Webinars

Webinars

Online Resources and Biological Data Analysis

Join us for our new webinar series!

Overview

This webinar series provides an overview of publicly available data resources, with an emphasis on those provided by the European Bioinformatics Institute.

The series forms part of the curriculum for the Master in Computational Biology at the University of the Andes. We would like to explore the possibility of other universities participating in this module in the future. Why not join us to experience the module and find out more?

Please note that these webinars will not typically be recorded because they form part of a live bioinformatics class. You will need to register in advance to join.

 

Audience

This series is suitable for graduate students and above in the molecular life sciences, or indeed anyone working in the biomolecular sciences wishing to familiarise themselves with the wealth of biological data available in the public domain. We also warmly welcome the participation of course directors and lecturers, so that they can gauge whether the content might be useful for their own courses.

Outcomes

  • Assess the role of bioinformatics in molecular life-science research
  • Recognise the major types of public data resources for biomolecular research
  • Select appropriate resources to explore data sets of interest to your research
  • Describe the key features of primary and secondary databases
  • List strategies for describing data consistently
  • Identify some of the different types of data analysis that can be applied to solving biological problems

Programme

Thursday 15 November

09:30–10:50 Colombia time / 15:30–16:50 British Summer Time / 14:30–15:50 UTC (check your time zone)

Programmatic Access 2

With Leyla García, Senior Software Engineer - Martin team: Protein Function development  [about Leyla]

Register for the webinar

Take a REST from manual searches and join us in this webinar to learn more on programmatic access for EBI resources with a special emphasis on UniProt REST services.

Pre-webinar Study: 

https://www.ebi.ac.uk/training/online/course/embl-ebi-programmatically-take-rest-manual-searches

You can ask questions and join in discussions with other participants using Slack



Previous webinars in this series

Thursday 08 November

09:30–10:50 Colombia time / 15:30–16:50 British Summer Time / 14:30–15:50 UTC (check your time zone)

Biological pathways with Reactome

With Thawfeek Varusai, Scientific Database Curator - Hermjakob team [about Thawfeek]

In this webinar, you will learn how to effectively use Reactome to search and access biological pathways and cellular reactions. You will also be able to analyze experimental data using the various tools available in the resource. 

Pre-webinar Study: 

Reactome: Exploring biological pathways

Reactome exercises

Estimated study time: 2.5 Hours

Thursday 01 November

09:30–10:50 Colombia time / 15:30–16:50 British Summer Time / 14:30–15:50 UTC (check your time zone)

Functional analysis of proteins with InterPro

With Lorna Richardson, Protein Family Curator - Finn team: Sequence families [about Lorna]

Lorna will give an overview of the information available in InterPro, and how InterPro data is used in large-scale analysis of proteins.

Pre-webinar Study:

Protein classification: An introduction to EMBL-EBI resources

InterPro: Functional and structural analysis of protein sequences

InterPro Exercises 

Estimated study time: 3 Hours

Thursday 25 October

09:30–10:50 Colombia time / 15:30–16:50 British Summer Time / 14:30–15:50 UTC (check your time zone)

Understanding protein structures with PDBe

With David Armstrong, Scientific Database Curator - Velankar team: PDBe [about David]

 


Thursday 18 October

09:30–10:50 Colombia time / 15:30–16:50 British Summer Time / 14:30–15:50 UTC (check your time zone)

Exploring molecular interactions with IntAct

With Birgit Meldal, Scientific Database Curator (Molecular Interaction & Complexes) - Molecular Interactions [about Birgit]

 


Thursday 11 October

09:30–10:50 Colombia time / 15:30–16:50 British Summer Time / 14:30–15:50 UTC (check your time zone)

Protein sequence to function with UniProt

With Leyla García, Senior Software Engineer - Martin team: Protein Function development  [about Leyla]

Register for the webinar

Registrants have the option to vote for the specific aspect of UniProt that is most relevant or of most interest to them. Options are

  • A practical walkthrough of the UniProt website for enzyme data
  • Exploring protein interactions with UniProt
  • Exploring models for human disease with UniProt

Registrants are first asked to complete the pre-webinar study before voting. Voting will close on 9th October. Complete the poll.

