Fabrication of microarray of gel-immobilized compounds on a chip by copolymerization

BioTechniques

Volumn 27, Issue 3, 1999, Pages 592-606

  Vasiliskov, A V ^a,c   Timofeev, E N ^a,b   Surzhikov, S A ^a,b   Drobyshev, A L ^a,b,c   Shick, V V ^a,b   Mirzabekov, Andrei D ^a,b,c  

^a ENGELHARDT INSTITUTE OF MOLECULAR BIOLOGY   (Russian Federation)

^b ARGONNE NATIONAL LABORATORY   (United States)

^c MOSCOW INSTITUTE OF PHYSICS AND TECHNOLOGY   (Russian Federation)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BINDING SITE; GENE EXPRESSION; POLYACRYLAMIDE GEL ELECTROPHORESIS; POLYMERIZATION; ULTRAVIOLET RADIATION;

EID: 0032824715     PISSN: 07366205     EISSN: None     Source Type: Journal    
DOI: 10.2144/99273rr06     Document Type: Article

References (33)

1. Blanchard, A.P., R.J. Kaiser and L.E. Hood. 1996. High-density oligonucleotide arrays. Biosens. Bioelectron. 11:687-690.
2. Chee, M., R. Yang, E. Hubbell, A. Berno, X.C. Huang, D. Stern, J. Winkler, D.J. Lockhart, M.S. Morris and S.P.A. Fodor. 1996. Accessing genetic information with high-density oligonucleotide arrays. Science 274:610-614.
3. Cheng, J., E.L. Sheldon, L. Wu, M. Heller and J. O'Connell. 1998. Isolation of cultured cervical carcinoma cells mixed with periferal blood cells on a bioelectronic chip. Anal. Chem. 70:2321-2326.
4. Cho, R.J., M. Fromont-Racine, L. Wodicka, B. Feierbach, T. Stearns, P. Legrain, D.J. Lockhart and R. Davis. 1998. Parallel analysis of genetic selections using whole genome oligonucleotide arrays. Proc. Natl. Acad. Sci. USA 95:3752-3757.
5. Drobyshev, A., N. Mologina, V. Shick, D. Pobedimskaya, G. Yershov and A. Mirzabekov. 1997. Sequence analysis by hybridization with oligonucleotide microchip: identification of β-thalassemia mutations. Gene 188:45-52.
6. Dubiley, S., Eu. Kirillov, Yu. Lysov and A. Mirzabekov. 1997. Fractionation, phosphorylation and ligation on oligonucleotide microchips to enhance sequencing by hybridization. Nucleic Acids Res. 25:2259-2265.
7. Fodor, S.P.A., J.L. Read, M.C. Pirrung, L. Stryer, A. Tsai Lu and D. Solas. 1991. Light-directed, spatially addressable parallel chemical synthesis. Science 257:767-773.
8. Fotin, A., A. Drobyshev, D. Proudnikov, A. Perov and A. Mirzabekov. 1998. Parallel thermodynamic analysis of duplexes on oligodeoxyribonucleotide microchips. Nucleic Acids Res. 26:1515-1521.
9. Gingeras, T.R., G. Ghandour, E. Wang, A. Berno, P.M. Small, F. Drobniewski, D. Alland, E. Desmond, M. Holodniy and J. Drenkow. 1998. Simultaneous genotyping and species identification using hybridization pattern recognition analysis of generic mycobacterium DNA arrays. Genome Res. 8:435-448.
10. Grasby, J.A., P.J.G. Butler and M.J. Gait. 1993. The synthesis of oligoribonucleotides containing O6-methylguanosine: the role of conserved guanosine residues in hammerhead ribosyme cleavage. Nucleic Acids Res. 21:4444-4450.
11. Guschin, D.Y., B.K. Mobarry, D.Yu. Proudnikov, D.A. Stahl, B.E. Rittmann and A.D. Mirzabekov. 1997. Oligonucleotide microchips as genosensors for determinative and enviromental studies in microbiology. Appl. Environ. Microbiol. 63:2397-2402.
12. Guschin, D., G. Yershov, A. Zaslavsky, A. Gemmel, V. Shick, D. Proudnikov, P. Arenkov and A. Mirzabekov. 1997. Manual maufacturing of oligonucleotide, DNA and protein microchips. Anal. Biochem. 250:203-211.
13. Hacia, J.G., L.C. Brody, M.S. Chee, S.P.A. Fodor and F.S. Collins. 1996. Detection of heterozygous mutations in BRCA1 using high-density oligonucleotide arrays and two color fluorescence analysis. Nat. Genet. 14:441-447.
14. Hermanson, G.T. 1996. Bioconjugate Techniques, Part I, Ch. 2. Academic Press, San Diego.
15. Hoheisel, J.D., E. Maier, R. Mott, L. McCarthy, A. V. Grlgoriev, L.C. Schalkwyk, D. Nizetic, F. Francis and H. Lehrah. 1993. High-resolution cosmid and P1 maps spanning the 14Mb genome of the fission yeast S. pombe. Cell 73:109-120.
