Staff Publications

Selected Recent Publications of SomaGenics Scientists

2007

A. V. Vlassov, B. Korba, K. Farrar, S. Mukerjee, A. A. Seyhan, H. Ilves, R. Kaspar, S. A. Kazakov, and B. H. Johnston (2007) shRNAs targeting hepatitis C: effects of sequence and structural features, and comparison with siRNA. Oligonucleotides, 17:223–236.

Q. Wang, H. Ilves, P. Chu, C. H. Contag, D. Leake, B. H. Johnston, and R. L. Kaspar, (2007) Delivery and inhibition of reporter genes by small interfering and hairpin RNAs in a mouse skin model. J. Invest. Dermatol. May 24, 2007; [Epub ahead of print].

S. A Kazakov and B.H. Johnston (2007) RNA Lassos, antisense, and gene profiles. In Gene Profiles in Drug Design, B. Lidbury and S. Mahalingam, eds.; CRC Press, Boca Raton, FL (in press).

2006

A. A. Seyhan, A. V. Vlassov, and B. H. Johnston (2006) RNA interference from multimeric shRNAs generated by rolling circle transcription. Oligonucleotides 16: 353-363.

Kazakov, S.A., Balatskaya, S.V., and Johnston, B.H. (2006) Ligation of the hairpin ribozyme in cis induced by freezing and dehydration. RNA 12:446-56

Dallas, A., Vlassov, A.V. (2006) RNAi: a novel antisense technology and its therapeutic potential. Med. Sci. Monit. 4:RA67-74

H. Ilves, R. L. Kaspar, Q. Wang, A. A. Seyhan, A. V. Vlassov, C. H. Contag, D. Leake, and B. H. Johnston (2006) Inhibition of hepatitis C IRES-mediated gene expression in vivo by small hairpin RNAs. Ann. N.Y. Acad. Sci., 1082: 52-55.

2005

Wang, Q., Contag, C.H., Ilves, H., Johnston, B.H., and Kaspar, R.L. (2005) Small hairpin RNAs efficiently inhibit hepatitis C IRES-mediated gene expression in human tissue culture cells and a mouse model. Mol. Therapy 12:562-8.

Vlassov, A.V., Kazakov, S.A., Johnston, B.H., and Landweber, L.F. (2005) The RNA World on Ice: A New Scenario for the Emergence of RNA Information. J. Mol. Evol. 61:264-273

Kazakov, S.A. & Hecht, S.M. (2005) Nucleic Acid-Metal Ion Interactions. In King, R. B. (ed.), Encyclopedia of Inorganic Chemistry. 2nd ed., Wiley, Chichester, vol. VI, pp. 3690-3724.

Vlassov, A.V., Johnston, B.H., and Kazakov, S.A. (2005) Hairpin ribozyme-catalyzed ligation in water-alcohol solutions. Oligonucleotides 15:303-309.

Seyhan, A.A., Vlassov, A.V., Ilves, H., Egry, L., Kaspar, R.L., Kazakov, S.A., and Johnston, B.H. (2005) Complete, gene-specific siRNA libraries: production and expression in mammalian cells. RNA 10:837-846.

2004

Vlassov, A.V., Koval, O.A., Johnston, B.H. and Kazakov, S.A. (2004) ROLL: A method of preparation of gene-specific oligonucleotide libraries. Oligonucleotides 14:210-220.

Vlassov, A.V., Johnston, B.H., Landweber, L.F. and Kazakov, S.A. (2004) Ligation activity of fragmented ribozymes in frozen solution: implications for the RNA world. Nucleic Acids Res. 32:2966-2974.

Vlassov, V.V. & Vlassov, A.V. (2004) Cleavage of RNA by imidazole. In: Zenkova M.A. ed. Artificial Nucleases (Series: Nucleic Acids and Molecular Biology). Springer-Verlag, Heidelberg, pp. 49-60.

Dallas, A., Vlassov, A.V. and Kazakov, S.A. (2004) Cleavage of nucleic acids by metal ions. In Zenkova, M.A., ed. Artificial Nucleases (Nucleic Acids and Molecular Biology Ser., Gross. H.J., ed.) Springer-Verlag, Heidelberg, pp. 61-88.

Patents
Kaspar R.L., Ilves H., Seyhan A.A., Vlassov A.V., Johnston B.H. Small interfering RNAs that efficiently inhibit viral gene expression and methods of uses thereof. International Patent Application (PCT) No. WO2006031901, published 2006-03-23.

Kazakov, S.A., Vlassov, A.V., Dallas, A., Seyhan, A.A., Egry, L.A., Ilves, H., Kaspar, R.L., and Johnston, B.H. Methods of preparation of gene-specific oligonucleotide libraries and uses thereof. International Patent Application (PCT) No. WO2006007569, published 2006-01-19; No. US2006051789, published 2006-03-09.

Kazakov, S.A., Dallas, A., Kuo, T.-C., and Johnston, B.H. Method of preparation of RNA capable of target-dependent circularization and topological linkage. International Patent Application (PCT) No. WO2005001063, published 2005-01-06.

Kazakov, S.A., Vlassov, A.V. and Johnston, B.H. Methods and compositions for production of directed sequence libraries. International Patent Application (PCT) No. WO03100100A1.

Johnston, B.H., Kazakov, S.A. and Kisich, K. Antisense and antigene therapeutics with improved binding properties and methods for their use. Australia Patent AU756301.

Johnston, B.H., Kazakov, S.A. and Kisich, K. Antisense and antigene therapeutics with improved binding properties and methods for their use. International Patent Application (PCT) No. WO99/09045.