OligoDesign: Design of LNA oligonucleotides for gene expression arrays
Niels Tolstrup1, Peter S. Nielsen and Sakari Kauppinen
1tolstrup@exiqon.com, Exiqon
OligoDesign is a webservice for the design of DNA/LNA mixmer
oligonucleotides. LNA constitutes a novel class of RNA analogs
having an exceptionally high affinity and specificity toward
their complementary DNA and RNA target molecules. The OligoDesign
software features recognition and filtering of the target sequence
by genome-wide BLAST analysis in order to minimize
cross-hybridisation with non-target sequences. Furthermore it
includes routines for prediction of melting temperature,
self-annealing and secondary structure for LNA substituted
oligonucleotides, as well as secondary structure prediction of
the target nucleotide sequence. The poster discusses issues
with regard to the design of short oligonucleotides. The
OligoDesign program is freely accessible at http://lnatools.com/
Tolstrup et al.
OligoDesign: optimal design of LNA (locked nucleic acid)
oligonucleotide capture probes for gene expression profiling.
to apear in Nucleic Acids Research 2003, Vol. 31. No. 13