request for comment: Critical Assessment of Mutant Prediction (hypothetical challenge)
Arlin Stoltzfus - Natl Inst of Standards and Technology (NIST)Mar 11, 2008 - 11:35 am
Hello all. I am re-posting this as a separate message because my earlier "reply" got buried. We (my colleague Harold Smith and I) would like to get feedback on the idea of a "Critical Assessment of Mutant Prediction" (CAMP), a community experiment in which prediction teams would use systems-biology models to infer the identify of unknown mutations, by using experimental data on the effects of mutations (ideally, data at a variety of levels). As a start, we are planning a feasibility project based on microarray characterization of yeast knockouts. An experimental team would characterize gene expression patterns in a set of yeast knockout mutants, then community prediction teams would be challenged to infer the identities of the knockouts.
The CAMP idea (in general) and the pilot project are described in a brief presentation (http://www.molevol.org/camel/projects/CAMP/camp_pilot_rfc.pdf). Let us know what you think. How can we make this work? Is there some entirely different way to do this? Please email a response or (better) keep the discussion here on the DREAM web site (we asked the DREAM organizers and they encouraged us to do so).
request for comment: Critical Assessment of Mutant Prediction (hypothetical challenge)
Arlin Stoltzfus - Natl Inst of Standards and Technology (NIST)Mar 11, 2008 - 11:35 am
Hello all. I am re-posting this as a separate message because my earlier "reply" got buried. We (my colleague Harold Smith and I) would like to get feedback on the idea of a "Critical Assessment of Mutant Prediction" (CAMP), a community experiment in which prediction teams would use systems-biology models to infer the identify of unknown mutations, by using experimental data on the effects of mutations (ideally, data at a variety of levels). As a start, we are planning a feasibility project based on microarray characterization of yeast knockouts. An experimental team would characterize gene expression patterns in a set of yeast knockout mutants, then community prediction teams would be challenged to infer the identities of the knockouts. The CAMP idea (in general) and the pilot project are described in a brief presentation (http://www.molevol.org/camel/projects/CAMP/camp_pilot_rfc.pdf). Let us know what you think. How can we make this work? Is there some entirely different way to do this? Please email a response or (better) keep the discussion here on the DREAM web site (we asked the DREAM organizers and they encouraged us to do so).