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Because of the lack of technology for routine analysis, an interesting study took advantage of incorrectly orientated probes in commercial arrays [ 14].
In fact, the 80 antisense-specific probe sets could not necessarily be classified as antisense transcripts, because these may represent incorrectly orientated probes.
The results showed that the commercial expression arrays were sensitive enough to detect antisense transcription, but because it cannot be assumed that current commercial arrays contain incorrectly orientated probes, this type of study could not be repeated.
The objectives of this research were to construct high resolution linkage maps using large mapping populations, to identify misplaced or incorrectly orientated genomic regions, to anchor additional scaffolds in the Glyma1.01 assembly, and to position SSR and SNP markers in the Wm82.a2.v1assembly.
To overcome this, Werner et al. [ 17] took advantage of the approximately 25% of incorrectly orientated probes on the Affymetrix GeneChip U74A and U74B 3' in vitro transcription (3'IVT) mouse arrays to detect novel antisense transcription in mouse brain and kidney tissues.
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