The Bioinformatics Roadshow - Thessaloniki, Greece

Course Summary

EBI Roadshow Host: Aristotle University of Thessaloniki (AUTH), School of Biology
Date: 7-9 February, 2012
Venue: Science Center and Technology Museum "NOESIS"
Host Organiser: Ilias Kappas
Event logistics: Frank O'Donnell
Registration Deadline: CLOSED

Course Overview | Programme | Feedback | Trainers | Materials

Course Overview

What will I learn?

To learn about genome annotation with a focus on vertebrates and other eukaryotes
Practical experience in data mining approaches based on BioMart
How to look at comparative genomics data (gene trees and homologies) and sequence variation (including structural variation)

How to browse and retrieve data from the ArrayExpress public repository of transcriptomics data. Data formats for transcriptomics data and submission to ArrayExpress can be covered in a separate lecture.
How to query for condition-specific gene expression patterns as well as broader exploratory searches for biologically interesting genes/samples correlations

To understand the differences between the major protein sequence databases.
To learn the different ways to access sequence data (sequence search, text search...).
To understand what is to be found in a molecular interaction database, alternative data formats and the various tools designed to work with them.

Programme

Time	Subject	Trainer
Day 1 - 07 February 2012
09:30 - 10:30	Ensembl	Denise Carvalho-Silva
10:30 - 11:00	Coffee Break
11:00 - 12:30	Ensembl (cont.)	Denise Carvalho-Silva
12:30 - 13:15	Lunch
13:15 - 15:00	Public database for transcriptomics data & Gene Expression Atlas Gene Expression Data analysis	Emma Hastings
15:00 - 15:30	Tea Break
15:30 - 17:00	Public database for transcriptomics data & Gene Expression Atlas Gene Expression Data analysis (cont.)	Emma Hastings
Day 2 - 08 February 2012
09:30 - 10:30	Protein Sequence Databases	Wei Mun Chan
10:30 - 11:00	Coffee Break
11:00 - 12:30	Protein Sequence Databases (cont.)	Wei Mun Chan
12:30 - 13:15	Lunch
13:15 - 15:00	Interactions & Pathways	James Watson
15:00 - 15:30	Tea Break
15:30 - 17:00	Interactions & Pathways (cont.)	James Watson
Day 3 - 09 February 2012
09:30 - 10:30	Protein Function and Classification	Amaia Sangrador
10:30 - 11:00	Coffee Break
11:00 - 12:30	Protein Function and Classification (cont.)	Amaia Sangrador
12:30 - 13:15	Lunch
13:15 - 15:00	Nucleotide Sequence Databases	James Watson
15:00 - 15:30	Tea Break
15:30 - 17:00	Nucleotide Sequence Databases (cont.)	James Watson

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Feedback Form

Once you have completed the roadshow please take 5 minutes to complete the online feedback form: Feedback Form

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Materials

Please note that whilst you will be provided with copies of the tutorials, you will not receive copies of the presentations. You will need to print these prior to the course if you require them.

Day 1 - Ensembl: Presentation, Course Booklet

Day 1 - ArrayExpress & Transcriptomics: Presentation, Tutorial

Day 2 - Protein Sequence: Presentation, Tutorial, Answers

Day 2 - Interactions & Pathways: Tutorial 1, Tutorial 2, Presentation 1, Presentation 2, Reactome Reference

Day 3 - Protein Function & Classification: Presentation, Tutorial

Day 3 - Nucleotide Sequence Database: Tutorial 1, Tutorial 2, Presentation 1, Presentation 2

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Registration

Registration is now CLOSED.

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Trainers

Emma Hastings
Wei Mun Chan
Denise Carvalho-Silva
Amaia Sangrador
James Watson

Contact

For further information, to register interest, or enquire about hosting a roadshow - please contact the EMBL-EBI Events Team, T: +44 (0)1223 494444.

The Bioinformatics Roadshow is funded by the European Commission under SLING, grant agreement number 226073 (Integrating Activity) within Research Infrastructures of the FP7 Capacities Specific Programme.

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