SCOPE AND TOPIC

The purpose of this workshop is to get a deeper understanding in Next-Generation Sequencing (NGS) with a special focus on bioinformatics issues. Additionally, all workshop participants should be enabled to perform important tasks of NGS data analysis tasks themselves.

The first workshop module is an introduction to data analysis using Linux, assuring that all participants are able to follow the practical parts. The second module discusses advantages and disadvantages of current sequencing technologies and their implications on data analysis. The most important NGS file formats (fastq, sam/bam, bigWig, etc.) are introduced and one proceeds with first hands-on analyses (QC, mapping, visualization). You will learn how to read and interpret QC plots, clip adapter sequences and/or trim bad quality read ends, get bioinformatics backgrounds about the read mapping and understand its problems (dynamic programming, alignment visualization, NGS mapping heuristics, etc.), perform your own mapping statistics and visualize your data in different ways (IGV, UCSC, etc.). The last two modules address two specific applications of NGS: RNA-seq of model organisms and RNA-seq of non-model organisms.

The workshop comprises three course modules which can be combined:

1. Linux for Bioinformatics
The essential tools and file formats required for NGS data analysis will be introduced. It helps to overcome the first hurdles when entering this (for NGS analyses) unavoidable operating system.

2. Introduction to NGS data analysis
Different methods of NGS will be explained, the most important notations be given and first analyses be performed.

3. RNA-seq Data Analyses
Particpants can choose up to one of the following options:
3.1. RNA-Seq for model-organisms
3.2. RNA-Seq for non-model organisms
Depending on the organism you are working with, our trainers will show you what's possible with your data and how you could/should interpret the output data.

SCOPE AND TOPIC

IMPORTANT DATES

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