257.Cox J.C., Ellington A.D. Automated selection of anti-protein aptamers // Bioorg. Med. Chem. 2001. V.9. P.2525–2531.
258.Cox J.C., Hayhurst A., Hesselberth J., Bayer T.S., Georgiou G., Ellington A.D. Automated selection of aptamers against protein targets translated in vitro: From gene to aptamer // Nucleic Acids Res. 2002. V.30. P.e108.
259.Cox J.C., Rajendran M., Riedel T., Davidson E.A., Sooter L.J., Bayer T.S., Schmitz-Brown M., Ellington A.D. Automated acquisition of aptamer sequences // Comb. Chem. High Throughput Screen. 2002. V.5. P.289-299.
260.Cox J.C., Rudolph P., Ellington A.D. Automated RNA selection // Biotechnol. Prog. 1998. V.14. P.845–850.
261.Crinelli R., Bianchi M., Gentillini L., Magnani M. Design and characterization of decoy oligonucleotides containing locked nucleic acids // Nucleic Acids Res. 2002. V.30. P.2435–2443.
262.Cuenoud B., Szostak J.W. A DNA metalloenzyme with DNA ligase activity // Nature. 1995. V.375. P.611-614.
263.Cummins L.L., Owens S.R., Risen L.M., Lesnik E.A., Freier S.M., McGee D., Guinosso C.J., Cook P.D. Characterization of fully 2'-modified oligonucleotide heteroand homoduplex hybridization and nuclease sensitivity // Nucleic Acids Res. 1995. V.23. P.2019–2024.
264.Curtis E.A., Bartel D.P. New catalytic structures from an existing ribozyme // Nat. Struct. Mol. Biol. 2005. V.12. P.994-1000.
265.Da Rocha Gomes S., Dausse E., Toulme J.J. Determinants of apical loop-internal loop RNA-RNA interactions involving the HCV IRES // Biochem. Biophys. Res. Commun. 2004. V.322. P.820-826.
266.Daniels D.A., Chen H., Hicke B.J., Swiderek K.M., Gold L. A tenascin-C aptamer identified by tumor cell Selex: systematic evolution of ligands by exponential enrichment // Proc. Natl Acad. Sci. USA. 2003. V.100. P.15416–15421.
267.Daniels D.A., Sohal A.K., Rees S., Grisshammer R. Generation of RNA aptamers to the G-protein-coupled receptor for neurotensin, NTS-1 // Anal. Biochem. 2002. V.305. P.214-226.
96
268.Darfeuille F., Hansen J.B., Orum H., Di Primo C., Toulme J.J. LNA/DNA chimeric oligomers mimic RNA aptamers targeted to the TAR RNA element of HIV-1
//Nucleic Acids Res. 2004. V.32. P.3101–3107.
269.Das S.R., Piccirilli J.A. General acid catalysis by the hepatitis delta virus ribozyme
//Nat. Chem. Biol. 2005. V.1. P.45-52.
270.Davidson E.A., Ellington A.D. Engineering regulatory RNAs // Trends Biotechnol. 2005. V.23. P.109–112.
271.Davis J.T. G-quartets 40 years later: from 5'-GMP to molecular biology and supramolecular chemistry // Angew. Chem. Int. Ed. Engl. 2004. V.43. P.668–698.
272.Davis J.P., Janjic N., Javornik B.E., Zichi D.A. Identifying consensus patterns and secondary structure in SELEX sequence sets // Methods Enzymol. 1996. V.267. P.302-314.
273.Davis K.A., Lin Y., Abrams B., Jayasena S.D. Staining of cell surface human CD4 with 2'-F-pyrimidine-containing RNA aptamers for flow cytometry // Nucleic Acids Res. 1998. V.26. P.3915–3924.
274.Davis J.H., Szostak J.W. Isolation of high-affinity GTP aptamers from partially structured RNA libraries // Proc. Natl Acad. Sci. USA. 2002. V.99. P.11616–11621.
275.Degefa T.H., Kwak J. Aptamer Based Electrochemical Detection of Protein Using Biometallization // http://ecsmeet2.peerxpress.org/ms_files/ecsmeet2/2008/05/29/00002 472/00/ 2472_0_art_0_k1m8fk.pdf.
