Dialogue for Reverse Engineering Assessments and Methods

Download the DREAM4 challenges Upload Is Closed The submission system closes on October 15, 2009 Updated 9/17/2009

DREAM4 Challenges Are Posted Register to download the challenges Ask questions on the discussion board The DREAM4 Conference page has preliminary information about the next meeting

Important Dates Updated 7/7/2009

Sept 15, 2009 Prediction Submission OPENS Oct 15, 2009 Prediction Submission DEADLINE Nov 15, 2009 Scores Released, Best Performers Notified Dec 2-Dec 6, 2009 RECOMB Systems Biology / Regulatory Genomics / DREAM4 Conference (The DREAM4 conference track is on Friday December 4th.)

Overview

DREAM is a Dialogue for Reverse Engineering Assessments and Methods. The main objective is to catalyze the interaction between experiment and theory in the area of cellular network inference. The fundamental question for DREAM is simple: How can researchers assess how well they are describing the networks of interacting molecules that underlie biological systems? The answer is not so simple. Researchers have used a variety of algorithms to deduce the structure of very different biological and artificial networks, and evaluated their success using various metrics. What is still needed, and what DREAM aims to achieve, is a fair comparison of the strengths and weaknesses of the methods and a clear sense of the reliability of the network models they produce.

Thrusts

The DREAM project is composed of three interrelated thrusts.

• The organization of periodic Conferences
• The organization of Reverse-Engineering Challenges
• An online venue to Discuss reverse-engineering topics and curate Data, Literature, and Reverse-Engineering Methods.

How to Cite DREAM

If you use a DREAM data set in your publication, please cite both the main DREAM publication for the Conference and the publication of the data producer, which you can find in the Challenges section of this web site.

The main DREAM publications are:

• DREAM3 (2008): coming soon

• DREAM2 (2007): Stolovitzky G, Prill RJ, Califano A. "Lessons from the DREAM2 Challenges", in Stolovitzky G, Kahlem P, Califano A, Eds, Annals of the New York Academy of Sciences, 1158:159-95 (2009)

• DREAM1 (2006): Stolovitzky G, Monroe D, Califano A. "Dialogue on Reverse-Engineering Assessment and Methods: The DREAM of High-Throughput Pathway Inference", in Stolovitzky G and Califano A, Eds, Annals of the New York Academy of Sciences, 1115:11-22 (2007)

Upcoming Conference and Challenges: DREAM4 (2009)

DREAM4 challenges will be posted in Spring, 2009 and the DREAM4 Conference will occur in the Fall, 2009. If you would like to design a challenge, or donate unpublished data to be the basis of a challenge, please contact Gustavo Stolovitzky.

Organizers

• Gustavo Stolovitzky, IBM Computational Biology Center
• Andrea Califano, Columbia University
• Robert Prill, IBM Computational Biology Center

Steering Committee

Alexander Hartemink, Andre Levchenko, Benno Schwikowski, Diego Di Bernardo, Eran Segal, Fritz Roth, Hamid Bulouri, Harmen Bussemaker, Jim Collins, Joel Bader, John Moult, Marc Vidal, Mark Gerstein, Mike Snyder, Mike Yaffee, Pedro Mendes, Ron Shamir, Tim Gardner, Trey Ideker

Sponsors

• Columbia University Center for Multiscale Analysis Genomic and Cellular Networks (MAGNet)
• NIH Roadmap Initiative
• IBM Computational Biology Center
• The New York Academy of Sciences

 

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