User: laura.mannarino

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Posts by laura.mannarino

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Snpeff: clarification on gene fusion annotation
... Hi, I have a question about brakends (BND). They are sometimes annotated (INFO field) as *|gene_fusion|GENE_NAME1&GENE_NAME2|* and this is clear to me, however how can I interpret the same annotation with only one gene, for example *|gene_fusion|GENE_NAME|*? Examples: ]CHR13:21750661]C|gene_fu ...
annotation fusion genefusion written 17 days ago by laura.mannarino0
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Comment: C: Unclear Peak Annotation
... Yes, I am sorry, I wanted to say 16 introns, so I would have expected uc003etm.2/64084, intron 8 of **16** and not uc003etm.2/64084, intron 8 of **10**. Does it make sense or am I misunderstanding the annotation? ...
written 5 weeks ago by laura.mannarino0
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Comment: A: Unclear Peak Annotation
... Yes, I am sorry, I wanted to say 16 introns, so I would have expected *uc003etm.2/64084, intron 8 of **16*** and not *uc003etm.2/64084, intron 8 of **10***. Does it make sense or am I misunderstanding the annotation? Thanks ...
written 6 weeks ago by laura.mannarino0
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Unclear Peak Annotation
... Hi, I have used ChIPseeker to annotate ChIP-Seq peaks and I have found some cases that I don't know how to interpret. I reported here an example of ![IGV-snapshot of an annotated peak][1] . The peak that you see in the figure in red (biostar_ex.bed ) is annotated to TRIM42 gene, and actually you c ...
annotation chipseeker written 7 weeks ago by laura.mannarino0

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