Author: Jabado, Omar J.; Liu, Yang; Conlan, Sean; Quan, P. Lan; Hegyi, Hédi; Lussier, Yves; Briese, Thomas; Palacios, Gustavo; Lipkin, W. I.
Title: Comprehensive viral oligonucleotide probe design using conserved protein regions Document date: 2007_12_13
ID: xfzhn1n1_2
Snippet: A comprehensive viral microarray should address the entire viral sequence database. Pairwise nucleic acid comparisons, while rapid, do not scale well with sequence number and ignore valuable coding information. Nonoverlapping segments, heterogeneous sizes and the large number of sequences preclude automated multiple alignments of nucleic acids for probe design. Protein-protein comparisons are more sensitive for detecting conserved regions due to .....
Document: A comprehensive viral microarray should address the entire viral sequence database. Pairwise nucleic acid comparisons, while rapid, do not scale well with sequence number and ignore valuable coding information. Nonoverlapping segments, heterogeneous sizes and the large number of sequences preclude automated multiple alignments of nucleic acids for probe design. Protein-protein comparisons are more sensitive for detecting conserved regions due to the power of substitution matrices (22) ; however, at the time of writing, no reported oligonucleotide design algorithm leverages this information.
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