GSE147550 S100A4  mRNA-protein relationship uncovered by measurement noise reduction 

Contributors : Angelos-Theodoros Athanasiou ; Thomas Nussbaumer ; Stefan Kummer ; Martin Hofer ; Iain G Johnston ; Moritz Staltner ; Daniela M Allmer ; Milcah C Scott ; Claus Vogl ; Joelle M Fenger ; Jaime F Modiano ; Ingrid Walter ; Ralf SteinbornSeries Type : Expression profiling by high throughput sequencingOrganism : Canis lupus familiarisIntrinsic biological fluctuation and/or measurement error can obscure the association  of gene expression patterns between RNA and protein levels. Appropriate normalisation of reverse-transcription quantitative PCR (RT-qPCR) data can reduce technical noise in transcript measurement, thus uncovering such relationships. The accuracy of gene expression measurement is often cha llenged in the context of cancer due to its genetic instability and ‘splicing weakness’. Here we sequenced the poly(A) cancer transcriptome of canine osteosarcoma using mRNA-Seq. Expressed sequences were resolved at the level of two consecutive exons to enable the design of exon-border spann ing RT-qPCR assays and ranked for stability based on the coefficient of variation (CV). Using the same template type for RT-qPCR validation, i.e. poly(A) RNA, avoided skewing of stability assessment by circular RNAs (circRNAs) and/or rRNA deregulation. The strength of the relationship between mRNA expression of the tumour marker S100A4 and its proportion score of quantitative immunochemistry (qIHC) was introduced as an experimental read-out to fine-...
Source: GEO: Gene Expression Omnibus - Category: Genetics & Stem Cells Tags: Expression profiling by high throughput sequencing Canis lupus familiaris Source Type: research