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Chunk #15 — Results and discussion — Empirical Bayes shrinkage for fold-change estimation

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Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.
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The resulting MAP LFCs are biased toward zero in a manner that removes the problem of exaggerated LFCs for low counts. As Figure 2B shows, the strongest LFCs are no longer exhibited by genes with weakest expression. Rather, the estimates are more evenly spread around zero, and for very weakly expressed genes (with less than one read per sample on average), LFCs hardly deviate from zero, reflecting that accurate LFC estimates are not possible here.