Hands-On Training in Transcript Reconstruction

[ecSeq Bioinformatics]

Combine the transcriptome reconstruction workshop with one of our other courses and you will get a 10% discount to all booked workshops!

[ecSeq Bioinformatics]

Discovering standard and non-standard RNA transcripts - How to detect canonical splicing, circular RNAs, trans-splicing, and fusion transcripts

When?
October 23rd - 24th 2014

Where?
Leipzig, Germany


Scope and Topics
The purpose of this workshop is to get a deeper understanding in the usage of split-read mapping in order to find splice junctions, predict new isoforms and uncover non-standard RNA molecules, like circularized RNAs or fusion-transcripts. Advantages and disadvantages of the so-called split-reads and their implications on data analyses will be covered. The participants will be trained to understand the mapping approach, to find potential problems/errors and finally to implement their own pipelines. After this course they will be able to find and analyze (non-)standard exon-exon junctions and create ready-to-use analyses pipelines.

By the end of this workshop the participants will:

• understand the implications of splicing or fusion events and the concept of split-reads
• understand how to detect splice sites using split-read information
• know how to predict and quantify different isoforms of genes
• be able to find circularized RNAs or fusion-stranscripts
• be able to perform differential splicing analyis
• automate tasks with shell scripting to create reusable data pipelines
• plot and visualize results
• be able to reuse all analyses

Find more information at http://www.ecseq.com/workshops/workshop_2014-04.html