Dear all,
I am working on a method which combines the results of two procedures (limma, GSEA) to identify differentially expressed genes/pathways to obtain even better results using a simple machine learning approach. For this, I need some kind of gold standard to compare my results with. So my question is: Does somebody know a dataset for which the results (up or down regulated genes/pathways) are known/sufficiently proved (e.g data set used by a paper)? The data should be publicly available and microarray based.
Best regards, Jan-Niklas
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Jan-Niklas •
Hi Jan-Niklas,
please have a look at the SEQC experiments (see here) and the ABRF study (see publication here).
Both studies are based on the FDA-samples (A,B,C, & D) which are standardised mRNA-samples and have also been used in the MAQC studies for Microarray platforms. Both studies are publicly available at GEO.
Cheers,
Michael
Thanks a lot, Michael. Pointed me in the right direction. However, I came across these two studies, which seem perfect for my purpose. Wanted to share them with everbody interested:
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