Comments on: Why microarray study conclusions are so often wrong

By: John

John — Sat, 05 Sep 2009 22:26:04 +0000

The advantage of microarrays is that they’re cheap. If you do enough independent runs to make quality inferences, they’re no longer cheap.

By: Brian H

Brian H — Sat, 05 Sep 2009 22:21:22 +0000

Why wouldn’t repeat runs, with some mod of sampling and procedure, weed out false positives?

By: Abhijit

Abhijit — Fri, 03 Apr 2009 04:36:21 +0000

You might also want to look at Wacholder, et al’s False Positive Report Probability (FPRP) (J Natl Cancer Inst, 2004 Mar 17;96(6):434-42), which is an attempt to directly address some of the issues you raise in a quasi-Bayesian framework.

By: Microarrays may be bad, but not that bad. « Suicyte Notes

Microarrays may be bad, but not that bad. « Suicyte Notes — Tue, 16 Dec 2008 00:14:33 +0000

[...] involves a lot of microarray data analysis. However, a series of recent blog posts [here, here and here] talk about microarray-related problems that differ so much from my own experiences that I cannot [...]

By: Dave Bridges

Dave Bridges — Sun, 14 Dec 2008 00:34:57 +0000

i’m new at this, but isnt this sort of problem the thing that false discovery rate adjusted p values (q values) is supposed to account for?

By: Reproducible Ideas » Blog Archive » Three reasons to distrust microarray results

Wed, 10 Dec 2008 19:29:52 +0000

[...] out perfectly, microarray experiment conclusions have a high probability of being incorrect for probabilistic reasons. Of course lab work and statistical analysis are not carried out perfectly. I went to a talk [...]