RNA-seq find marker genes

Question

[massimo.larosa]

Hi all, How can I extract marker genes from an RNA-seq expression profile matrix? I tried MGFR algorithm (https://bioconductor.org/packages/release/bioc/html/MGFR.html) but unfortunately the resulting marker list does not contain the marker gene names even if the algorithm works. Is there any other way to compute those biomarker?

Best

Massimo

[Kevin Blighe]

Ciao, what is the aim of your work?; how would you define a 'marker'? There are countless / many ways that one can find marker genes. It could be via:

• differential expression
• regression
• classification algorithms
• Z-scores
• et cetera