Cath Brooksbank

Head of Outreach and Training

EMBL-EBI

Train onlineFree online courses from EMBL-EBI

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EMBL-EBI’s Mission

• To provide freely available data and bioinformatics services to all facets of the scientific community in ways that promote scientific progress

• To contribute to the advancement of biology through basic investigator-driven research in bioinformatics

• To provide advanced bioinformatics training to scientists at all levels, from PhD students to independent investigators

• To help disseminate cutting-edge technologies to industry

• To coordinate biological data provision across Europe

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Training at EMBL-EBI• Hands-on courses for experimental researchers• Selection of applicants to address escalating demand• Immersive philosophy in which networking among trainers

and delegates is strongly encouraged• Programme reflects the breadth of our services and is an

integral part of EMBL’s course and conference programme

• We welcome external experts as trainers and guest lecturers

• www.ebi.ac.uk/training/handson/

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Training on tour: the roadshow

• Mobile training programme offering hands-on training worldwide

• Especially suitable for new users• Some roadshows funded by

external grants, others by the host

• Apply to host a roadshow: • www.ebi.ac.uk/training/

roadshow/

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Training on demand: Train online

• Free, flexible online courses on the EMBL-EBI's most widely used data resources, created for life scientists by experts in our service teams

• No previous experience of bioinformatics necessary to benefit from the courses

• We want to help you to be highly competent users of our data resources; we are not trying to train you to become bioinformaticians!  

• You can repeat the courses as many times as you like, or just complete part of a course to brush up on how to perform a specific task

• www.ebi.ac.uk/training/online

How to find Train online from EBI home

www.ebi.ac.uk/training/online

Select ‘Train online’ from the Training menu

The welcome page

Register here if you want to do

quizzes and receive updates

Full list of courses

Courses by category

Choosing a course from ‘gene expression’

Let’s take a look at a course on the Gene

Expression Atlas

This course will take ~2 hours if you complete it in

one session

Course description page

Let’s assume that you’ve already done

the intro course

Check that the course will meet your needs

Right, let’s start…

Course structure

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Show and tell

Learning objectives

What have I learned?

Apply learning to real use cases

Practice by myself

Have I understood the key concepts?

Learn more

Learning objectives

Work your way through the course

from here

The first page tells you what you should be

able to do once you’ve completed the course

…or jump straight to the section that you

need from the navigation bar

Tutorials

The steps box tells you what to do next

Glossary terms

Glossary terms are highlighted with a grey

box

I can browse the entire glossary from here

The summary page

Review your learning on the summary page

Guided examples

Revise your knowledge using guided examples

Exercises

If you get stuck, there’s a hints page

Apply your knowledge with exercises

‘How we did it’ videos

Find out how the experts completed the task

Check your learning If you’re logged in you can do short quizzes to

check your learning

When you’ve completed a quiz, you get feedback on your

answers

Your quiz results are stored in your account page, so you can keep a record of progress

References

References are linked to journal articles through CiteXplore, the EBI’s

resource for the scientific literature

Learn more

Find out where you can expand your knowledge

further

Who wrote this course?

Find out who the course authors are

Learning pathways

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Introduction to a field

Quick tour of db1

Quick tour of db2

Db1 essentials

Db1 advanced Db1 advanced

Introduction to genomics resources at the EBI

Quick tour of Ensembl

Quick tour of Ensembl Genomes

Ensembl essentials

Variation with Ensembl

Comparative genomics with

Ensembl

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Courses as of Jan 2012GenomesEnsembl

(Ensembl Genomes EGA)

GenomesEnsembl

(Ensembl Genomes EGA)

Nucleotide sequenceENA

Nucleotide sequenceENA

Functional genomics

ArrayExpressExpression Atlas

Functional genomics

ArrayExpressExpression Atlas

Protein SequencesUniProt

Protein SequencesUniProt

Protein families, motifs and domains

InterPro

Protein families, motifs and domains

InterPro

Macromolecular structures

PDBe

Macromolecular structures

PDBeProtein activityIntAct , PRIDE

Protein activityIntAct , PRIDE

Chemical entitiesChEBI

Chemical entitiesChEBI

PathwaysReactome

PathwaysReactome

SystemsBioModels

BioSamples

SystemsBioModels

BioSamples

Literature and ontologies(CiteXplore,) GO

Literature and ontologies(CiteXplore,) GO

ChemogenomicsChEMBL

ChemogenomicsChEMBL

Intro or quick tour

Full-length ‘essentials’ course

Who develops Train online?

Webdevelopment

I’m here!

I’m here!

Come and see us at booth 302!

Thank you for listening!

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