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Parallel and Distributed Processing Symposium, International (2003)
Nice, France
Apr. 22, 2003 to Apr. 26, 2003
ISSN: 1530-2075
ISBN: 0-7695-1926-1
pp: 154a
Andreas Krause , Technische Universit?t M?nchen
Markus Kräutner , Technische Universit?t M?nchen
Harald Meier , Technische Universit?t M?nchen
We present a method for automatic generation of DNA microarray probe sets. This approach is well suited particularly for specificity evaluation of designed probes in large data sets. Algorithms for probe preselection, hybridization prediction and probe selection are presented. Combinatorial techniques are introduced for selecting probe sets of high differentiation capability even from conserved gene sequences, for instance automatic generation of group specific probes and excluding probes. A basic prototype was implemented including a shared memory parallelization and distribution. The principal applicability of our method to a database of very conserved sequence data was shown and the run-time performance estimated.

H. Meier, A. Krause and M. Kräutner, "Accurate Method for Fast Design of Diagnostic Oligonucleotide Probe Sets for DNA Microarrays," Parallel and Distributed Processing Symposium, International(IPDPS), Nice, France, 2003, pp. 154a.
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