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EMBL Advanced Course

Whole Transcriptome Data Analysis

EMBL Heidelberg, Germany Tuesday 25 June - Thursday 27 June 2013 Application closed
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Why You Should Apply

  • Summary

    This course was developed with biologists as intended audience in mind. Basic knowledge of microarray technology and massively parallel sequencing (MPS) are desirable. The course participants will use open source Affymetrix and BioConductor software solutions; On the other side, R-coding skills and deep knowledge of statistics are not necessary for attendance because most analyses will be performed with OneChannelGUI (a graphical interface to a series of BioConductor tools prepared by Prof. R. Calogero, which enables handling microarray data analysis as well as secondary quantitative analysis of miRNA without requiring programming skills). Computers for hands-on exercises will be provided along with demo data sets, however, participants are welcome to bring along their own data to analyse.

  • Topics

    • Tools for microarray/RNA-seq data analysis

    • Experimental design

    • Quality control

    • Normalization and data reformatting

    • Basic Statistics

    • Selecting differentially regulated genes/microRNAs

    • Selecting alternative splicing events

    • Multiple testing

    • Biological interpretation

  • Aims of event

    • Understand the importance of experimental design in order to ask sensible biological questions

    • Assess the quality of your data

    • Perform normalization and reformatting procedures

    • Complete basic statistical tests on Next Generation Sequencing (NGS) data

    • Annotate and interpret your data and perform integration between gene-level expression and microRNA differential expression data

    • Understand some of the problems encountered when analysing data

 

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