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Since we process both the forward-strand and reverse-strand gene identifications simultaneously in one pass, there is another set of eight state transitions for the reverse strand.
This was done for the forward as well as for the reverse strand.
The CNR1 gene is found on the reverse strand of chromosome 6.
Therefore, only cDNA of reverse strand transcripts was hybridized to the chips.
Four of the 17 clusters overlap the exons of known genes previously annotated to reverse strand.
The viral RNA was used to generate reverse strand cDNA by RT-PCR kit (Invitrogen, Carlsbad, CA).
4µl of DNA was used in PCR with primers designed to the reverse strand bisulphite-converted DNA [22].
So far we have only considered using a single, either forward or reverse, strand for inferring TF binding.
Using the RATZEB1 primer for mapping the initiation sites on the reverse strand, three clones were identified (Fig. 4b).
The tiling arrays revealed an enrichment of downregulated probes in two reverse strand clusters in Spr (Figure 2).
For a block of 9 genes on the reverse strand of chromosome 3, evidence for transcription was absent.
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