SMC-RNA BioVis Data Visualization DREAM Challenge Preview
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Transcript of SMC-RNA BioVis Data Visualization DREAM Challenge Preview
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http://www.biovis.net/2016/dream
SMC-RNA BioVis Data Visualization DREAM Challenge
http://www.biovis.net/2016/dream
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http://www.biovis.net/2016/dream
• http://dreamchallenges.org
• DREAM Challenges pose fundamental questions about systems biology and translational medicine.
• Vision: Allowing individuals and groups to collaborate openly so that the “wisdom of the crowd” provides the greatest impact on science and human health.
• DREAM was launched in 2006 by Gustavo Stolovitzky (IBM) in collaboration with Andrea Califano (Columbia University). Sage Bionetworks has been providing institutional support since 2013.
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http://www.biovis.net/2016/dream
What is the SMC-RNA DREAM Challenge?
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http://www.biovis.net/2016/dream
• https://www.synapse.org/#!Synapse:syn2813589/wiki/401435
• The challenge is to computationally predict gene/transcript fusions and transcript isoforms based on RNA-seq data.
• This will yield many new tools and predictions for fusions and transcript isoforms.
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http://www.biovis.net/2016/dream
What are isoforms and fusions? Why are they important?
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http://www.biovis.net/2016/dream
Alternative Splicing
Liu S, Cheng C. Alternative RNA splicing and cancer. Wiley interdisciplinary reviews RNA. 2013,4(5),547-566.
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http://www.biovis.net/2016/dream
Isoforms in Cancer
Liu S, Cheng C. Alternative RNA splicing and cancer. Wiley interdisciplinary reviews RNA. 2013,4(5),547-566.
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http://www.biovis.net/2016/dream
Isoforms in Cancer
Liu S, Cheng C. Alternative RNA splicing and cancer. Wiley interdisciplinary reviews RNA. 2013,4(5),547-566.
![Page 10: SMC-RNA BioVis Data Visualization DREAM Challenge Preview](https://reader033.fdocuments.net/reader033/viewer/2022051520/58edb7e11a28abb8518b45eb/html5/thumbnails/10.jpg)
http://www.biovis.net/2016/dream
Gene + Transcript
Fusions
Mertens, F., et al. (2015). The emerging complexity of gene fusions in cancer. Nature Reviews Cancer, 15(6), 371-381.
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http://www.biovis.net/2016/dream
Fusions in Cancer
Mertens, F., et al. (2015). The emerging complexity of gene fusions in cancer. Nature Reviews Cancer, 15(6), 371-381.
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http://www.biovis.net/2016/dream
Fusions in Cancer
Mertens, F., et al. (2015). The emerging complexity of gene fusions in cancer. Nature Reviews Cancer, 15(6), 371-381.
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http://www.biovis.net/2016/dream
Fusions in Cancer
Mertens, F., et al. (2015). The emerging complexity of gene fusions in cancer. Nature Reviews Cancer, 15(6), 371-381.
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http://www.biovis.net/2016/dream
Fusions in Cancer
Mertens, F., et al. (2015). The emerging complexity of gene fusions in cancer. Nature Reviews Cancer, 15(6), 371-381.
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http://www.biovis.net/2016/dream
• What exactly we are looking for will be announced later this summer.
• We won’t have any preconceived notion about what we will accept as solutions.
• It will be important that the solution can be used to enhance our understanding of biology.
• It needs to be usable by a wide range of investigators.
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http://www.biovis.net/2016/dream
• Anticipated launch in Summer 2016.
• Submissions in Fall/Winter 2016.
• The visualization challenge will be synchronized with the SMC-RNA challenge (https://www.synapse.org/#!Synapse:syn2813589/wiki/401435)
• Unlike past data contests, this challenge is decoupled from the BioVis meetings.
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http://www.biovis.net/2016/dream
What we aim for (but no promises):
• All participants will be invited as consortium co-authors on Challenge marker papers
• Winners will receive speaking invitations at the next DREAM conference or a future BioVis meeting
• New methods will be considered for co-publication with the Challenge marker papers by our publishing partner
• Other rewards will be announced as they are determined.
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http://www.biovis.net/2016/dream
Where to get more information and how to
receive updates?
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http://www.biovis.net/2016/dream
1. Go to www.biovis.net/2016/dream.2. Follow link to Synapse Wiki.
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http://www.biovis.net/2016/dream
3. Scroll down.4. Click link to “Join” to pre-register.
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http://www.biovis.net/2016/dream
BioVis Team
• Raghu Machiraju, The Ohio State University, USA
• Cagatay Turkay, City University London, UK
• Angela Brooks, University of California Santa Cruz, USA
• Nils Gehlenborg, Harvard Medical School, USA
Advisors and Support
• Paul Boutros, OICR, Canada (SMC-RNA Challenge Leader)
• Thea Norman, Sage Bionetworks, USA (DREAM Challenge Director)