Engineering a scalable placement heuristic for DNA probe arrays
RECOMB '03 Proceedings of the seventh annual international conference on Research in computational molecular biology
Border Length Minimization in DNA Array Design
WABI '02 Proceedings of the Second International Workshop on Algorithms in Bioinformatics
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In the manufacture of oligo arrays for DNA hybridization experiments, manufacturing defects must be detected and their position determined. The design of manufacturing protocols for such oligo arrays leads to a combinatorial problem, requiring certain binary codes which have an additional balance property. Constructions using block designs and packings for these codes, within a range of interest in a practical manufacturing application, are developed. The focus is on equireplicate codes, constant weight codes in which every bit position is a one equally often.