Hi everyone,
I have encountered somewhat unique issue in one of my collaborators samples and would like to hear your input/thoughts.
1. Reads in the middle of some exons are lower in one set of samples (triplicates).
2. This happens pretty randomly in many exons but not in UTRs.
3. It is not observed in short exons.
4. Library was made at the same time with other samples.
5. All samples were spread in several lanes to avoid batch effect during sequencing.
6. Reads were aligned with STAR
7. Seems to appear too often to consider alternative splicing/differential exon usage
8. In the example attached, the bottom two have fewer reads in the middle of snap25 exon.
Thanks for reading and appreciate your help!
I have encountered somewhat unique issue in one of my collaborators samples and would like to hear your input/thoughts.
1. Reads in the middle of some exons are lower in one set of samples (triplicates).
2. This happens pretty randomly in many exons but not in UTRs.
3. It is not observed in short exons.
4. Library was made at the same time with other samples.
5. All samples were spread in several lanes to avoid batch effect during sequencing.
6. Reads were aligned with STAR
7. Seems to appear too often to consider alternative splicing/differential exon usage
8. In the example attached, the bottom two have fewer reads in the middle of snap25 exon.
Thanks for reading and appreciate your help!
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