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Notes on advanced topics in algorithmic tile self-assembly

Notes on advanced topics in algorithmic tile self-assembly. Day 39 of Comp Sci 480. Advanced topics. In the following slides, some advanced topics in algorithmic tile self-assembly are mentioned A non-exhaustive list of notable references is given for each topic….

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Notes on advanced topics in algorithmic tile self-assembly

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  1. Notes on advanced topics in algorithmic tile self-assembly Day 39 of Comp Sci 480

  2. Advanced topics • In the following slides, some advanced topics in algorithmic tile self-assembly are mentioned • A non-exhaustive list of notable references is given for each topic…

  3. Complexity of shapes and Turing machines • James I. Lathrop, Jack H. Lutz, Matthew J. Patitz, Scott M. Summers: Computability and Complexity in Self-assembly. Theory Comput. Syst. 48(3): 617-647 (2011) • David Soloveichik, Erik Winfree: Complexity of Self-Assembled Shapes. SIAM J. Comput. 36(6): 1544-1569 (2007)

  4. Fractals • Steven M. Kautz, Brad Shutters: Self-Assembling Rulers for Approximating Generalized Sierpinski Carpets. Algorithmica 67(2): 207-233 (2013) • Jack H. Lutz, Brad Shutters: Approximate Self-Assembly of the Sierpinski Triangle. Theory Comput. Syst. 51(3): 372-400 (2012) • Steven M. Kautz, James I. Lathrop: Self-assembly of the Discrete Sierpinski Carpet and Related Fractals. DNA 2009: 78-87

  5. Error correction and fault-tolerance • David Doty, Matthew J. Patitz, Dustin Reishus, Robert T. Schweller, Scott M. Summers: Strong Fault-Tolerance for Self-Assembly with Fuzzy Temperature. FOCS 2010: 417-426 • David Soloveichik, Matthew Cook, Erik Winfree: Combining self-healing and proofreading in self-assembly. Natural Computing 7(2): 203-218 (2008) • Ho-Lin Chen, Ashish Goel, Chris Luhrs: Dimension augmentation and combinatorial criteria for efficient error-resistant DNA self-assembly. SODA 2008: 409-418 • Urmi Majumder, Thomas H. LaBean, John H. Reif: Activatable Tiles: Compact, Robust Programmable Assembly and Other Applications. DNA 2007: 15-25 • Erik Winfree: Self-healing Tile Sets. Nanotechnology: Science and Computation 2006: 55-78 • Sudheer Sahu, John H. Reif: Capabilities and Limits of Compact Error Resilience Methods for Algorithmic Self-assembly in Two and Three Dimensions. DNA 2006: 223-238 • John H. Reif, Sudheer Sahu, Peng Yin: Compact Error-Resilient Computational DNA Tilings. Nanotechnology: Science and Computation 2006: 79-103 • Ho-Lin Chen, Ashish Goel: Error Free Self-assembly Using Error Prone Tiles. DNA 2004: 62-75 • Ho-Lin Chen, Qi Cheng, Ashish Goel, Ming-Deh A. Huang, Pablo Moisset de Espanés: Invadable self-assembly: combining robustness with efficiency. SODA 2004: 890-899 • Erik Winfree, Renat Bekbolatov: Proofreading Tile Sets: Error Correction for Algorithmic Self-Assembly. DNA 2003: 126-144

  6. Randomized self-assembly • Harish Chandran, Nikhil Gopalkrishnan, John H. Reif: Tile Complexity of Linear Assemblies. SIAM J. Comput. 41(4): 1051-1073 (2012) • David Doty: Randomized Self-Assembly for Exact Shapes. SIAM J. Comput. 39(8): 3521-3552 (2010) • Ming-Yang Kao, Robert T. Schweller: Randomized Self-assembly for Approximate Shapes. ICALP (1) 2008: 370-384

  7. Running-time in self-assembly • Ho-Lin Chen, David Doty: Parallelism and time in hierarchical self-assembly. SODA 2012: 1163-1182 • Leonard M. Adleman, Qi Cheng, Ashish Goel, Ming-Deh A. Huang: Running time and program size for self-assembled squares. STOC 2001: 740-748

  8. Intrinsic universality • Pierre-Etienne Meunier, Matthew J. Patitz, Scott M. Summers, Guillaume Theyssier, Andrew Winslow, Damien Woods: Intrinsic universality in tile self-assembly requires cooperation. SODA 2014: To appear • Damien Woods: Intrinsic universality and the computational power of self-assembly. MCU 2013: 16-22 • Erik D. Demaine, Matthew J. Patitz, Trent A. Rogers, Robert T. Schweller, Scott M. Summers, Damien Woods: The Two-Handed Tile Assembly Model Is Not Intrinsically Universal. ICALP (1) 2013: 400-412 • David Doty, Jack H. Lutz, Matthew J. Patitz, Robert T. Schweller, Scott M. Summers, Damien Woods: The Tile Assembly Model is Intrinsically Universal. FOCS 2012: 302-310 • David Doty, Jack H. Lutz, Matthew J. Patitz, Scott M. Summers, Damien Woods: Intrinsic Universality in Self-Assembly. STACS 2010: 275-286

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