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BMCBI
2011

Proportion statistics to detect differentially expressed genes: a comparison with log-ratio statistics

10 years 3 months ago
Proportion statistics to detect differentially expressed genes: a comparison with log-ratio statistics
Background: In genetic transcription research, gene expression is typically reported in a test sample relative to a reference sample. Laboratory assays that measure gene expression levels, from Q-RT-PCR to microarrays to RNA-Seq experiments, will compare two samples to the same genetic sequence of interest. Standard practice is to use the log2-ratio as the measure of relative expression. There are drawbacks to using this measurement, including unstable ratios when the denominator is small. This paper suggests an alternative estimate based on a proportion that is just as simple to calculate, just as intuitive, with the added benefit of greater numerical stability. Results: Analysis of two groups of mice measured with 16 cDNA microarrays found similar results between the previously used methods and our proposed methods. In a study of liver and kidney samples measured with RNASeq, we found that proportion statistics could detect additional differentially expressed genes usually classifie...
Tracy L. Bergemann, Jason Wilson
Added 24 Aug 2011
Updated 24 Aug 2011
Type Journal
Year 2011
Where BMCBI
Authors Tracy L. Bergemann, Jason Wilson
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