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

时间: 2013/11/17 至 2013/11/22
地点:Yantian District, Shenzhen, China
主办单位:
官方网址: http://events.embo.org/13-large-scale-data
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2013 EMBO Practical Course - Bioinformatics and statistics for large-scale data

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

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

CONTACT INFORMATION

Yolanda Zheng

External Training Department, BGI College

Tel :+86 -755-25273851

Email: training@service.genomics.cn

Address: BGI-Shenzhen, Beishan Industrial Zone, Yantian District, Shenzhen, 518083, China.



联系方式

联系人:Yolanda Zheng

E-mail:

电 话:+86 -755-25273851

地 址:BGI-Shenzhen, Beishan Industrial Zone, Yantian District, Shenzhen, 518083, China.

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