We've discussed these gene expression metrics a few times recently, so below is a video that gives a nice explanation for each of them. https://www.youtube.com/watch?v=TTUrtCY2k-w Also of interest is one of the comments, asking about comparisons across samples that aren't replicates. A small quote from the reply: To be honest, TPM, FPKM and RPKM etc … Continue reading FPKM, RPKM and TPM
Category: rnaseq
RNA extraction – Trizol protocol
EDIT: no sooner do I publish this than I discover that there is actually a kit that combines Trizol extraction and the PureLink columns. We've got a couple of these Trizol protocols hanging around the lab, just thought it might be a good idea to save them here for posterity. Trizol extraction is good for … Continue reading RNA extraction – Trizol protocol
RNA-seq – how many replicates?
I think we've discussed this paper before in lab meetings, but just thought I'd pop it here for posterity. How many biological replicates are needed in an RNA-seq experiment and which differential expression tool should you use? The authors performed an RNA-seq experiment with 48 replicates per condition, identified the significantly differentially expressed genes, and … Continue reading RNA-seq – how many replicates?
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