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Epigenetics Workshop - DNA Methylation Data Analysis

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  • Epigenetics Workshop - DNA Methylation Data Analysis

    DNA Methylation Data Analysis
    How to use bisulfite-treated sequencing to study DNA methylation

    Link to workshop page

    When?
    22. - 25. November 2016

    Where?
    iad Pc-Pool, Rosa-Luxemburg-Straße 23, Leipzig, Germany


    Scope and Topics
    The purpose of this workshop is to get a deeper understanding of the use of bisulfite-treated DNA in order to analyze the epigenetic layer of DNA methylation. Advantages and disadvantages of the so-called 'bisulfite sequencing' and its implications on data analyses will be covered. The participants will be trained to understand bisulfite-treated NGS data, to detect potential problems/errors and finally to implement their own pipelines. After this course they will be able to analyze DNA methylation and create ready-to-publish graphics.

    By the end of this workshop the participants will:
    • be familiar with the sequencing method of Illumina
    • understand how bisulfite sequencing works
    • be aware of the mapping problem of bisulfite-treated data
    • understand how bisulfite-treated reads are mapped to a reference genome
    • be familiar with common data formats and standards
    • know relevant tools for data processing
    • automate tasks with shell scripting to create reusable data pipelines
    • perform basic analyses (call methylated regions, perform basic downstream analyses)
    • plot and visualize results (ready-to-publish)
    • be able to reuse all analyses


    Target Audience
    • biologists or data analysts with no or little experience in analyzing bisulfite sequencing data


    Requirements
    • basic understanding of molecular biology (DNA, RNA, gene expression, PCR, ...)
    • the data analysis will partly take place on the linux commandline. Is is therefore beneficial to be familiar with the commandline and in particular the commands covered in the Learning the Shell Tutorial


    Included in the Course
    • Course materials
    • Catering
    • Conference Dinner


    Trainers
    • Dr. Helene Kretzmer (University of Leipzig) is working on DNA methylation analyses using high-throughput sequencing since 2011. She is responsible for the bioinformatic analysis of MMML-Seq study of the International Cancer Genome Consortium (ICGC).
    • Dr. Christian Otto (CCR-BioIT) is one of the developers of the bisulfite read mapping tool segemehl and is an expert on implementing efficient algorithms for HTS data analyses.
    • Dr. Mario Fasold (ecSeq Bioinformatics) has developed several bioinformatics tools such as the Bioconductor package AffyRNADegradation and the Larpack program package. Since 2011 he is specialized in the field of HTS data analysis and helped analysing sequecing data of several large consortium projects.


    Key Dates
    Opening Date of Registration: 01 February 2016
    Closing Date of Registration: 01 November 2016
    Workshop: 22 - 25 November 2016 (8 am - 5 pm)

    Attendance
    Location: iad Pc-Pool, Rosa-Luxemburg-Straße 23, Leipzig, Germany
    Language: English
    Available seats: 24 (first-come, first-served)

    Registration fees:

    1,298 EUR (without VAT)

    Travel expenses and accommodation are not covered by the registration fee.

    Contact
    ecSeq Bioinformatics
    Brandvorwerkstr.43
    04275 Leipzig
    Germany
    Email: [email protected]

    Visit: http://www.ecseq.com/workshops/works...-Data-Analysis
    Last edited by ecSeq Bioinformatics; 10-26-2016, 12:29 AM.
    ecSeq Bioinformatics is Europe’s leading provider of hands-on bioinformatics workshops and professional data analysis in the field of Next-Generation Sequencing (NGS).

  • #2
    Our two trainers published the analysis workflow of this course in Nature Genetics. read more
    ecSeq Bioinformatics is Europe’s leading provider of hands-on bioinformatics workshops and professional data analysis in the field of Next-Generation Sequencing (NGS).

    Comment


    • #3
      Final Call! Some last seats are available!
      ecSeq Bioinformatics is Europe’s leading provider of hands-on bioinformatics workshops and professional data analysis in the field of Next-Generation Sequencing (NGS).

      Comment

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