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_ EBI Roadshow at DBCLS

The purpose of the roadshow is to train experimental biologists how to make the most of some of Europe's most widely used public biological databases, such as Ensembl, ArrayExpress, BioMart, Expression Atlas and Reactome. The roadshow combines presentations and hands-on practical sessions. Trainees are guided through the selected databases and tools by expert trainers from the European Bioinformatics Institute (EBI), the Swiss Institute of Bioinformatics (SBI), the European Patent Office (EPO) and the BRENDA project. More information is available on the Bioinformatics Roadshow website.

Date

5(Mon)/6(Tue) September 2011

Venue

Database Center for Life Science（Faculty of Engineering Bldg.12, The University of Tokyo, 2-11-16 Yayoi, Bunkyo-ku, Tokyo)

Enrollment limit

24

Registration fee

Free

Lunch

We will provide light meals for participants.

PCs

Participants will be able to use PCs (Macbook) provided by DBCLS.

Banquet (optional)

5 September 17:30~ (3,000 Yen)

Registration (closed)

Deadline: 8 August 2011
A successful registration will be followed by a confirmation e-mail. Should you not receive the confirmation e-mail, please contact us.

Contact address (Send inquiries in Japanese or English)

EBI-roadshow at dbcls.rois.ac.jp

Organisers

European Molecular Biology Laboratory - European Bioinformatics Institute (EMBL-EBI)
DNA Data Bank of Japan (DDBJ), National Institute of Genetics (NIG), Research Organization of Information and Systems (ROIS)
Database Center for Life Science (DBCLS), ROIS

Co-organiser

National Bioscience Database Center (NBDC), Japan Science and Technology Agency (JST)

_ Program

Day 1: Access to Genes and Genomes with Ensembl (Jana Vandrovcova) 【Lectures and exercises movie】

09:00 - 09:15 Welcome remarks from the organizers
09:15 - 09:45 Introduction to EBI: overview of most relevant databases (Lecture)
09:45 - 11:15 Origin, goals, data and analysis in the Ensembl project Website Walkthrough
11:15 - 11:30 Coffee Break
11:30 - 12:15 Ensembl exercises

12:15 - 13:15 Lunch

13:15 - 14:15 Retrieving datasets using the data mining tool BioMart (Lecture and exercises)
14:15 - 15:15 Comparative genomics and proteomics: orthologues, protein families, whole genome alignments and syntenic regions (Lecture and exercises)
15:15 - 15:30 Coffee break
15:30 - 16:30 Variations: Single nucleotide polymorphisms in Ensembl, comparison of strains, breeds, individuals using the browser and BioMart (Lecture and exercises)
16:30 - 17:15 Case Study Exercises, or browse your own gene or region

Day 2: Transcriptomics and Pathways (James Watson) 【Lectures and exercises movie】

09:00 - 10:30 Functional Genomics resources at the EBI: ArrayExpress and Expression Atlas (Lecture)
10:30 - 10:45 Coffee break
10:45 - 12:30 ArrayExpress/Atlas exercises

12:30 - 13:30 Lunch

13:30 - 15:30 Reactome: a curated biological pathway database (Lecture and hands on)
15:30 - 15:45 Coffee break
15:45 - 17:00 More exercises & Questions

_ Other EBI Roadshows in Japan

00/07 September 2011 Showa Pharmaceutical University, Tokyo
008/9 September 2011 RIKEN, Yokohama
12/13 September 2011 Osaka University, Osaka
15/16 September 2011 OIST, Okinawa

For details, please visit http://www.ebi.ac.uk/training/roadshow/110905_Japan.html

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