I have got FPKM and some genes have really low FPKM and I am going to do stat analysis for all the genes; my question is the analysis should be like microArray analysis and need some cut-off numbers? any suggestion for this?
-
-
You could implement an approach like the one described in this paper: http://www.ploscompbiol.org/article/...l.pcbi.1000598 in order to estimate the background RPKM/FPKM and arrive at a cutoff. It's based on looking at false positive and false negative rates based on a set of known genes and a set of control regions for which there is no evidence that they are being expressed.
-
Researchers using sequencing and genomics tools often have to make trade-offs. They can choose between speed or scale, short reads or long-range information, or targeted panels or a view of the whole transcriptome. New technologies that have been released this year are built to address those tough choices.
We asked six companies the same four questions to learn about their latest products. The new technologies bring a lot to the table, including rethinking sequencing...
Comment