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http://www.biovis.net/2016/dream
SMC-RNA BioVis Data
Visualization DREAM Challenge
http://www.biovis.net/2016/dream
http://www.biovis.net/2016/dream
What is a DREAM Challenge?
http://www.biovis.net/2016/dream
• http://dreamchallenges.org
• DREAM Challenges pose fundamental questions about systems
...
http://www.biovis.net/2016/dream
What is the SMC-RNA
DREAM Challenge?
http://www.biovis.net/2016/dream
• https://www.synapse.org/#!Synapse:syn2813589/wiki/
401435
• The challenge is to computa...
http://www.biovis.net/2016/dream
What are isoforms and fusions?
Why are they important?
http://www.biovis.net/2016/dream
Alternative
Splicing
Liu S, Cheng C. Alternative RNA splicing and cancer. Wiley interdisc...
http://www.biovis.net/2016/dream
Isoforms in
Cancer
Liu S, Cheng C. Alternative RNA splicing and cancer. Wiley interdiscip...
http://www.biovis.net/2016/dream
Isoforms in
Cancer
Liu S, Cheng C. Alternative RNA splicing and cancer. Wiley interdiscip...
http://www.biovis.net/2016/dream
Gene +
Transcript
Fusions
Mertens, F., et al. (2015). The emerging complexity of gene fus...
http://www.biovis.net/2016/dream
Fusions in
Cancer
Mertens, F., et al. (2015). The emerging complexity of gene fusions in ...
http://www.biovis.net/2016/dream
Fusions in
Cancer
Mertens, F., et al. (2015). The emerging complexity of gene fusions in ...
http://www.biovis.net/2016/dream
Why a visualization
challenge?
http://www.biovis.net/2016/dream
Fusions in
Cancer
Mertens, F., et al. (2015). The emerging complexity of gene fusions in ...
http://www.biovis.net/2016/dream
Fusions in
Cancer
Mertens, F., et al. (2015). The emerging complexity of gene fusions in ...
http://www.biovis.net/2016/dream
What are we looking for?
http://www.biovis.net/2016/dream
• What exactly we are looking for will be announced later this
summer.
• We won’t have an...
http://www.biovis.net/2016/dream
What is the time line?
http://www.biovis.net/2016/dream
• Anticipated launch in Summer 2016.
• Submissions in Fall/Winter 2016.
• The visualizati...
http://www.biovis.net/2016/dream
What are the incentives?
http://www.biovis.net/2016/dream
What we aim for (but no promises):
• All participants will be invited as consortium co-au...
http://www.biovis.net/2016/dream
Where to get more
information and how to
receive updates?
http://www.biovis.net/2016/dream
1. Go to www.biovis.net/2016/dream.
2. Follow link to Synapse Wiki.
http://www.biovis.net/2016/dream
3. Scroll down.
4. Click link to “Join” to pre-register.
http://www.biovis.net/2016/dream
Who is organizing this?
http://www.biovis.net/2016/dream
BioVis Team
• Raghu Machiraju, The Ohio State University, USA
• Cagatay Turkay, City Univ...
http://www.biovis.net/2016/dream
Do you have questions?
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SMC-RNA BioVis Data Visualization DREAM Challenge Preview

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SMC-RNA BioVis Data Visualization DREAM Challenge Preview

  1. 1. http://www.biovis.net/2016/dream SMC-RNA BioVis Data Visualization DREAM Challenge http://www.biovis.net/2016/dream
  2. 2. http://www.biovis.net/2016/dream What is a DREAM Challenge?
  3. 3. 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.
  4. 4. http://www.biovis.net/2016/dream What is the SMC-RNA DREAM Challenge?
  5. 5. 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.
  6. 6. http://www.biovis.net/2016/dream What are isoforms and fusions? Why are they important?
  7. 7. 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.
  8. 8. 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.
  9. 9. 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.
  10. 10. 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.
  11. 11. 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.
  12. 12. 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.
  13. 13. http://www.biovis.net/2016/dream Why a visualization challenge?
  14. 14. 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.
  15. 15. 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.
  16. 16. http://www.biovis.net/2016/dream What are we looking for?
  17. 17. 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.
  18. 18. http://www.biovis.net/2016/dream What is the time line?
  19. 19. 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.
  20. 20. http://www.biovis.net/2016/dream What are the incentives?
  21. 21. 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.
  22. 22. http://www.biovis.net/2016/dream Where to get more information and how to receive updates?
  23. 23. http://www.biovis.net/2016/dream 1. Go to www.biovis.net/2016/dream. 2. Follow link to Synapse Wiki.
  24. 24. http://www.biovis.net/2016/dream 3. Scroll down. 4. Click link to “Join” to pre-register.
  25. 25. http://www.biovis.net/2016/dream Who is organizing this?
  26. 26. 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)
  27. 27. http://www.biovis.net/2016/dream Do you have questions?

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