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Technology Track

Attention Presenters - please review the Speaker Information Page available here
Schedule subject to change
All times listed are in UTC
Friday, July 30th
11:00-11:20
Phyre2 and Missense3D: Protein structure prediction and missense variant analysis
Format: Pre-recorded with live Q&A

  • Michael J Sternberg, Imperial College London, United Kingdom

Presentation Overview: Show

Phyre2 is a web server to predict protein structure from sequence ( http://www.sbg.bio.ic.ac.uk/phyre2/ ) with ~ 100,000 unique IP hits per year. Missense3D ( http://missense3d.bc.ic.ac.uk/ ) is a web server to analyse the structural impact of a missense variants with precomputed results for ~4M human variants available in Missense3d-DB.

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11:20-11:40
Using CATH-Gene3D v4.3 and its resources to predict the structure and function of novel protein sequences
Format: Pre-recorded with live Q&A

  • Ian Stilltoe, University College London, United Kingdom

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An update on the tools, methods and datasets available from the CATH protein structure classification database, including the latest developments on clustering functional families (FunFams) within hugely populated evolutionary superfamilies, FunVar webpages and novel data visualization tools

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11:40-12:00
DeepChain: A platform for protein design
Format: Pre-recorded with live Q&A

  • Santiago Nicolas Lopez Caranza, InstaDeep, United Kingdom

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Here we present a novel, accessible and user-friendly platform for protein design. DeepChain helps life science researchers design and optimize protein-protein interactions, and is directly applicable to drug discovery.

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12:00-12:20
Developing a reusable and versatile virtual bioinformatics training platform in the de.NBI cloud
Format: Pre-recorded with live Q&A

  • Renato Alves, de.NBI - German Network for Bioinformatics Infrastructure, Germany

Presentation Overview: Show

Due to the Covid-19 pandemic, ‘German Network for Bioinformatics Infrastructure – de.NBI’ training activities transitioned from in-person to virtual formats. Building on de.NBI cloud infrastructure, an accessible and reusable platform, hereby presented, was developed to deliver computational online courses, and a set of online training best practices were identified.

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12:40-13:00
The EMBL-EBI search and sequence analysis tools APIs and their role during the current COVID-19 pandemic
Format: Pre-recorded with live Q&A

  • Fabio Madeira, European Bioinformatics Institute, United Kingdom

Presentation Overview: Show

The EMBL-EBI provides free access to a powerful full-featured text search engine as well as to core bioinformatics sequence analysis applications via web and programmatic interfaces. In this Technology Track talk, I would like to describe the latest improvements to the services and highlight their importance during the current pandemic.

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13:00-13:20
The European COVID-19 Data Portal – Accelerating COVID-19 Research through Open Data Sharing
Format: Pre-recorded with live Q&A

  • Matthew L Pearce, EMBL-EBI, United Kingdom

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In order to understand COVID-19 and develop treatments and vaccines to fight it, EMBL-EBI and partners operate the COVID-19 Data Portal (https://www.covid19dataportal.org). This Technical Track demonstrates how the portal is organised and the functionality it offers to enable users to find and navigate the many data resources it integrates.

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13:20-14:00
PerMedCoE: A roadmap to scalability in Personalized Medicine
Format: Pre-recorded with live Q&A

  • Jose Carbonell, Barcelona Supercomputing Center, Spain

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The PerMedCoE project will provide an efficient and sustainable roadmap to scale up a collection of relevant computational biology tools to leverage the next generation of HPC exascale platforms. In this presentation, we will summarize the main strategies we are following to achieve such a challenging goal.

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14:20-14:40
The GenePattern Notebook Environment
Format: Pre-recorded with live Q&A

  • Michael Reich, UCSD, United States

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This talk will demonstrate how the GenePattern Notebook environment, notebook.genepattern.org, extends the analytical and reproducible research capabilities of Jupyter Notebook and GenePattern for scientists at all levels of computational sophistication. We will also discuss recent additions to the environment, including new tools and featured notebooks, project spaces, and JupyterLab compatibility.

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14:40-15:20
Integrated Pathway/Genome/Omics Informatics in Pathway Tools and BioCyc
Format: Pre-recorded with live Q&A

  • Peter Karp, SRI International, United States

Presentation Overview: Show

Pathway Tools provides an extensive array of capabilities covering
genome informatics, pathway informatics, regulatory informatics, and
analysis of transcriptomics and metabolomics data. The BioCyc
database (DB) collection now includes 18,000 organism-specific
Pathway/Genome Databases (PGDBs). BioCyc PGDBs have been curated from
130,000 publications.

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