Hello,

I have SILAC protein data from three patients. How can I normalize the A10: Light/Heavy value over these patients?

Any available software or tools?

Thank you in advance for great help!

Best,

Yue

I assume that when you mention 3 patients, you refer to 6 columns, 3 corresponding to the heavy and 3 to the light samples.

There's no special requirement to normalise such data. As always, it's advised to visualise your data (densities of the expression data, PCA, ...) before/after normalising to assess the effect of the transformation.

As for tools, you can consider MSnbase, DEP, ... or DAPAR, if you are less familiar with the command line interface.