16. Kenney, M., S. Ray and T.C. Boles. 1998. Mutation typing using electrophoresis and gel-immobilized Acrydite™ probes. BioTechniques 25:516-521.
17. Lamture, J.B., K.L. Beattie, B.E. Burke, M.D. Eggers, D.J. Ehrlich, R. Flower, M.A. Hollins, B.B. Kosicki et al. 1994. Direct detection of nucleic acids hybridization on the surface of a charge coupled device. Nucleic Acids Res. 22:2121-2125.
18. Lockhart, D.J., H. Dong, M.C. Byrne, M.T. Follettie, M.V. Gallo, M.S. Chee, M. Mittmann, C. Wang et al. 1996. Expression monitoring by hybridization to high-density oligonucleotide arrays. Nat. Biotechnol. 14:1675-1680.
19. Lubimova, T., S. Caglio, C. Gelfi, P.G. Reghetti and T. Rabilloud. 1993. Photopolymerization of polyacrylamide gels with methylene blue. Electrophoresis 14:40-50.
20. Maskos, U. and E. Southern. 1992. Oligonucleotide hybridizations on glass support: a novel linker for oligonucleotide synthesis and hybridization properties of oligonucleotides synthesized in situ. Nucleic Acids Res. 20:1679-1684.
21. McGall, G., J. Labadie, P. Brock, G. Wallraff, T. Nguyen and W. Hinsberg. 1996. Light directed synthesis of high-density oligonucleotide arrays using semiconductor photoresists. Proc. Natl. Acad. Sci. USA 95:13555-13560.
22. McGall, G.H., A.D. Baron, M. Diggelmann, S.P.A. Fodor, E. Gentalen and N. Ngo. 1997. The efficiency of light-directed synthesis of DNA arrays on glass substrates. J. Am. Chem. Soc. 119:5081-5090.
23. Proudnikov, D., E. Timofeev and A. Mirzabekov. 1997. Immobilization of DNA in polyacrylamide gel for the manufacture of DNA and DNA-oligonucleotide microchips. Anal. Biochem. 259:34-41.
24. Rehman, F.N., M. Audeh, E.S. Abrams, P.W. Hammond, M. Kenney and T. Christian Boles. 1999. Immobilization of acrylamide-modified oligonucleotides by copolymerization. Nucleic Acids Res. 27:649-655.
25. Righetti, P.G., B.C.W. Brost and R.S. Snyder. 1981. On the limiting pore size of hydrophilic cells for electrophoresis and isoelectric focusing. J. Biochem. Biophys. Meth. 4:347-363.
26. Sambrook, J., E.F. Fritsch and T. Maniatis. 1989. Molecular Cloning: A Laboratory Manual, 2nd ed. CSH Laboratory press, Cold Spring Harbor, NY.
27. Smith, M., D.H. Rammler, I.H. Goldberg and H.G. Khorana. 1962. Studies of polynucleotides. XIV. Specific synthesis of the C3′-C5′ internucleotide linkage. Synthesis of uridylyl - (3′-5′) uridine and uridylyl - (3′-5′ adenosine. J. Am. Chem. Soc. 84:430-440.
28. Sosnowski, R., E. Tu, W. Butler, J. O'Connell and M. Heller. 1997. Rapid determination of single base mismatch mutations in DNA hybrids by direct electric field control. Proc. Natl. Acad. Sci. USA 94:1119-1123.
29. Southern, E.M., S.C. Case-Green, J.K. Elder, M. Johnson, K.U. Mir, L. Wang and J.C. Williams. 1994. Arrays of complementary oligonucleotides for analyzing the hybridization behavior of nucleic acids. Nucleic Acids. Res. 22:1368-1373.
30. Timofeev, E.N., S.V. Kochetkova, A.D. Mirzabekov and V.L. Florentiev. 1996. Regioselective immobilization of short oligonucleotides to acrylic copolymer gels. Nucleic Acids Res. 24:3142-3148.
31. Wang, D.G., J.-B. Fun, C.-J. Siao, A. Berno, P. Young, R. Supolsky, G. Ghandour, N. Perkins et al. 1998. Large scale identification, mapping, and genotyping of single-nucleotide polymorphisms in the human genome. Science 230:1077-1082.
32. Wodicka, L., H. Dong, M. Mittmann, M.-H. Ho and D.J. Lockhart 1997. Genome-wide expression monitoring in Saccharomyces cerevisae. Nat. Biotechnol. 75:1359-1367.
33. Yershov, G., V. Barsky, A. Belgovskiy, E. Kirillov, E. Kreindlin, I. Ivanov, S. Parinov, D. Guschin et al. 1996. DNA analysis and diagnostics on oligonucleotide microchips. Proc. Natl. Acad. Sci. USA 93:4913-4918.