I'm starting a study using QTOF II to analyse sugarcane metabolome data in different conditions. The peak intensity normalization is a important step to aggregate biological meaning in my experiment. Two general ways is possible to use:
1- Statistical models;
2- Normalization by a single or multiple internal or external standard compounds.
These two ways are good for untargeted approach. So, Can I use both in the same time? Will I have some problem?
At any rate be careful with normalization to internal standards, especially if you use only one; compare its intensity over all samples. It can easily be possible that you have an outlier or some other technical issue during measurement and if you normalize a whole run to a failed internal standard you might deteriorate your data instead of improving it!
Dear Davi,
Definitely you can use both approach. But measure problem in case of metobolome study in LC-MS is that some time it mixed picks like M shape. so you need to optimize is with flow rate.
Best of luck.
Cheers.
At any rate be careful with normalization to internal standards, especially if you use only one; compare its intensity over all samples. It can easily be possible that you have an outlier or some other technical issue during measurement and if you normalize a whole run to a failed internal standard you might deteriorate your data instead of improving it!
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