Analysis of NextGen RNA-Seq data for expression profiling and protein-binding RNAs

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Course Overview

The course aims to provide an introduction to the current state of RNA sequencing data analyses. Methods and
applications will be presented by internationally renowned guest speakers in the mornings and hands-on training on the latest computational approaches will follow in the afternoons.

During the first day, we will introduce you to the linux environment and the statistical programming language R and BioConductor
software packages for biological high-throughput data. The basics of R scripting will be practiced. During the following four days,
we will cover the complete work-flow of RNA-seq analysis and also focus on special applications such as CLIP-seq.

Computers for hands-on exercises will be provided along with demo data sets.

 

Target Group

This course was developed for PhD students with a background in biology and related fields. Preference will be given to PhD
students who are applying or planning to apply high throughput sequencing technologies and bioinformatics methods in their
research. Basic linux and scripting  skills (e.g. in R) are beneficial, but not mandatory to attend the course.

 

Topics

• The R/Bioconductor environment for statistical data analyses and graphics
• Short read sequence alignment
• Quality control
• Normalization and data reformatting
• Basic Statistics
• Selecting differentially regulated genes
• Selecting alternative splicing events
• Identification of protein-bound RNAs
• Biological interpretation and visualization

 

Outcomes

After this course you should be able to:

• Understand the advantages and limitations of high-throughput RNA sequencing
• Assess the quality of your datasets
• Apply appropriate short read alignment algorithms
• Quantify differential expression from RNA-seq datasets
• Summarize results in tables and figures
• Know your way around in R/Bioconductor to analyse your own dataset

 

Registration

30.05.-13.07.2016

 

Contact

Organisation: susanne.birkeneder@ur.de or kinga1.ay@ur.de
Content-related: julia.engelmann@ukr.de

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