Medium scale integration of molecular logic gates in an automaton

Nano Letters

Volumn 6, Issue 11, 2006, Pages 2598-2603

  Macdonald, Joanne ^a,c   Li, Yang ^a,d   Sutovic, Marko ^a,d   Lederman, Harvey ^a,d   Pendri, Kiran ^a,d   Lu, Wanhong ^a,d   Andrews, Benjamin L ^b   Stefanovic, Darko ^b   Stojanovic, Milan N ^a  

^a Howard Hughes Medical Institute   (United States)

^b University of New Mexico   (United States)

^c Box 84 ^*  (United States)

^d NSF funded High School Internship Program

Author keywords

[No Author keywords available]

Indexed keywords

MOLECULAR CIRCUITS; MOLECULAR LOGIC GATES; SILICON TERMINOLOGY;

COMPUTATIONAL METHODS; DNA; GAME THEORY; INTEGRATED CIRCUITS; MOLECULAR DYNAMICS;

LOGIC GATES;

DEOXYRIBOZYME; DNA; SILICON;

ALGORITHM; ARTICLE; ARTIFICIAL INTELLIGENCE; CHEMISTRY; COMPUTER ANALYSIS; HUMAN; INFORMATION RETRIEVAL; METHODOLOGY; MOLECULAR COMPUTER; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE;

ALGORITHMS; ARTIFICIAL INTELLIGENCE; BASE SEQUENCE; COMPUTERS, MOLECULAR; COMPUTING METHODOLOGIES; DNA; DNA, CATALYTIC; HUMANS; INFORMATION STORAGE AND RETRIEVAL; MOLECULAR SEQUENCE DATA; SILICON;

EID: 33846127486     PISSN: 15306984     EISSN: None     Source Type: Journal    
DOI: 10.1021/nl0620684     Document Type: Article

References (37)

1. Adleman, L. M. Science 1994, 266, 1021-4.
2. Elowitz, M. B.; Leibler, S. Nature 2000, 403, 335-8.
3. Mao, C.; LaBean, T. H.; Relf, J. H.; Seeman, N. C. Nature 2000, 407, 493-6.
4. Benenson, Y.; Paz-Elizur, T.; Adar, R.; Keinan, E.; Livneh, Z.; Shapiro, E. Nature 2001, 414, 430-4.
5. Braich, R. S.; Chelyapov, N.; Johnson, C.; Rothemund, P. W.; Adleman, L. Science 2002, 296, 499-502.
6. Stojanovic, M. N.; Mitchell, T. E.; Stefanovic, D. J. Am. Chem. Soc. 2002, 124, 3555-61.
7. Stojanovic, M. N.; Stefanovic, D. J. Am. Chem. Soc. 2003, 125, 6673-6.
8. Stojanovic, M. N.; Stefanovic, D. Nat. Biotechnol. 2003, 21, 1069-74.
9. Adar, R.; Benenson, Y.; Linshiz, G.; Rosner, A.; Tishby, N.; Shapiro, E. Proc. Natl. Acad. Sci. U.S.A. 2004, 101, 9960-5.
10. Benenson, Y.; Gil, B.; Ben-Dor, U.; Adar, R.; Shapiro, E. Nature 2004, 429, 423-9.
11. de Suva, A. P.; McClenaghan, N. D. Chemistry 2004, 10, 574-86.
12. Rothemund, P. W.; Papadakis, N.; Winfree, E. PLoS Biol. 2004, 2, e424.
13. Schmidt, K. A.; Henkel, C. V.; Rozenberg, G.; Spaink, H. P. Nucleic Acids Res. 2004, 32, 4962-8.
14. Simpson, M. L. Trends Biotechnol. 2004, 22, 555-7.
15. Su, X.; Smith, L. M. Nucleic Acids Res. 2004, 32, 3115-23.
16. Szacilowski, K. Chemistry 2004, 10, 2520-8.
17. Benner, S. A.; Sismour, A. M. Nat. Rev. Genet. 2005, 6, 533-43.
18. Grover, W. H.; Mathies, R. A. Lab. Chip 2005, 5, 1033-40.
19. Stojanovic, M. N.; Semova, S.; Kolpashchikov, D.; Macdonald, J.; Morgan, C.; Stefanovic, D. J. Am. Chem. Soc. 2005, 127, 6914-5.
20. de Silva, A. P.; Leydet, Y.; Lincheneau, C.; McClenaghan, N. D. J. Phys.: Condens. Matter 2006, 18, S1847-72.
21. Henkel, C. V.; Back, T.; Kok, J. N.; Rozenberg, G.; Spaink, H. P. Biosystems 2006.
22. Isaacs, F. J.; Dwyer, D. J.; Collins, J. J. Nat. Biotechnol. 2006, 24, 545-54.
23. Komiya, K.; Sakamoto, K.; Kameda, A.; Yamamoto, M.; Ohuchi, A.; Kiga, D.; Yokoyama, S.; Hagiya, M. Biosystems 2006, 83, 18-25.
24. Lederman, H.; Macdonald, J.; Stefanovic, D.; Stojanovic, M. N. Biochemistry 2006, 45, 1194-99.
25. Liu, Y.; Jiang, W.; Zhang, H. Y.; Li, C. J. J. Phys. Chem. B 2006, 110, 14231-35.
26. Magri, D. C.; Brown, G. J.; McClean, G. D.; de Silva, A. P. J. Am. Chem. Soc. 2006, 128, 4950-1.
27. Penchovsky, R.; Breaker, R. R. Nat. Biotechnol. 2005, 23, 1424-33.
28. Andrews, B., Games, Strategies, and Boolean Formula Manipulation. In Dept. of Computer Science, Univ. of New Mexico, UNM CS Tech. Rep. TR-CS-2005-41; University of New Mexico: NM, 2005.
29. Mauri, G.; Ferretti, C. In Word design for molecular computing: A survey, 9th International Workshop on DNA-Based Computers, 2003; Springer: 2004; pp 37-46.
30. Sager, J.; Stefanovic, D. In Designing Nucleotide Sequences for Computation: A Survey of Constraints, 11th International Workshop on DNA-Based Computers, 2005; Springer: 2006; pp 275-289.
31. Seeman, N. C. J. Theor. Biol. 1982, 99, 237-47.
32. Zuker, M. Nucleic Acids Res. 2003, 31, 3406-15.
33. Breaker, R. R.; Joyce, G. F. Chem. Biol. 1995, 2, 655-60.
34. Santoro, S. W.; Joyce, G. F. Proc. Natl. Acad. Sci. U.S.A. 1997, 94, 4262-6.
35. Macdonald, J.; Stefanovic, D.; Stojanovic, M. N. Solution-Phase Molecular-Scale Computation With Deoxyribozyme-Based Logic Gates and Fluorescent Readouts. In Fluorescent energy transfer nucleic acid probes: designs and protocols; Didenko, V. V., Ed.; Humana Press Inc.: Totowa, NJ, 2006; Vol. 335, pp 343-363.
36. Wright, M. C.; Joyce, G. F. Science 1997, 276, 614-617.
37. Kolpashchikov, D. M.; Stojanovic, M. N. J. Am. Chem. Soc. 2005, 127, 11348-51.