This is a test version of Biostars. For the public version, visit https://www.biostars.org.
How to predict the effect of DNA base deletion on protein?

I was wondering if any tool is available to predict the effect of DNA base deletion at protein level?

I would like to explore the consequences of deletion mutation.

gene snp
• 3,349 views • link
written by abc.faisal • abc.faisal

VEP and SnpEff are good if you want a command-line tool to integrate into your pipeline. If you want to further investigate the consequences of just a couple of variants, you can try for example PredictSNP2, Consurf, ProtScale and Protter.

• 1 views • link
written by pristanna pristanna

I was thinking to translate DNA sequence (without deletion and with deletion) into protein sequence and compare them using the tools you mentioned. Does this make sense to you?

• 1 views • link
written by abc.faisal • abc.faisal

1 answer

• 1 views • link
written by finswimmer finswimmer

I have already found a deletion of C at SNP (8:21984668 C / A). How can I predict deleterious impact of the deletions at protein level?

• 1 views • link
written by abc.faisal • abc.faisal

You run it through the tools that Fin mentioned.

• 1 views • link
written by Emily Emily

Log in to answer this question.

More posts like this