Pathway Analysis

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Inferring metabolic pathway activity levels from RNA-Seq data

Inferring metabolic pathway activity levels from RNA-Seq data

Assessing pathway activity levels is a plausible way to quantify metabolic differences between various conditions. This is usually inferred from microarray expression data. Wide availability of NGS technology has triggered a demand for bioinformatics tools capable of analyzing pathway activity ...

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gsa4mirna – Integrated gene set analysis for microRNA studies

gsa4mirna – Integrated gene set analysis for microRNA studies

Functional interpretation of miRNA expression data is currently done in a three step procedure: select differentially expressed miRNAs, find their target genes, and carry out gene set overrepresentation analysis Nevertheless, major limitations of this approach have already been described at ...

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miTALOS v2 – Analyzing Tissue Specific microRNA Function

miTALOS v2 – Analyzing Tissue Specific microRNA Function

MicroRNAs are involved in almost all biological processes and have emerged as regulators of signaling pathways. Researchers from the German Research Center for Environmental Health show that miRNA target genes and pathway genes are not uniformly expressed across human tissues. To ...

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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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