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how to apply volcano plot for genes predicting a phenotype

Hey guys, Is it an intuitive way using volcano plots genes that predict a continuous phenotype e.g BMI? I know it perfectly works for differentially expressed genes. I would be happy if someone can give me some directions. Best, Amare

r volcanoplot enchanced volcanoplots
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written by adR adR

1 answer

Please elaborate on what you mean. It is not clear.

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written by Kevin Blighe Kevin Blighe

Hi Kevin, I have a list of genes which predict a continuous variable BMI. I have no groups which I would like to compare but I would like to show positively and negatively correlated genes with BMI. For these purpose I am thinking to use regression estimate and pvalue. Do you think I can do that in volcano plot? Thanks for answering my question Best, AD

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written by adR adR

Sure, you can regress each gene independently to BMI, but I am not sure why (or how) you want to do this in a volcano plot? Or, do you mean that you want to colour-shade the genes in the volcano plot based on BMI, in some way?

Perhaps one of the options in EnhancedVolcano can help? - https://github.com/kevinblighe/EnhancedVolcano

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written by Kevin Blighe Kevin Blighe

Yes I would like to colour shade the genes based on BMI! Thanks Kevin!

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written by adR adR

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