276.Dellaire G., Nisman R., Eskiw C.H., Bazett-Jones D.P. In situ imaging and isolation of proteins using dsDNA oligonucleotides // Nucleic Acids Res. 2004. V.32. P.e165.
277.Demarre G., Frumerie C., Gopaul D.N., Mazel D. Identification of key structural determinants of the IntI1 integron integrase that influence attC x attI1 recombination efficiency // Nucleic Acids Res. 2007. V.35. P.6475-6489.
278.Desai S.K., Gallivan J.P. Genetic screens and selections for small molecules based on a synthetic riboswitch that activates protein translation // J. Am. Chem. Soc. 2004. V.126. P.13247–13254.
97
279.de Smidt P.C., Le Doan T., de Falco S., van Berkel T.J. Association of antisense oligonucleotides with lipoproteins prolongs the plasma half-life and modifies the tissue distribution // Nucleic Acids Res. 1991. V.19. P.4695-4700.
280.DeStefano J.J., Cristofaro J.V. Selection of primer-template sequences that bind human immunodeficiency virus reverse transcriptase with high affinity // Nucleic Acids Res. 2006. V.34. P.130-139.
281.Dey A.K., Griffiths C., Lea S.M., James W. Structural characterization of an antigp120 RNA aptamer that neutralizes R5 strains of HIV-1 // RNA. 2005. V.11. P.873-884.
282.Dey A.K., Khati M., Tang M., Wyatt R., Lea S.M., James W. An Aptamer That Neutralizes R5 Strains of Human Immunodeficiency Virus Type 1 Blocks gp120CCR5 Interaction // J. Virol. 2005. V.79. P.13806-13810.
283.Dieckmann T., Butcher S.E., Sassanfar M., Szostak J.W., Feigon J. Mutant ATPbinding RNA aptamers reveal the structural basis for ligand binding // J. Mol. Biol. 1997. V.273. P.467–478.
284.Dieckmann T., Suzuki E., Nakamura G.K., Feigon J. Solution structure of an ATPbinding RNA aptamer reveals a novel fold // RNA. 1996. V.2. P.628–640.
285.Doern C.D., Holder R.C., Reid S.D. Point mutations within the streptococcal regulator of virulence (Srv) alter protein-DNA interactions and Srv function // Microbiology. 2008. V.154. P.1998-2007.
286.Doreleijers J.F., Mading S., Maziuk D., Sojourner K., Yin L., Zhu J., Markley J.L., Ulrich E.L. BioMagResBank database with sets of experimental NMR constraints corresponding to the structures of over 1400 biomolecules deposited in the Protein Data Bank // J. Biomol. NMR. 2003. V.26. P.139–146.
287.Dosset P., Hus J.C., Marion D., Blackledge M. A novel interactive tool for rigidbody modeling of multi-domain macro-molecules using residual dipolar couplings // J. Biomol. NMR. 2001. V.20. P.223–231.
288.Doudna J.A., Cech T.R., Sullenger B.A. Selection of an RNA molecule that mimics a major autoantigenic epitope of human insulin receptor // Proc. Natl. Acad. Sci. USA. 1995. V.92. P.2355–2359.
98
289.Dougan H., Lyster D.M., Vo C.V., Stafford A., Weitz J.I., Hobbs J.B. Extending the lifetime of anticoagulant oligodeoxynucleotide aptamers in blood // Nucl. Med. Biol. 2000. V.27. P.289-297.
290.Drabovich A.P., Berezovski M., Okhonin V., Krylov S.N. Selection of smart aptamers by methods of kinetic capillary electrophoresis // Anal. Chem. 2006. V.78. P.3171-3178.
291.Drolet D.W., Jenison R.D., Smith D.E., Pratt D., Hicke B.J. A high throughput platform for systematic evolution of ligands by exponential enrichment (SELEX) // Comb. Chem. High Throughput Screen. 1999. V.2. P.271-278.
292.Drolet D.W., Moon-McDermott L., Romig T.S. An enzyme-linked oligonucleotide assay // Nat. Biotechnol. 1996. V.14. P.1021–1025.
