EMBO Workshop
Visualizing Biological Data (VizBi)
EMBL Heidelberg, Germany Wednesday 3 March - Friday 5 March 2010
Registration is closed for this event.
A primary way that biologists interact with their data is through visualization systems, ranging from simple, stand-alone methods to complex, integrated software packages. However, the sheer volume and diversity of both data and of visualization systems presents an increasing challenge for biologists.
The goal of the workshop is to bring together, for the first time, researchers developing and using systems to visualize a broad range of biological data, including sequences, genomes, phylogenies, macromolecular structures, systems biology, microscopy, and magnetic resonance imaging. In selecting topics for this workshop, we have focused on the visualization of processed and annotated data in their biological context, rather than the processing of raw data.
The meeting will review the state-of-the-art and highlight current and future challenges across this broad range of visualization systems.
The underlying theme of the workshop is to provide a forum to help identify and exploit synergies. For example - cases for inter- operation, the re-use of methods or concepts, and common conventions in usability.
EMBL Advanced Training Centre, Heidelberg, Germany, 3 - 5 March 2010
Aims
A primary way that biologists interact with their data is through visualization systems, ranging from simple, stand-alone methods to complex, integrated software packages. However, the sheer volume and diversity of both data and of visualization systems presents an increasing challenge for biologists.
The goal of the workshop is to bring together, for the first time, researchers developing and using systems to visualize a broad range of biological data, including sequences, genomes, phylogenies, macromolecular structures, systems biology, microscopy, and magnetic resonance imaging. In selecting topics for this workshop, we have focused on the visualization of processed and annotated data in their biological context, rather than the processing of raw data.
The meeting will review the state-of-the-art and highlight current and future challenges across this broad range of visualization systems.
The underlying theme of the workshop is to provide a forum to help identify and exploit synergies. For example - cases for inter- operation, the re-use of methods or concepts, and common conventions in usability.
Programme
Preliminary Program:
Day 1 (start after lunch):
- Opening Remarks
- Opening Keynote: Bioinformatics/Visualization/Usability
- Session: Visualization of Assemblies and Genomes
Chair: Cydney Nielsen, MSGSC, Vancouver, Canada - Sequence Assembly
- Genome Browsers
- Comparative Genomics
- Coffee and Posters
- Session: Visualization of Alignments and Phylogenies
Chair: Jim Procter, University of Dundee, UK - Alignments
- Gene Evolution
- Phylogenetics
- Pre-Dinner Drinks and Posters
- Dinner
Day 2 (full day):
- Session: Systems Biology Visualization (I)
Chairs: Anne-Claude Gavin, EMBL, Heidelberg, Germany & Nils Gehlenborg, EBI, Cambridge, UK - Transcriptomics
- Proteomics
- Coffee and Posters
- Session: Systems Biology Visualization (II)
Chairs: Anne-Claude Gavin, EMBL, Heidelberg, Germany & Nils Gehlenborg, EBI, Cambridge, UK - Metabolomics
- Interaction Networks
- Pathways
- Buffet Lunch and Posters
- Session: Visualization of Structures (I)
Chair: Sean O'Donoghue, EMBL, Heidelberg, Germany - Small Molecule Interactions
- Macromolecules
- Coffee and Posters
- Session: Visualization of Structures (II)
Chair: Sean O'Donoghue, EMBL, Heidelberg, Germany - RNA
- Complexes, Large Structures & Cryo-Electron Microscopy
- Molecular Dynamics
- Pre-Dinner Drinks and Posters
- Gala Dinner
Day 3 (end during afternoon):
- Session: Light Microscopy (I) / Visualization of Image-Resolved Data
Chair: Thomas Walter & Jean-Karim Heriche, EMBL, Heidelberg, Germany - Cells
- Tissues and Organisms
- Coffee and Posters
- Session: Light Microscopy (II) / Visualization of Time-Resolved Data
Chair: Thomas Walter & Jean-Karim Heriche, EMBL, Heidelberg, Germany - Single Molecule Dynamics
- Cells
- Tissues and Organisms
- Buffet Lunch and Posters
- Session: Visualization in Magnetic Resonance Imaging
Chair: David Shattuck, UCLA, Los Angeles, USA - Quantitative Tissue Imaging
- Cell and Tissue Reconstruction
- Diffusion Tensor Imaging
- Cardiovascular and Ultra-Short Timescale Imaging
- Coffee and Posters
- Closing Keynote
- Wrap-Up Session and Discussion
- Closing Remarks
Confirmed Speakers
Richard Baldock, Medical Research Council, United Kingdom
Nitin Baliga, Institute for Systems Biology, USA
Geoff Barton, University of Dundee, United Kingdom
Mark Bastin, University of Edinburgh, United Kingdom
Anne E. Carpenter, The Broad Institute of Harvard and MIT, USA
Inna Dubchak, Lawrence Berkeley National Laboratory, USA
Suzanne Duce, University Of Dundee, United Kingdom
Jan Ellenberg, European Molecular Biology Laboratory, Germany
Alexander Goesmann, Center of Biotechnology, Germany
David Gordon , University of Washington, USA
Nicholas Hamilton, Institute for Molecular Bioscience, Australia
Matthew Hibbs, The Jackson Laboratory, USA
Hiroaki Kitano, Sony Computer Science Labs, Japan
Oliver Kohlbacher, University of Tuebingen, Germany
Roman Laskowski, European Bioinformatics Institute, United Kingdom
Ivica Letunic, European Molecular Biology Laboratory, Germany
Michael Nilges, Institut Pasteur, France
Steve Pieper, Harvard Medical School, Brigham & Women's Hospital, USA
Mark Ragan, Institute for Molecular Bioscience, Australia
Helen Saibil, Birkbeck Collegeu, United Kingdom
Jurgen Schneider, University of Oxford, United Kingdom
Julie Thompson, IGBMC, France
Pavel Tomancak, Max Planck Institute of Molecular Cell Biology and Genetics, Germany
Rebecca Wade, European Media Laboratory, Germany
Ting Wang, UC Santa Cruz, USA
Eric Westhof, Centre National de la Recherche Scientifique, France
Keynote Speakers
Ben Fry, Seed Visualization / Phyllotaxis Lab, USA
Registration
The workshop is open to all scientists developing or using methods and tools to visualize any kind of biological data. Places in the workshop are limited, and participants will be selected based on the relevance of their work
for the workshop. Notifications of acceptance will be sent within three weeks after the close of submissions.
All participants are expected to give a short presentation (30-second / 1-slide only) introducing their poster during a "poster fast-forward" session.
To apply, please follow these steps:
1. First complete the pre-registration page for this workshop.
2. Next, submit an abstract (up to 1,200 characters) plus an image (up to 5 MB), and (optionally) a URL related to your work. Details about the abstract submission process will be included in your pre-registration conformation email
Deadline for applications and abstract submission is 16 November 2009.
Three weeks after the submission deadline we will notify accepted participants with instructions on how to complete their registration.
Scientific Organisers
Nils Gehlenborg, European Bioinformatics Institute, United Kingdom
Sean O'Donoghue, European Molecular Biology Laboratory, Germany
James B. Procter, College of Life Sciences, University of Dundee, United Kingdom
Reinhard Schneider, European Molecular Biology Laboratory, Germany
Local Transport
Shuttle buses will go from designated bus stops near the hotels to EMBL and back, mornings and evenings. The schedule and location of the bus stops will be available before the meeting.
Travel
The meeting will take place in the Advanced Training Centre (ATC) on the EMBL campus.
For instructions on how to reach the institute, please click here.
Contact
Institutional Sponsors
