Length distribution of PacBio RNA-seq
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5.0 years ago
tunl ▴ 70

I got a length distribution of a PacBio RNA-seq sample. There is a really tall peak (at least a magnitude higher than the majority) at a very narrow range of short lengths. I was wondering what might be the possible reasons for such a narrow tall peak at short lengths?

Any advice would be greatly appreciated.

Thank you very much in advance!

RNA-Seq PacBio long reads • 1.2k views
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Do they all have a similar sequence? What's the organisms?

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The sequence lengths range from < 100 to about 14k. It's a human sample. Thanks a lot!

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I don't have enough experience with human samples. It might be a specific ncRNA, it also depends on the library preparation protocol, especially RNA selection (poly-A selection, ribo-zero etc.). I suggest to look at their sequences or map them independently.

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Which aligner did you use? Difficult to tell without commands and a screenshot.

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They have not been aligned yet. Thanks!

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It's unclear how the library was prepared, but could those reads be rRNA?

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It used polyA RNA. Thanks a lot!

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