Материал: ДНК наномеханические роботы и вычислительные устройства (Попов), 2008, c.210

Внимание! Если размещение файла нарушает Ваши авторские права, то обязательно сообщите нам

42.Park S.H., Yan H., Reif J.H., LaBean T.H., Finkelstein G. Electronic nanostructures templated on self-assembled DNA scaffolds // Nanotechnology. 2004. V.15. P.525–527.

43.Wilhelm P., Rothemund P.W. A DNA and restriction enzyme implementation of Turing machines // DIMACS Series in Discrete Mathematics and Theoretical Computer Science. 1995. P.75-119.

44.Stojanovic M.N., Stefanovic D. A deoxyribozyme-based Molecular Automaton // Nature Biotechnology. 2003. V.21. N9. P.1069.

45.Stojanovic M.N., Stefanovic D. Deoxyribozyme-based Half-Adder // J. Am. Chem. Soc. 2003. V.125. N22. P.6673.

46.Stojanovic M. N., Mitchel T.H.E., Stefanovic D. Deoxyribozyme-based Logic Gates // J. Am. Chem. Soc. 2002. V.124. N14. P.3555-3561.

47.Stojanovic M.N., de Prada P., Landry D.W. Homogeneous assays based on deoxyribozyme catalysis // Nucleic Acids Res. 2000. V.28. N15. P.2915.

48.Yin P., Turberfield A.J., Reif J.H. Design of an Autonomous DNA Nanomechanical Device Capable of Universal Computation and Universal Translational Motion // Tenth International Meeting on DNA Based Computers. LNCS 3384, Springer-Verlag, New York, 2005. P.426-444.

49.Sakamoto K. et al. State transitions by molecules // Biosystems. 1999. V.52. P.81–

91.

50.Sakamoto K. et al. Molecular computation by DNA hairpin formation // Science. 2000. V.288. P.1223–1226.

51.Yin P., Turberfield A., Sahu S., Reif J. Design of an autonomous DNA nanomechanical device capable of universal computation and universal translational motion // Tenth International Meeting on DNA Computing. LNCS. 2005. V.3384. P.426–444.

52.Reif J.H., Sahu S. Autonomous Programmable DNA Nanorobotic Devices Using DNAzymes // 13th International Meeting on DNA Computing (DNA 13), Memphis, Tennessee, June 4-8, 2007. DNA Computing: DNA13 (edited by Max Garzon and Hao Yan), Springer-Verlag LNCS 4848. Springer, Berlin – Heidelberg, 2008. P.66-78.

41

53.Ehrenfeucht A., Harju T., Petre I., Prescott D.M., Rozenberg G., Landweber L., Kari L. Computation in Living Cells: Gene Assembly in Ciliates . Berlin, Springer, 2004.

54.Паун Г., Розенберг Г., Саломаа А. ДНК-компьютер. Новая парадигма вычислений. М.: Мир, 2004.

55.Adar R., Benenson Y., Linshiz G., Rosner A., Tishby N., Shapiro E. Stochastic computing with biomolecular automata // Proc. Natl Acad. Sci. USA. 2004. V.101. P.9960-9965.

56.Benenson Y., Shapiro, E. Molecular Computing Machines // Dekker. Encyclopedia of Nanoscience and Nanotechnology, Marcel Dekker, 2004. P.2043 –

2055.

57.Wang Y., Muller J.E., Kemper B., Seeman N.C. The assembly and characterization of 5-arm and 6-arm DNA branched junctions // Biochemistry. 1991. V.30. P.5667-5674.

58.Chen J., Seeman N.C. Synthesis from DNA of a molecule with the connectivity of a cube // Nature. 1991. V.350. P.631-633.

59.Zhang Y., Seeman N.C. The construction of a DNA truncated octahedron // J. Am. Chem. Soc. 1994. V.116. P.1661-1669.

60.Qiu H., Dewan J.C., Seeman N.C. A DNA Decamer with a Sticky End: The crystal structure of d-CGACGATCGT // J. Mol. Biol. 1997. V.267. P.881-898.

61.Caruthers M.H. Gene synthesis machines // Science. 1985. V.230. P.281-285.

