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Nucleic Acids Research, 2000, Vol. 28, No. 4 E11-e11
© 2000 Oxford University Press

Production by quantitative photolithographic synthesis of individually quality checked DNA microarrays

Markus Beier* and Jörg D. Hoheisel

Functional Genome Analysis, Deutsches Krebsforschungszentrum, Im Neuenheimer Feld 506, D-69120 Heidelberg, Germany

For DNA chip analyses, oligonucleotide quality has immense consequences for accuracy, sensitivity and dynamic range. The quality of chips produced by photolithographic in situ synthesis depends critically on the efficiency of photo-deprotection. By means of base-assisted enhancement of this process using 5'-[2-(2-nitrophenyl)-propyloxycarbonyl]-2'-deoxynucleo­side phosphoramidites, synthesis yields improved by at least 12% per condensation compared to current chemistries. Thus, the eventual total yield of full-length oligonucleotide is increased more than 10-fold in the case of 20mers. Furthermore, the quality of every individual array position was checked quantitatively after synthesis. Subsequently, the quality tested chips were used in successive hybridisation experiments.

* To whom correspondence should be addressed. Tel: +49 6221 424684; Fax: +49 6221 424682; Email: m.beier@dkfz-heidelberg.de


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