RNA-Seq with Bioconductor in R

MellanliggandeFärdighetsnivå

Uppdaterad 2024-09

Use RNA-Seq differential expression analysis to identify genes likely to be important for different diseases or conditions.

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Kursbeskrivning

RNA-Seq is an exciting next-generation sequencing method used for identifying genes and pathways underlying particular diseases or conditions. As high-throughput sequencing becomes more affordable and accessible to a wider community of researchers, the knowledge to analyze this data is becoming an increasingly valuable skill. Join us in learning about the RNA-Seq workflow and discovering how to identify which genes and biological processes may be important for your condition of interest! We will start the course with a brief overview of the RNA-Seq workflow with an emphasis on differential expression (DE) analysis. Starting with the counts for each gene, the course will cover how to prepare data for DE analysis, assess the quality of the count data, and identify outliers and detect major sources of variation in the data. The DESeq2 R package will be used to model the count data using a negative binomial model and test for differentially expressed genes. Visualization of the results with heatmaps and volcano plots will be performed and the significant differentially expressed genes will be identified and saved.

Förkunskapskrav

Introduction to Bioconductor in R Introduction to Data Visualization with ggplot2

Introduction to RNA-Seq theory and workflow

In this chapter we explore what we can do with RNA-Seq data and why it is exciting. We learn about the different steps and considerations involved in an RNA-Seq workflow.

Kursbeskrivning

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