Are intron mapped reads expected from RNA based reads?
For sequencing techniques using RNA derived reads, would you expect to find large numbers of intron based peaks/clusters? I have seen this mentioned in passing in some papers with little discussion of the significance; I also found this post that mentions it. Is this expected? Could background noise be causing a large number of intronic reads? Does this indicate poor quality?
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Why Are There Many Rna-Seq Hits To Intronic Regions?
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