitro Learning and Associative Recall

      • Junghuei Chen, Russell Deaton, Yu-Zhen Wang
      Pages 145-156

    2. Efficiency and Reliability of Semantic Retrieval in DNA-Based Memories

      • Max H. Garzon, Kiran Bobba, Andrew Neel
      Pages 157-169

    3. Nearest-Neighbor Thermodynamics of DNA Sequences with Single Bulge Loop

      • Fumiaki Tanaka, Atsushi Kameda, Masahito Yamamoto, Azuma Ohuchi
      Pages 170-179

  7. New Computing Models

    1. Mathematical Considerations in the Design of Microreactor-Based DNA Computers

      • Michael S. Livstone, Laura F. Landweber
      Pages 180-189

    2. Towards a Re-programmable DNA Computer

      • Danny van Noort, Laura F. Landweber
      Pages 190-196

    3. In Vitro Translation-Based Computations

      • Yasubumi Sakakibara, Takahiro Hohsaka
      Pages 197-202
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Other volumes

  1. DNA Computing

Editors and Affiliations

  • Department of Chemistry, New York University, New York, USA

    Junghuei Chen

  • Department of Computer Science, Duke University, Durham, USA

    John Reif

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