DREAM3 Conference

This year, the DREAM conference is partnering with two related events in systems and regulatory biology in what promises to be a very exciting joint meeting. Our partners are the 5th Annual RECOMB Satellite on Regulatory Genomics and the 4th Annual RECOMB Satellite on Systems Biology. The joint conference on systems and regulatory biology will be held at MIT, in the Broad Institute, on Oct 29-Nov 2nd, 2008, between Wed at 5pm and Sun at 1pm.

For information on the joint conference, including invited speakers, venue, hotels, etc., please visit the site for the joint conferences of RECOMB Systems Biology/Regulatory Genomics/DREAM3

As in the previous DREAM conferences, DREAM3 will feature posters and oral presentations of papers accepted by our Program Committee. Besides this usual conference format, the DREAM3 Conference will feature the discussion of predictions of a set of four DREAM3 challenges. Each challenge is composed of one or more datasets which originated from a biological system or in-silico representation of a biological system that have some aspects unknown to the challenge participants. The predictors are invited to infer as best as possible the unknown data or underlying network associated with the challenge. The actual measurements and networks along with the results of the predictions will be disclosed at the conference.

Give us Feedback

Provide feedback on the DREAM3 challenges
by adding a comment in the DREAM Discussion Forum
This forum is intended for discussion of anything related to Reverse Engineering in biological systems. Please feel free to comment on recent papers, interesting conferences or anything else related to pathway inference.

Explore the results of the DREAM3 challenges

See Results and scores of the
DREAM3 Network Inference Challenge
  • A Signaling-Cascade Network Inference and Ligand Identification Challenge (flow cytometry data)
  • A Signaling-Pathway Response to Perturbation Prediction Challenge in Normal and Cancer Hepatocytes (phosphoproteomics data)
  • A Prediction of Gene-Expression data in Yeast Strains Challenge (GeneChip data)
  • A Network inference Challenge from in silico generated data (in Silico gene expression data)

Important Dates

Mid June: Call for participation in the DREAM3 challenges. Challenges posted.
Sep 15: Deadline for submissions of predictions for challenge.
Oct 15: Notifications to predictors of their scores and ranks.
Oct 31 DREAM3 track of joint conferences date.

Invited Speakers

Regulatory Genomics

Uri Alon (Weizmann Institute), Chris Burge (MIT), Mark Gerstein (Yale), Tim Hughes (U. Toronto), Daphne Koller (Stanford University), Bing Ren (UC San Diego), Gerry Rubin (Janelia Farms), Eddy Rubin (Berkeley/JGI), Thomas Tuschl (Rockefeller)

Systems Biology and DREAM3

Aviv Bergman (A. Einstein College), David Botstein (Princeton), George Church (MIT/Harvard), Todd Golub (Broad Institute), Boris Kholodenko (T.Jefferson U), Doug Lauffenburger (MIT), Leona Samson (MIT BE), Pamela Silver (Harvard SysBio), John Tyson (Virginia Tech)

Program Committee

M. Madan Babu, Gary Bader, Andrea Califano, Jim Collins, Joaquin Dopazo, Peicheng Du, Jean-Loup Faulon, Igor Jurisica, Winfried Just, Pascal Kahlem, Manolis Kellis, Yannis Kevrekidis, Seungchan Kim, Andre Levchenko, Rune Linding, Kathleen Marchal, Adam Margolin, Satoru Miyano, Theodore Perkins, Raul Rabadan, Timothy Ravasi, John Rice, Michael Samoilov, Ilya Shmulevich, Eduardo Sontag, Brandilyn Stigler, Gustavo Stolovitzky, Jesper Tegner, Yuhai Tu, Ioannis Xenarios

Information on Lodging

Several local hotels have offered us conference rates:
  • Marriott Cambridge, 6 Cambridge Center, Cambridge, MA, (617) 494-1885, $229.00
  • Le Meridien (formerly Hotel@MIT), 20 Sidney St, Cambridge MA, (866) 716-8119, $209.00/night
  • Doubletree Club Boston, Bayside, on the T red line, 240 Mount Vernon St, Boston MA, (617) 583-1131, $189.00/night
  • Best Western Terrace Inn, on the T green line, 1650 Commonwealth Ave, Boston MA, (617) 566-6260, $189.00/ night
  • Holiday Inn Boston-Somerville, 30 Washington Street, Somerville, MA, (617) 628-1000, van or taxi, 617-616-1970, $169.00

To find other hotels in the area, visit:

DREAM3 Sponsors

Columbia University Center for Multi scale Analysis Genomic and Cellular Networks (MAGNet)
NIH Roadmap Initiative
IBM Computational Biology Center
Merck Research Laboratories

A few rules

  • Each participant or team of participants will choose a "Team Name".
  • The Team Name cannot have blank spaces or special characters.
  • Each team will be able to submit only one prediction per category.
  • In order to download the data the participant has to register for the challenge. This registration is independent of the registration for the DREAM3 conference.

Data Download

Important Notice

These datasets of Challenges 1-3 cannot be used for external publication without explicit permission from the data owners.

Step 1. Register your team for the challenge. Once you have registered your Team for the challenge, a password will be sent to the e-mail address you provided in the registration.

Step 2. Download the datasets. You will need to use the password provided in Step 1 above.

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