Article
Identification of regions in multiple sequence alignments thermodynamically suitable for targeting by consensus oligonucleotides: application to HIV genome.
BMC bioinformatics - 29 Apr 2004
Matveeva Olga V, Foley Brian T, Nemtsov Vladimir A, Gesteland Raymond F, Matsufuji Senya, Atkins John F, Ogurtsov Alexei Y, Shabalina Svetlana A
Abstract excerpt
BACKGROUND: Computer programs for the generation of multiple sequence alignments such as "Clustal W" allow detection of regions that are most conserved among many sequence variants. However, even for regions that are equally conserved, their potential utility as hybridization targets varies. Mismatches in sequence variants are more disruptive in some duplexes than in others. Additionally, the propensity for...
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