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About DREAM Challenges
Sage Bionetworks and the DREAM Initiative are convinced that running open computational Challenges focused on important unsolved questions in systems biomedicine can help advance basic and translational science. By presenting the research community with well-formulated questions that usually involves involve complex data, we effectively enable the sharing and improvement of predictive models, accelerating many-fold the analysis of such data. The ultimate goal, beyond the competitive aspect of the these Challenges, is to foster collaborations of like-minded researchers that together will find the solution for vexing problems that matter most to citizens and patients.
During the “Challenge season” spanning from June to September 2013, Sage Bionetworks and DREAM plan to run the three Challenges described below. The Challenges' top performing teams will be provided with travel grants and an invitation to present their results at the annual DREAM conference taking place Nov 8-12, 2013 in Toronto, Canada.
If you want to sign up for one of these Challenges, please click on "Read More" next to its description below.
HPN-DREAM Breast Cancer Network Inference Challenge
Click here to read the Heritage Provider Network press release
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The goal of the Heritage-DREAM Breast Cancer RTK Network
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The Heritage-DREAM Breast Cancer Network Inference Challenge intends to motivate further model development in the area of signaling network inference, complementing the lessons learned in the NCI-DREAM Challenge by exploring mechanistic aspects of drug action. For this we will leverage the extensive and unique proteomics data collected under the auspices of the NCI Division of Cancer Biology by Drs. Gray, Spellman and Mukherjee in collaboration with Dr. Gordon Mills of the MD Anderson Cancer Center. This dataset was generated using Reverse Phase Protein Array (RPPA) quantitative proteomics technology, and represents the responses of 4 breast cancer cell lines to 88 therapeutic compound/stimuli pairs during a 72 hour time course (11 time points). Approximately 170 proteins and phosphoproteins were measured, yielding over 600,000 data points in total.
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Reconstruction Challenge is to use crowd-sourcing to increase our understanding of the signaling pathways at work in breast cancer.
To that end, participants in this Challenge will be provided with an extensive proteomics time-course dataset on four breast cancer cell lines. Participants will be tasked with analyzing these data to solve the following 3 sub-challenges: 1) build network models that represent the active pathways and their response to different stimuli during drug treatment. A second goal will be to cell signaling pathways in breast cancer, 2) predict the dynamic response of the different measured phosphoproteins to different drug perturbations. The third goal will be for participants to propose novel visualization strategies for various phospho-proteins to drug perturbations, and 3) propose novel strategies to visualize these high dimensional data sets. The best performing models will be useful not only in drug development decision-making but also for understanding and guiding validation studies that determine how breast cancer drugs work or how different drugs interact with one another.
Best performing teams in the network inference and time-course prediction aspects of the challenge will be awarded monetary prizes and the possibility of subsequent validation experiments of their predictions, as well as an invitation to present at the DREAM conference with travel expenses covered. The winner of the visualization challenge will be offered the possibility of implementation of the visualization scheme to be deployed in Synapse by Sage Bionetworks software engineers. The Heritage Provided Network has generously donated prize funding. Besides these awards, the organizers will work with the editors of high impact journals to develop a partnership that will allow appropriate dissemination of the winning methodologies and results.
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NIEHS-NCATS-UNC DREAM Toxicogenetics Challenge
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DREAM8 Press Releases
Click here to read the Heritage Provider Network press release
Click here to read the April 19, 2013 DREAM8 Challenge press release.
Click here to be contacted when the DREAM8 Challenges open for competition.
