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  • 2013 EMBO Practical Course - Bioinformatics and statistics for large-scale data

    2013 EMBO Practical Course - Bioinformatics and statistics for large-scale data

    17–22 November 2013 | Yantian District, Shenzhen, China

    URL:http://events.embo.org/13-large-scale-data/

    ABOUT THE PRACTICAL COURSE

    This international advanced course will provide training on bioinformatics and statistics methods for genomic research. It will give insight into how biological knowledge can be generated from high-throughput sequencing (DNA-Seq, RNA-seq, ChIP-seq) experiments and will illustrate how to analyze such data. The course covers both the underlying statistical and algorithmic concepts, and the practice of how to automate and code such analyses using the scripting language R.
    The course will be a mix of lectures and hands-on training. Practicals will consist of computer exercises that will enable the participants to apply statistical methods to the analysis of data under the guidance of the lecturers and teaching assistants. The EMBO Practical course will also teach the basics of the R/Bioconductor environment for statistical-bioinformatic data analysis.
    The course is aimed at PhD students, postdocs and interested faculty. The teaching language will be English. Basic experience in computer programming (writing scripts) is required.


    SPECIFIC TOPIC AREAS INCLUDE:

    ■DNA variant calling
    ■differential expression
    ■quality control
    ■statistical significance tests and multiple testing, pathway enrichment analyses
    ■clustering and classification (machine learning)
    ■working with genome annotation
    ■using R and Bioconductor


    PROGRAMME

    Day one
    18:00 Arrival and Registration (Yolanda Zheng)
    19:00 Welcome Dinner & Poster Session

    Day two
    8:40 Registration (Yolanda Zheng)
    8:50 Introduction (W. Huber, Doris Yang, Yolanda Zheng)
    9:00 Lecture: RNA-Seq, ChiP-Seq, DNA-Seq intro: what are the data analytic challenges? (G. Rustici, W. Huber)
    10:00 Coffee Break
    10:30 Lecture: Introduction to R and Bioconductor (M. Morgan)
    11:30 Tutorial: Working with sequence data, part I (M. Morgan, W. Huber, G. Rustici)
    12:30 Lunch
    14:00 Practical Session: Working with sequence data. part II (M. Morgan W. Huber, G. Rustici)
    16:00 Practical Session: Important concepts and idioms of the R language (Gang Chen)
    17:15 Wrap-up, Question and answers
    17:30 Tour of BGI
    18:30 Dinner & Back to hotel

    Day three
    9:00 Lecture: RNA-Seq & differential expression part I (W. Huber)
    10:00 Coffee Break
    10:30 Lecture: ChIP-Seq (G. Rustici)
    11:30 Lecture: Leveraging Annotation and Data Integration (M. Morgan)
    12:30 Lunch
    14:00 Practical Session: Differential expression with DESeq and DEXSeq
    16:45 Wrap-up, Question and answers
    17:00 Poster Session
    18:30 Dinner & Back to hotel

    Day four
    09:00 Lecture: Ranges-based computations (M. Morgan)
    10:00 Coffee Break
    10:30 Lecture: Elements of Statistics: t-test and linear model (W. Huber)
    11:30 Lecture: TBC (G. Rustici)
    12:30 Lunch
    14:00 Practical Session: ChIP-Seq, Ranges, Annotation
    16:45 Wrap-up, Question and answers
    17:00 Flashlight talks by participants (4 x 7 min)
    17:30 Dinner & Back to hotel

    Day five
    09:00 Lecture: RNA-Seq & differential expression part II (W. Huber)
    10:00 Coffee Break
    10:30 Lecture: TBC (provisional title: Gene set enrichment methods; M. Morgan)
    11:30 Lecture: TBC (provisional title: Pathway analyses; G. Rustici)
    12:30 Lunch
    14:00 Lecture: DNA-variant calling (including plant and animal; Xin Liu)
    15:00 Coffee Break
    15:30 Practical Session: DNA-variant calling (Xin Liu)
    16:45 Wrap-up, Question and answers
    17:00 Flashlight talks by participants (4 x 7 min)
    17:30 Dinner & Back to hotel

    Day six
    09:00 Lecture: High-Quality Data Visualisation (Huber/Rustici)
    10:00 Coffee Break
    10:30 Lecture: TBC (provisional title: Methods for reproducible research; M. Morgan)
    11:30 Lecture: Basics of Machine Learning (Gang Chen)
    12:30 Lunch
    14:00 Practical Session: Machine Learning (Gang Chen)
    17:00 Wrap and Departure


    SPEAKERS

    Wolfgang Huber EMBL Germany
    Simon Anders EMBL Germany
    Martin Morgan Fred Hutchinson Cancer Research Center USA
    Gabriella Rustici EMBL-EBL UK
    Doris Yang BGI College Shenzhen, China
    Xin Liu BGI Shenzhen, China
    Gang Chen BGI Shenzhen, China


    REGISTRATION

    Registration Fee:

    Academic: € 400 / RMB 3400 / $520
    Students: € 300 / RMB 2550 / $390
    Industry: € 500 / RMB 4250 / $650

    Register by: 20 September 2013



    INTERESTED IN ATTENDING? VISIT THE FOLLOWING WEBSITE FOR MORE DETAILS AND APPLY ONLINE.




    CONTACT INFORMATION
    Yolanda Zheng
    External Training Department, BGI College
    Tel :+86 -755-25273851
    Email: [email protected]
    Address: BGI-Shenzhen, Beishan Industrial Zone, Yantian District, Shenzhen, 518083, China.

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