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  3. Differential Expression Analysis with limma in R

Exercise

Test for differential expression between 2 groups

Now that you have an ExpressionSet object and a design matrix, you can fit and test your model with limma.

Instructions

100 XP

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

  • Fit the model coefficients with lmFit.

  • Calculate the t-statistics with eBayes.

  • Summarize the results with decideTests.

  • Since it doesn't make sense to test the intercept term, specify the coefficient "Diseasestable" when running decideTests.