how to deal with strong sample heterogenous effects in RNAseq
Dear all,
How to deal with the downstream digging when the RNAseq samples are so far from each other by cluster and few significant DEGs after the filter? The few significant DEGs seem not solid(enough) to explain the biological process.
Thanks a lot!
1 answer
You can try to correct for experimental factors, use paired/repeated measures experimental designs, find latent factors that correlate with the biological condition of interest etc. But in the end if the signal is weaker than the noise, you can't magically make it stronger.
Log in to answer this question.
More posts like this
-
Differential Expression tests for cell-type clusters from a single-cell RNAseq dataset with no biol…
written by aa23871x •
-
Is there any recommended RNAseq ranking for DEGs/driver genes
written by dew •
-
possible reasons that very few significant DEGs from RNAseq
written by dew •
-
correlation among RNAseq and proteomics analysis
written by dew •
-
choose normalized counts or log2FC when do correlation in RNAseq
written by dew •
-
C7 msigdb immune annotation results digging
written by dew •
-
Drug affects at different time points
written by dew •
-
Low read counts in one of three biological replicates. Remove?
written by nadal-t •
-
Filtering a Tophat BAM file
written by Mehmet
-
Advice on RNASeq analysis without biological replicates for differential gene expression.
written by Christos Gekas •
