- The task of differential expression in essence boils down to creating a model of the form expression=b⋅[is diseased]+a and investigating whether the [is diseased] label helps predicting the gene expression level.
- It is important that the between-individual variation is not larger than the between-conditions variation.
- This means that when accounting for individual-specific effects on gene expression, it will never be possible to get low p-values.
- Multi-level regression: Say there is an overall mean expression level, and a between-mouse variance. Then for each mouse there is a mean expression level, with between-cell variance for that particular mouse.
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