Pre-Webinar Study:

UniProt: Exploring protein sequence and functional information            

- UniProt website

- UniProt tools

Estimated study time: 2 Hours

 


Thursday 27 September

09:30–10:50 Colombia time / 15:30–16:50 British Summer Time / 14:30–15:50 UTC (check your time zone)

Introduction to the European Variation Archive

With Baron Koylass, Helpdesk Bioinformatician, EGA, EVA and ENA  [about Baron]

Baron will provide a showcase on how to access, submit and use data from all species and variant types using the European Variation Archive.


Thursday 20 September

09:30–10:50 Colombia time / 15:30–16:50 British Summer Time / 14:30–15:50 UTC (check your time zone)

Exploring functional genomics with Expression Atlas

With Laura Huerta Martinez, Senior Scientific Curator, Gene Expression [about Laura]

Laura will describe how to access and interpret gene expression analysis results with Expression Atlas. She will also explain downstream analysis results such as gene co-expression, transcript quantification and enrichment analysis.

Pre-webinar study

Estimated study time: 3-4 h


Tuesday 4 September to Thursday 13 September

09:00–10:50 Colombia time / 15:00–16:50 British Summer Time / 14:00–15:50 UTC (check your time zone)

Please note the earlier start time for these four webinars

Browsing genomes with Ensembl

Emily Perry, Ensembl Outreach Project Leader, EMBL-EBI [about Emily]

Astrid Gall, Ensembl Outreach Officer [about Astrid]

Erin Haskell, Ensembl Outreach Officer [about Erin]

Tuesday 4 Sep, 15:00 BST

  • Introduction to Ensembl
  • Ensembl region
  • Ensembl genes
  • Questions
  • Exercises as homework

Thursday 6 September, 15:00 BST

  • Variation data in Ensembl
  • Comparing genes and genomes
  • Questions
  • Exercises as homework

Tuesday 11 September, 15:00 BST

  • Finding features that regulate genes
  • Data export with BioMart
  • Questions
  • Exercises as homework

Thursday 13 September, 15:00 BST

  • Custom data
  • The Ensembl Rest API
  • Questions
  • Exercises as homework

Pre-webinar study

There is no pre-webinar study for this series; exercises will be provided at each webinar. If you would like to familiarise yourself with Ensembl before the webinar, take a look at...

Estimated study time: 3 h


Thursday 23 August

09:30–10:50 Colombia time / 15:30–16:50 British Summer Time / 14:30–15:50 UTC (check your time zone)

From papers to data with EuropePMC

Maria Levchenko, EuropePMC Community Manager, EMBL-EBI [about Maria]

Maria will give an introduction to literature and data searches in EuropePMC, EMBL-EBI's gateway to the life science literature.

Register for the webinar

Pre-webinar study

Estimated study time: 2–3 h


Thursday 16 August

09:30–10:50 Colombia time / 15:30–16:50 British Summer Time / 14:30–15:50 UTC (check your time zone)

An Introduction to Ontologies

Dani Welter, Ontologist, Human Cell Atlas, EMBL-EBI [About Dani]

Dani will explain what ontologies are and how they are used to improve searching and database interoperability.

Register for the webinar

Pre-webinar study

Estimated study time: 2–3 h


Thursday 9 August

09:30–10:50 Colombia time / 15:30–16:50 British Summer Time / 14:30–15:50 UTC (check your time zone)

Passport to a world of biodata

Cath Brooksbank, Head of Training, EMBL-EBI [about Cath]

Cath will provide an introduction to public data resources, with an emphasis on those provided by EMBL-EBI. She will summarise how data are collected and shared by the research community, why open data sharing is important, and touch on some of the different types of experiments that can be performed on biological data.

 Register for the webinar

Pre-webinar study

Estimated study time: 2–3 h