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Normalizing cancer RNA-seq data for library size, tumor purity and batch effects

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Accurate identification and effective removal of unwanted variation is essential to derive meaningful biological results from large and complex RNA-seq studies. Technical replicates together with negative and positive control genes are key tools for carrying out this task. We show how to proceed when technical replicates are unavailable.

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Fig. 1: RUV-III-PRPS improves normalization of TCGA RNA-seq data.

References

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This is a summary of: Molania, R. et al. Removing unwanted variation from large-scale RNA sequencing data with PRPS. Nat. Biotechnol. https://doi.org/10.1038/s41587-022-01440-w (2022)

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Normalizing cancer RNA-seq data for library size, tumor purity and batch effects. Nat Biotechnol 41, 27–28 (2023). https://doi.org/10.1038/s41587-022-01441-9

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