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. 2017 Dec 1;16(12):4311-4318.
doi: 10.1021/acs.jproteome.7b00348. Epub 2017 Oct 27.

Why Are the Correlations Between mRNA and Protein Levels So Low Among the 275 Predicted Protein-Coding Genes on Human Chromosome 18?

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Why Are the Correlations Between mRNA and Protein Levels So Low Among the 275 Predicted Protein-Coding Genes on Human Chromosome 18?

Ekaterina V Poverennaya et al. J Proteome Res. .

Abstract

In this work targeted (selected reaction monitoring, SRM, PASSEL: PASS00697) and panoramic (shotgun LC-MS/MS, PRIDE: PXD00244) mass-spectrometric methods as well as transcriptomic analysis of the same samples using RNA-Seq and PCR methods (SRA experiment IDs: SRX341198, SRX267708, SRX395473, SRX390071) were applied for quantification of chromosome 18 encoded transcripts and proteins in human liver and HepG2 cells. The obtained data was used for the estimation of quantitative mRNA-protein ratios for the 275 genes of the selected chromosome in the selected tissues. The impact of methodological limitations of existing analytical proteomic methods on gene-specific mRNA-protein ratios and possible ways of overcoming these limitations for detection of missing proteins are also discussed.

Keywords: Human Proteome Project; analytical sensitivity; human chromosome 18; limit of detection; mRNA sequencing; proteome; quantitative PCR; selected reaction monitoring; transcriptome.

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