293.Drolet D.W., Nelson J., Tucker C.E., Zack P.M., Nixon K., Bolin R., Judkins M.B., Farmer J.A., Wolf J.L., Gill S.C., Bendele R.A. Pharmacokinetics and safety of an anti-vascular endothelial growth factor aptamer (NX1838) following injection into the vitreous humor of rhesus monkeys // Pharm. Res. 2000. V.17. P.1503–1510.
294.Dubey A.K., Baker C.S., Romeo T., Babitzke P. RNA sequence and secondary structure participate in high-affinity CsrA-RNA interaction // RNA. 2005. V.11. P.1579-1587.
295.Duconge F., Toulme J.J. In vitro selection identifies key determinants for looploop interactions: RNA aptamers selective for the TAR RNA element of HIV-1 // RNA. 1999. V.5. P.1605-1614.
296.Duhamel J., Liu D.M., Evilia C., Fleysh N., Dinter-Gottlieb G., Lu P. Secondary structure content of the HDV ribozyme in 95% formamide // Nucleic Acids Res. 1996. V.24. P.3911–3917.
297.Eaton B.E., Gold L., Zichi D.A. Let's get specific: the relationship between specificity and affinity // Chem. Biol. 1995. V.2. P.633–638.
298.Eder P., DeVine R., Dagle J., Walder J. Substrate specificity and kinetics of degradation of antisense oligonucleotides by a 3' exonuclease in plasma // Antisense Res. Dev. 1991. V.1. P.141–151.
99
299.Edwards T.E., Ferreé-D‘Amaré A. Crystal structures of the Thi-box riboswitch bound to thiamine pyrophosphate analogs reveal adaptive RNA-small molecule recognition // Structure. 2006. V.14. P.1459–1468.
300.Ehresmann C., Baudin F., Mogel M., Romby P., Ebel J.-P., Ehresmann B. Probing the structure of RNAs in solution // Nucleic Acids Res. 1987. V.15. P.9109–9128.
301.Ekland E.H., Bartel D.P. RNA-catalysed RNA polymerization using nucleoside triphosphates // Nature. 1996. V.382. P.373-376.
302.Ekland E.H., Szostak J.W., Bartel D.P. Structurally complex and highly active RNA ligases derived from random RNA sequences // Science. 1995. V.269. P.364370.
303.Ellingham M., Bunka D.H.J., Rowlands D.J., Stonehouse N.J. Selection and characterization of RNA aptamers to the RNA-dependent RNA polymerase from foot- and-mouth disease virus // RNA. 2006. V.12. P.1970 - 1979.
304.Ellington A.D., Szostak J.W. Selection in vitro of single-stranded DNA molecules that fold into specific ligand-binding structures // Nature. 1992. V.355. P.850–852.
305.Elnitski L., Jin V.X., Farnham P.J., Jones S.J.M. Locating mammalian transcription factor binding sites: A survey of computational and experimental techniques // Genome Res. 2006. V.16. P.1455-1464.
306.Epshtein V., Mironov A.S., Nudler E. The riboswitch-mediated control of sulfur metabolism in bacteria // Proc. Natl Acad. Sci. USA. 2003. V.100. P.5052–5056.
307.Erickson H.P., Bourdon M.A. Tenascin: an extracellular matrix protein prominent in specialized embryonic tissues and tumors // Annu. Rev. Cell Biol. 1989. V.5. P.71–
92.
308.Eulberg D., Buchner K., Maasch C., Klussmann S. Development of an automated in vitro selection protocol to obtain RNA-based aptamers: Identification of a biostable substance P antagonist // Nucleic Acids Res. 2005. V.33. P.e45.
309.Eulberg D., Klussmann S. Spiegelmers: biostable aptamers // Chembiochem. 2003. V.4. P.979–983.
310.Facchini P.J. Alkaloid biosynthesis in plants: Biochemistry, Cell Biology, Molecular Regulation, and Metabolic Engineering Applications // Annu. Rev. Plant Physiol. Plant Mol. Biol. 2001. V.52. P.29–66.
100