Evidence Based Selection of Housekeeping Genes
By H. J. de Jonge, R. Fehrmann, E. D. de Bont, R. Hofstra, F. Gerbens, W. Kamps, E. D. de Vries, A. V. D. van der Zee, G. T. te Meerman, A. ter Elst. PLoS ONE, 2007
771 citations recorded by the source corpus.
For accurate and reliable gene expression analysis, normalization of gene expression data against housekeeping genes (reference or internal control genes) is required. It is known that commonly used housekeeping genes (e.g. ACTB, GAPDH, HPRT1, and B2M) vary considerably under different experimental conditions and therefore their use for normalization is limited. We performed a meta-analysis of 13,629 human gene array samples in order to identify the most stable expressed genes. Here we show novel candidate housekeeping genes (e.g. RPS13, RPL27, RPS20 and OAZ1) with enhanced stability among a multitude of different cell types and varying experimental conditions. None of the commonly used housekeeping genes were present in the top 50 of the most stable expressed genes. In addition, using 2,543 diverse mouse gene array samples we were able to confirm the enhanced stability of the candidate novel housekeeping genes in another mammalian species. Therefore, the identified novel candidate housekeeping genes seem to be the most appropriate choice for normalizing gene expression data.
Subfields: Molecular Biology
View Paper: https://www.semanticscholar.org/paper/9de2940b44c4962ae68b6a152df245ea374b128a
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Citations in the corpus
- Mapping the Mouse Cell Atlas by Microwell-Seq. (2018, positive): “…the quantification accuracy of different methods, we computed the Pearson Correlation Coefficient (R) between expression values of housekeeping genes (de Jonge et al., 2007; Zhou et al., 2016) in each cell and the average expression of reference genes for all sampled cells (65 cells) from a method.”
- RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays. (2008, methodology): “…was determined using a standard curve, after normalization of the results using quantitative RTPCR with primers for the RPS7 gene, which was shown to have constant expression levels in many tissues (de Jonge et al. 2007); this was also the case for both technologies used in our experiments.”