62.Lashkari D.A., Hunicke-Smith S.P., Norgren R.M., Davis R.W., Brennan T. An automated multiplex oligonucleotide synthesizer: Development of high-throughput, low-cost DNA synthesis // Proc. Nat. Acad. Sci. (USA). 1995. V.92. P.7912-7915.

63.Hagerman P.J. Flexibility of DNA // Ann. Rev. Biophys. & Biophys. Chem. 1988. V.17. P.265-286.

64.Seeman N.C., Rosenberg J.M., Rich A. Sequence specific recognition of double helical nucleic acids by proteins // Proc. Nat. Acad. Sci. (USA). 1976. V.73. P.804808.

65.Ma R.-I., Kallenbach N.R., Sheardy R.D., Petrillo M.L., Seeman N.C. Three arm nucleic acid junctions are flexible // Nucl. Acids Res. 1986. V.14. P.9745-9753.

42

66.Petrillo M.L., Newton C.J., Cunningham R.P., Ma R.-I., Kallenbach N.R., Seeman, N.C. Ligation and flexibility of four-arm DNA junctions // Biopolymers. 1988. V.27. P.1337-1352.

67.Kappraff J. Connections. McGraw-Hill, New York, 1990.

68.Chen J.H., Kallenbach N.R., Seeman N.C. A specific quadrilateral synthesized from DNA branched junctions // J. Am. Chem. Soc. 1989. V.111. P.6402-6407.

69.Zhang Y., Seeman N.C. A solid-support methodology for the construction of geometrical objects from DNA // J. Am. Chem. Soc. 1992. V.114. P.2656-2663.

70.Chen J., Seeman N.C. The electrophoretic properties of a DNA cube and its substructure catenanes // Electrophoresis. 1991. V.12. P.607-611.

71.Seeman N.C. Design of single-stranded nucleic acid knots // Mol. Engineering. 1992. V.2. P.297-307.

72.Rich A., Nordheim A., Wang A.H.-J. The chemistry and biology of left-handed Z- DNA // Ann. Rev. Biochem. 1984. V.53. P.791-846.

73.Du S.M., Stollar B.D., Seeman N.C. A synthetic DNA molecule in three knotted topologies // J.Am.Chem.Soc. 1995. V.117. P.1194-1200.

74.Du S.M., Wang H., Tse-Dinh Y.-C., Seeman N.C. Topological transformations of synthetic DNA knots // Biochemistry. 1995. V.34. P.673-682.

75.Wang H., Di Gate R.J., Seeman N.C. An RNA topoisomerase // Proc. Nat. Acad. Sci. (USA). 1996. V.93. P.9477-9482.

76.Mao C., Sun W., Seeman N.C. Assembly of Borromean rings from DNA // Nature. 1997. V.386. P.137-138.

77.Liang C., Mislow K. On Borromean links // J. Math. Chem. 1994. V.16. P.27-35.

78.Du S.M., Seeman N.C. The construction of a trefoil knot from a DNA branched junction motif // Biopolymers. 1994. V.34. P.31-37.

79.Bork P., Eisenberg D. Deriving biological knowledge from genomic sequences // Curr. Opin. Struct. Biol. 1998. V.8. P.331-332.

80.Bork P., Ouzounis C., Sander C. From genome sequences to protein function // Curr. Opin. Struct. Biol. 1994. V.4. P.393-403.

43

81.Cooper D.L., Isola N.R., Stevenson K., Baptist E.W. Members of the ALDH gene family are lens and corneal Crystallins // Advan. Exp. Med. Biol. 1993. V.328. P.169179.

82.Koonin E.V., Tatusov R.I. Computer analysis of bacterial haloacid dehalogenases defines a large superfamily of hydrolases with diverse specificity. Application of an iterative approach to database search // J. Mol. Biol. 1994. V.244. P.125-132.

83.Seery L.T., Nestor P.V., FitzGerald G.A. Molecular evolution of the aldo-keto reductase gene superfamily // J. Mol. Evol. 1998. V.46. P.139-146.

