Tag Archives: gene expression

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Experimental Design and Power Calculation for RNA-seq Experiments

Experimental Design and Power Calculation for RNA-seq Experiments

(RNA-seq) has become a routine technique in transcriptome analysis, where identifying differential expression (DE) remains a major task. As expression is a stochastic process in nature, the technological improvement in RNA-seq cannot bypass the presence of biological variability. It has ...

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GOexpress – an R/Bioconductor package for the identification and visualisation of robust gene ontology signatures through supervised learning of gene expression data

GOexpress – an R/Bioconductor package for the identification and visualisation of robust gene ontology signatures through supervised learning of gene expression data

Identification of gene expression profiles that differentiate experimental groups is critical for discovery and analysis of key molecular pathways and also for selection of robust diagnostic or prognostic biomarkers. While integration of differential expression statistics has been used to refine ...

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Don’t bother with transcript level analysis

Don’t bother with transcript level analysis

High-throughput sequencing of cDNA (RNA-seq) is used extensively to characterize the transcriptome of cells. Many transcriptomic studies aim at comparing either abundance levels or the transcriptome composition between given conditions, and as a first step, the sequencing reads must be ...

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You might be ruining your RNA-Seq data

You might be ruining your RNA-Seq data

High-throughput RNA-Sequencing (RNA-Seq) has become the preferred technique for studying gene expression differences between biological samples and for discovering novel isoforms, though the techniques to analyze the resulting data are still immature. One pre-processing step that is widely but heterogeneously ...

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