Specailty Microarrays

Specialty Microarrays

Atactic Technologies provides specialty microarrays based a proprietary µParaflo™ microfluidic technology platform. The various oligonucleotide sequences containing modification residues, RNA, 5'- or 3'-end labelings are in-situ synthesized directly on chip. These specialty chips can be purchased at a fraction of the cost for spotting arrays and have a quick-return around time. There have been a wide range of applications reported for their applications (see below). Please contact us for your needs support@atactictech.com.

Specialty Microarrays and Application Examples

Microarray Type	Application Examples	Reference
RNA oligonucleotides	· Aptamer screening of high affinity binding sequences · Antisense oligonucleotide binding arrays · Protein/peptide-RNA binding assays · Profiling of RNA-DNA and RNA-RNA interactions	1
Phosphorothioate oligonucleotides	· Antisense oligonucleotide screening · Profiling binding with proteins	2
Duplex DNA sequences	· Probing DNA-protein interactions (transcription factor chips)	3
Modified oligonucleotides	· RNA modifications such as 2’-F and 2’-OMe oligos for novel aptamers and antisense sequences · Methylation modification of nucleobases for probing interactions of these sequences with other biological molecules; effect of modification on the properties of the sequences as substrate of enzymatic reactions · O- or N-methylation of nucleobases for investigation of base pair properties of mutagenic sequences	4
5’- or 3’-labeling	· Fluoro-dye or biotin labeling at selected sites as signal references in quantitation by relative intensities of probes and targets · Thiol, amino, and biotin labels for further modifications of the oligonucleotides on chip · Phosphorylation enabling of ligation	5
5’ to 3’ reverse synthesis	· Primer extension for SNP detection · DNA Sequencing	6

1. (a) Burgstaller, P., Jenne, A., and Blind, M. (2002) Aptamers and aptazymes: accelerating small molecule drug discovery. Curr. Opin. Drug Discov. Devel. 5, 690-700. (b) Murphy, MB., Fuller, S. T., Richardson, P. M., and Doyle, S. A. (2003) An improved method for the in vitro evolution of aptamers and applications in protein detection and purification. Nucleic Acids Res. 31, e110.

2. Bassett, S. E., Fennewald, S.M., King, D.J., Li, X., Herzog, N. K., Shope, R., Aronson, J. F., Luxon, B. A., and Gorenstein, D. G. (2004) Combinatorial selection and edited combinatorial selection of phosphorothioate aptamers targeting human nuclear factor-kappaB RelA/p50 and RelA/RelA. Biochemistry 43, 9105-9015.

3. (a) Bulyk, M. L., Huang, X., Choo, Y., and Church, G. M. (2001) Exploring the DNA-binding specificities of zinc fingers with DNA microarrays. Proc. Natl. Acad. Sci. USA 98, 7158-7163. (b) Mukherjee, S., Berger, M. F., Jona, G., Wang, X. S., Muzzey, D., Snyder, M., Young, R. A., and Bulyk, M. L. (2004) Rapid analysis of the DNA-binding specificities of transcription factors with DNA microarrays. Nat. Genet. 36, 1331-1339.

4. (a) Harborth, J., Elbashir, S. M., Vandenburgh, K., Manninga, H., Scaringe, S. A., Weber, K., and Tuschl, T. (2003) Sequence, chemical, and structural variation of small interfering RNAs and short hairpin RNAs and the effect on mammalian gene silencing. Antisense Nucleic Acid Drug Dev. 13, 83-105. (b) Grunweller, A., Wyszko, E., Bieber, B., Jahnel, R., Erdmann, V.A., and Kurreck, J. (2003) Comparison of different antisense strategies in mammalian cells using locked nucleic acids, 2'-O-methyl RNA, phosphorothioates and small interfering RNA. Nucleic Acids Res. 31, 3185-3193.

5. Research at Atactic Technologies.

6. Hirschhorn, J. N., Sklar, P., Lindblad-Toh, K., Lim, Y. M., Ruiz-Gutierrez, M., Bolk, S., Langhorst, B., Schaffner, S., Winchester, E., and Lander, E. S. (2000) SBE-TAGS: an array-based method for efficient single-nucleotide polymorphism genotyping. Proc. Natl. Acad. Sci. USA 97, 12164-12169.

Specialty Microarrays and Application Examples

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