84.Bork P., Sander C., Valencia A. Convergent evolution of similar enzymatic function on different protein folds: the hexokinase, ribokinase, and galactokinase families of sugar kinases // Protein Sci. 1993. V.2. P.31-40.

85.Chen L., DeVries A.L., ChengC.H. Conversent evolution of antifreeze glycoproteins in Antarctic notothenioid fish and Arctic cod // Proc. Natl. Acad. Sci. USA. 1997. V.94. P.3817-3822.

86.Doolittle R.F. Convergent evolution: the need to be explicit // Trends Biochem. Sci. 1994. V.19. P.15-18.

87.Ibba M., Bono J.L., Rosa P.A., Soll D. Archaeal-type Lysyl-tRNA synthetase in the Lyme disease spirochete Borrelia burgdorferi // Proc. Natl. Acad. Sci. USA. 1997. V.94. P.14383-14388.

88.Ibba M., Morgan S., Curnow A.W., Pridmore D.R., Vothknecht U.C., Gardner W., Lin W., Woese C.R., Soll D. A euryarchaeal lysyl-tRNA synthetase: resemblance to class I synthetases // Science. 1997. V.278. P.1119-1122.

89.George S.E., Simokat K., Hardin I., Chisholm A.D. The VAB-1 Eph receptor tyrosine kinase functions in neural and epithelian morphogenesis in C.elegans // Cell. 1998. V.92. P.633-643.

90.Kimura K.D., Tissenbaum H.A., Liu Y., Ruvkun G. daf-2, an insulin receptor-like gene that regulates longevity and diapause in Caenorhabditis elegans // Science. 1997. V.277. P.942-946.

91.Nicholls A., Sharp K., Honig B. Protein folding and association: insights from the interfacial and thermodynamic properties of hydrocarbons // Proteins. 1991. V.11. P.281-296.

44

92.Sauder J.M., Dunbrack R.L. Jr. Genomic fold assignment and rational modeling of proteins of biological interest.

93.Seeman N.C. Nucleic acid junctions and lattices // J. Theor. Biol. 1982. V.99. P.237-247.

94.Robinson B.H., Seeman N.C. Design of a biochip // Prot. Eng. 1987. V.1. P.295300.

95.Liu B., Leontis N.B., Seeman N.C. Bulged 3-arm DNA branched junctions as components for nanoconstruction // Nanobiol. 1995. V.3. P.177-188.

96.Qi J., Li X., Yang X., Seeman N.C. The ligation of triangles built from bulged three-arm DNA branched junctions // J. Am. Chem. Soc. 1996. V.118. P.6121-6130.

97.Fu T.-J., Seeman N.C. DNA double crossover structures // Biochem. 1993. V.32. P.3211-3220.

98.Li X., Yang X., Qi J., Seeman N.C. Antiparallel DNA double crossover molecules as components for nanoconstruction // J. Am. Chem. Soc. 1996. V.118. P.6131-6140.

99.Schwacha A., Kleckner N. Identification of double Holliday junctions as intermediates in meiotic recombination // Cell. 1995. V.83. P.783-791.

100.Fu T.-J., Kemper B., Seeman N.C. Endonuclease VII cleavage of DNA double crossover molecules // Biochem. 1994. V.33. P.3896-3905.

101.Fu T.-J., Tse-Dinh Y.-C., Seeman N.C. Holliday junction crossover topology // J. Mol. Biol. 1994. V.236. P.91-105.

102.Zhang S., Seeman N.C. Symmetric Holliday junction crossover isomers // J. Mol. Biol. 1994. V.238. P.658-668.

103.Li X., Wang H., Seeman N.C. Direct evidence for Holliday junction crossover isomerization // Biochem. 1997. V.36. P.4240-4247.

104.Zhang S., Fu T.-J., Seeman N.C. Construction of symmetric, immobile DNA branched junctions // Biochem. 1994. V.32. P.8062-8067.

105.Mao C., LaBean T.H., Reif J.H., Seeman N.C. Logical Computation Using Algorithmic Self-Assembly of DNA Triple-Crossover Molecules // Nature. 2000. V.407. P.493-495.

45

Источник: https://studfile.net/preview/14965837/