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  3. Differential Expression Analysis with limma in R

Exercise

Contrasts matrix for 3 groups

To identify the differentially expressed genes between each of the 3 levels of oxygen, you need to define 3 pairwise contrasts.

Instructions

100 XP

The ExpressionSet object eset with the hypoxia data and the design matrix you just created (design) have been loaded in your workspace.

  • Use makeContrasts to define the 3 pairwise contrasts. Remember to use the column names from the design matrix without using quotation marks.