Open AccessSelection of oligonucleotide probes for protein coding sequences
Author(s) -
Xiaowei Wang,
Brian Seed
Publication year - 2003
Publication title -
bioinformatics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.599
H-Index - 390
eISSN - 1367-4811
pISSN - 1367-4803
DOI - 10.1093/bioinformatics/btg086
Subject(s) - oligonucleotide , computational biology , computer science , filter (signal processing) , biology , untranslated region , source code , dna microarray , sequence space , coding region , algorithm , genetics , rna , gene , mathematics , gene expression , pure mathematics , banach space , computer vision , operating system
Large arrays of oligonucleotide probes have become popular tools for analyzing RNA expression. However to date most oligo collections contain poorly validated sequences or are biased toward untranslated regions (UTRs). Here we present a strategy for picking oligos for microarrays that focus on a design universe consisting exclusively of protein coding regions. We describe the constraints in oligo design that are imposed by this strategy, as well as a software tool that allows the strategy to be applied broadly.
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