Computational tools for next generation sequencing: from nucleotides to functional genomics.
The aim of this tutorial is to make participants familiar with state-of-the-art bioinformatics methodologies for the analysis of deep sequencing data.
After a brief overview of current deep sequencing technologies and applications, participants will be introduced to alignment strategies and bioinformatics challenges on such ultra high-throughput data. We will show how to run a complete RNA-Seq analysis pipeline by using efficient tools such as Bowtie, BWA, SAMtools, BEDtools.
Hands-on examples will be given of short read alignment, quantification and visualization of gene or miRNA expression levels, identification of genetic polymorphisms, visualization on genome browsers. Participants will be enabled to apply complete pipelines for single- and paired-end data analyses and visualization. A Linux or Mac laptop is required to benefit most from this course.
