| 2009 | A Domain-Specific Language for Programming in the Tile Assembly Model. David Doty, Matthew J. Patitz |
| 2009 | Advancing the Deoxyribozyme-Based Logic Gate Design Process. M. Leigh Fanning, Joanne Macdonald, Darko Stefanovic |
| 2009 | Automatic Design of DNA Logic Gates Based on Kinetic Simulation. Ibuki Kawamata, Fumiaki Tanaka, Masami Hagiya |
| 2009 | Construction of AND Gate for RTRACS with the Capacity of Extension to NAND Gate. Yoko Sakai, Yoriko Mawatari, Kiyonari Yamasaki, Ko-ichiroh Shohda, Akira Suyama |
| 2009 | DNA Chips for Species Identification and Biological Phylogenies. Max H. Garzon, Tit-Yee Wong, Vinhthuy T. Phan |
| 2009 | DNA Computing and Molecular Programming, 15th International Conference, DNA 2009, Fayetteville, AR, USA, June 8-11, 2009, Revised Selected Papers Russell J. Deaton, Akira Suyama |
| 2009 | Design of a Biomolecular Device That Executes Process Algebra. Urmi Majumder, John H. Reif |
| 2009 | Distributed Agreement in Tile Self-assembly. Aaron D. Sterling |
| 2009 | Filter Position in Networks of Evolutionary Processors Does Not Matter: A Direct Proof. Paolo Bottoni, Anna Labella, Florin Manea, Victor Mitrana, José M. Sempere |
| 2009 | Limitations of Self-assembly at Temperature One. David Doty, Matthew J. Patitz, Scott M. Summers |
| 2009 | NP-Completeness of the Direct Energy Barrier Problem without Pseudoknots. Ján Manuch, Chris Thachuk, Ladislav Stacho, Anne Condon |
| 2009 | Positional State Representation and Its Transition Control for Photonic DNA Automaton. Hiroto Sakai, Yusuke Ogura, Jun Tanida |
| 2009 | Renewable, Time-Responsive DNA Logic Gates for Scalable Digital Circuits. Ashish Goel, Morteza Ibrahimi |
| 2009 | Self-assembly of the Discrete Sierpinski Carpet and Related Fractals. Steven M. Kautz, James I. Lathrop |
| 2009 | Strand Algebras for DNA Computing. Luca Cardelli |
| 2009 | The Effect of Malformed Tiles on Tile Assemblies within kTAM. Ya Meng, Navin Kashyap |
| 2009 | Time-Complexity of Multilayered DNA Strand Displacement Circuits. Georg Seelig, David Soloveichik |