Hi everyone,
I designed an experiment looking at differential expression in a certain group of cells after overexpression of a gene in a neighbouring group of cells. In order to overexpress my gene (and overexpress its control gene in the controls), I needed to use temperature induction (those familiar with the dmel GAL4/GAL80ts system, that is what i used). That leaves me with RNA-seq data of the following description
12 Hr heat induction of expression - 3 bio reps of treatment / 3 bio reps of control
24 Hr heat induction of expression - 3 bio reps of treatment / 3 bio reps of control
48 Hr heat induction of expression - 3 bio reps of treatment / 3 bio reps of control
It seems that DESeq/edgeR only take factors as the variables. Are there any DE platforms that allow gene expression to be modelled against dosage/time?
I designed an experiment looking at differential expression in a certain group of cells after overexpression of a gene in a neighbouring group of cells. In order to overexpress my gene (and overexpress its control gene in the controls), I needed to use temperature induction (those familiar with the dmel GAL4/GAL80ts system, that is what i used). That leaves me with RNA-seq data of the following description
12 Hr heat induction of expression - 3 bio reps of treatment / 3 bio reps of control
24 Hr heat induction of expression - 3 bio reps of treatment / 3 bio reps of control
48 Hr heat induction of expression - 3 bio reps of treatment / 3 bio reps of control
It seems that DESeq/edgeR only take factors as the variables. Are there any DE platforms that allow gene expression to be modelled against dosage/time?
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