Optimized in situ construction of oligomers on an array surface

Tolonen, A. C., Albeanu, D. F., Corbett, J. F., Handley, H., Henson, C., Malik, P. (October 2002) Optimized in situ construction of oligomers on an array surface. Nucleic Acids Research, 30 (20). e107. ISSN 0305-1048

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URL: http://www.ncbi.nlm.nih.gov/pubmed/12384609
DOI: 10.1093/nar/gnf106

Abstract

Oligonucleotide arrays are powerful tools to study changes in gene expression for whole genomes. These arrays can be synthesized by adapting photolithographic techniques used in microelectronics. Using this method, oligonucleotides are built base by base directly on the array surface by numerous cycles of photodeprotection and nucleotide addition. In this paper we examine strategies to reduce the number of synthesis cycles required to construct oligonucleotide arrays. By computer modeling oligonucleotide synthesis, we found that the number of required synthesis cycles could be significantly reduced by focusing upon how oligonucleotides are chosen from within genes and upon the order in which nucleotides are deposited on the array. The methods described here could provide a more efficient strategy to produce oligonucleotide arrays.

Item Type: Paper
Uncontrolled Keywords: Computer Simulation Gene Expression Profiling methods Oligonucleotide Array Sequence Analysis methods Oligonucleotides chemical synthesis
Subjects: bioinformatics > genomics and proteomics > annotation > gene expression profiling annotation
bioinformatics > genomics and proteomics > analysis and processing > microarray gene expression processing
bioinformatics > genomics and proteomics > computers > computer software
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > genes, structure and function > gene expression
CSHL Authors:
Communities: CSHL labs > Albeanu lab
Depositing User: CSHL Librarian
Date: 15 October 2002
Date Deposited: 19 Mar 2012 21:03
Last Modified: 04 Dec 2014 16:49
PMCID: PMC137151
Related URLs:
URI: http://repository.cshl.edu/id/eprint/25446

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