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Old 04-12-2018, 02:42 PM   #1
Location: US

Join Date: Mar 2017
Posts: 22
Default TMM normalisation and p-value

Hi all,

I have all the TMM normalised data from 3 replicates of RNA-seq done by someone. But I am not sure about the data analysis carried out based on these counts. For example - Some genes have high TMM counts for all replicates in control and treated. But they have not included this gene as differentially expressed. While for some genes, my control has zero count but treated has high value. So what can I conclude from this? How is the TMM count related to p-value. If I want to pick potential candidates for my further research,
should I give importance to the fold change or tmm or p-value?

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