Exercises in molecular computing

Accounts of Chemical Research

Volumn 47, Issue 6, 2014, Pages 1845-1852

  Stojanovic, Milan N ^a   Stefanovic, Darko ^b   Rudchenko, Sergei ^c  

^a Och Spine at New York Presbyterian Hospitals   (United States)

^b MSC01 1070   (United States)

^c HOSPITAL FOR SPECIAL SURGERY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ANTIGENS, CD20; ANTIGENS, CD45; BIOLOGICAL MARKERS; DNA; DNA, CATALYTIC; OLIGONUCLEOTIDES; PTPRC PROTEIN, HUMAN;

CHEMISTRY; COMPUTERS, MOLECULAR; HUMANS; LYMPHOCYTES; METABOLISM;

ANTIGENS, CD20; ANTIGENS, CD45; BIOLOGICAL MARKERS; COMPUTERS, MOLECULAR; DNA; DNA, CATALYTIC; HUMANS; LYMPHOCYTES; OLIGONUCLEOTIDES;

EID: 84902593810     PISSN: 00014842     EISSN: 15204898     Source Type: Journal    
DOI: 10.1021/ar5000538     Document Type: Article

References (28)

1. Credi, A. Molecules That Make Decisions Angew. Chem., Int. Ed. 2007, 46 (29) 5472-5475
2. Katz, E.; Privman, V. Enzyme-Based Logic Systems for Information Processing Chem. Soc. Rev. 2010, 39 (5) 1835-1837
3. Stojanovic, M. N.; Mitchell, T. E.; Stefanovic, D. Deoxyribozyme-Based Logic Gates J. Am. Chem. Soc. 2002, 124 (14) 3555-3561
4. Stojanović, M. N.; Stefanovic, D. Deoxyribozyme-Based Half-Adder J. Am. Chem. Soc. 2003, 125 (22) 6673-6676
5. Lederman, H.; Macdonald, J.; Stefanovic, D.; Stojanovic, M. Deoxyribozyme-Based Three-Input Logic Gates and Construction of a Molecular Full Adder Biochemistry 2006, 45 (4) 1194-1199
6. Stojanovic, M. N.; Stefanovic, D. A Deoxyribozyme-Based Molecular Automaton Nat. Biotechnol. 2003, 21 (9) 1069-1073
7. Macdonald, J.; Li, Y.; Sutovic, M.; Lederman, H.; Pendri, K.; Lu, W.; Andrews, B.; Stefanovic, D.; Stojanovic, M. N. Medium Scale Integration of Molecular Logic Gates in an Automaton Nano Lett. 2006, 6 (11) 2598-2603
8. Pei, R.; Matamoros, E.; Stefanovic, D.; Stojanovic, M. N. Training a Molecular Automaton to Play a Game Nat. Nanotechnol. 2010, 5 (11) 773-777
9. Macdonald, J.; Stefanovic, D.; Stojanovic, M. N. Smart DNA: Programming the Molecule of Life for Work and Play Sci. Am. 2008, 299, 84-91
10. Pei, R.; Taylor, S.; Rudchenko, S.; Stefanovic, D.; Mitchell, T. E.; Stojanovic, M. N. Behavior of Polycatalytic Assemblies in a Substrate-Displaying Matrix J. Am. Chem. Soc. 2006, 128 (39) 12693-12699
11. Lund, K.; Manzo, A. J.; Dabby, N.; Michelotti, N.; Johnson-Buck, A.; Nangreave, J.; Taylor, S.; Pei, R.; Stojanovic, M. N.; Walter, N. G.; Winfree, E.; Yan, H. Molecular Robots Guided by Prescriptive Landscapes Nature 2010, 465 (7295) 206-210
12. Adleman, L. M. Molecular Computation of Solutions to Combinatorial Problems Science 1994, 266 (5187) 1021-1024
13. Osborne, S. E.; Ellington, A. D. Nucleic Acid Selection and the Challenge of Combinatorial Chemistry Chem. Rev. 1997, 97 (2) 349-370
14. Breaker, R. R. In Vitro Selection of Catalytic Polynucleotides Chem. Rev. 1997, 97 (2) 371-390
15. Tang, J.; Breaker, R. R. Chem. Biol. 1997, 4 (6) 453-459
16. Robertson, M. P.; Ellington, A. D. In Vitro Selection of an Allosteric Ribozyme That Transduces Analytes to Amplicons Nat. Biotechnol. 1999, 17 (1) 62-66
17. Allen, W. Yes, But Can the Steam Engine Do This. The Insanity Defense: The Complete Prose; Random House: New York, 2007; p 32.
18. Stojanovic, M. N.; de Prada, P.; Landry, D. W. Catalytic Molecular Beacons ChemBioChem 2001, 2 (6) 411-415
19. 2+-Dependent RNA Phosphoesterase Activity Chem. Biol. 1995, 2 (10) 655-660
20. Tyagi, S.; Krammer, F. R. Molecular Beacons: Probes That Fluoresce upon Hybridization Nat. Biotechnol. 1996, 14 (3) 303-309
21. Gardner, M. The Colossal Book of Mathematics: Classic Puzzles, Paradoxes, and Problems W.W. Norton & Company: New York, 2001; pp 472-473.
22. Stefanovic, D.; Stojanovic, M. N. Computing Game Strategies. The Nature of Computation, 9th Conference on Computability in Europe, Milan, Italy July 1-July 5, 2013, Proceedings Bonizzoni, P.; Brattka, V.; Löwe, B., Eds.; Springer-Verlag: Berlin, 2013; pp 383-392.
23. Elbaz, J.; Lioubashevski, O.; Wang, F.; Remacle, F.; Levine, R. D.; Willner, I. DNA Computing Circuits Using Libraries of DNAzyme Subunits Nat. Nanotechnol. 2010, 5 (6) 417-422
24. Kolpashchikov, D.; Stojanovic, M. N. Boolean Control of Aptamer Binding States J. Am. Chem. Soc. 2005, 127 (32) 11348-11352
25. Yashin, R.; Rudchenko, S.; Stojanovic, M. N. Networking Particles over Distance Using Oligonucleotide-Based Devices J. Am. Chem. Soc. 2007, 129 (50) 15581-15584
26. Rudchenko, M.; Taylor, S.; Pallavi, P.; Deschovskaia, A.; Khan, S.; Butler, V. P., Jr; Rudchenko, S.; Stojanovic, M. N. Autonomous Molecular Cascades for Evaluation of Cell Surfaces. Nat. Nanotechnol. 2013, 8 (8) 580-586
27. Seelig, G.; Soloveichik, D.; Zhang, D. Y.; Winfree, E. Enzyme-Free Nucleic Acid Logic Circuits Science 2006, 314 (5805) 1585-1588
28. Winfree, E.; Liu, F.; Wenzler, L. A.; Seeman, N. C. Design and Self-Assembly of Two-Dimensional DNA Crystals Nature 1998, 394 (6693) 539-544