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07_​Gene_​Expression_​Analysis

Gene Expression Analysis

In this workflow, we analyze RNA-Seq data from tumors and matched normal tissue from three patients with oral squamous cell carcinomas (https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0009317). Differentially expressed genes are discovered using the R package edgeR and are then displayed in an interactive view. Subsequently, genes are hierarchically clustered based on their expression pattern, and the results are shown via a dendrogram alongside a heatmap. We then perform a pathway enrichment analysis and look for compounds targeting the gene product of interest.

This workflow illustrates the use case of analyzing and annotating gene expression data.Requirement: R package edgeR Action required: Select genes of interestAction required: Select Cluster of interestDifferential gene expressionanalysis Action required: Select Pathway of interest Differential ExpressionView Results Select Input Files(positive and control) Read Data Gene Information Clustering, Heatmap,Gene Details Query and Display Compoundsfor selected Targets R Snippet Pathway EnrichmentAnalysis This workflow illustrates the use case of analyzing and annotating gene expression data.Requirement: R package edgeR Action required: Select genes of interestAction required: Select Cluster of interestDifferential gene expressionanalysis Action required: Select Pathway of interestDifferential ExpressionView Results Select Input Files(positive and control) Read Data Gene Information Clustering, Heatmap,Gene Details Query and Display Compoundsfor selected Targets R Snippet Pathway EnrichmentAnalysis

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Created by: jeany
Created at: 2019-07-06
On NodePit since: 2025-04-15
Last update: 2026-01-10
Created with KNIME version: v4.4.1
Tags: Life SciencesBioinformaticsRShared componentsInteractive views

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