OpenWetWare:Presentations/NCI-ICBP

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It is difficult to:
It is difficult to:
-
* construct a new model  
+
# construct a new model  
-
* build on published models
+
# build on published models
-
* evaluate published models
+
# evaluate published models
-
* involve experimentalists
+
# involve experimentalists
</div>
</div>
<div class="slide">
<div class="slide">
=What About MIRIAM, SBML, etc?=
=What About MIRIAM, SBML, etc?=
-
MIRIAM - Minimum Information Requested in the Annotation of Biochemical Models
+
# MIRIAM - Minimum Information Requested in the Annotation of Biochemical Models
-
 
+
# SBML - Systems Biology Markup Language
-
SBML - Systems Biology Markup Language
+
OK for publishing, but too complicated for discovery!
OK for publishing, but too complicated for discovery!
Can we design something more "agile" while utilizing and respecting the established standards?
Can we design something more "agile" while utilizing and respecting the established standards?
 +
</div>
 +
 +
<div class="slide">
 +
# systematize data
 +
# follow so-called "80/20" rule
 +
# "living" models
 +
# wikis foster communication
</div>
</div>

Revision as of 19:11, 11 June 2007




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OpenWetWare

A wiki for capturing and sharing biological knowledge

Reshma P. Shetty and Jeremy Muhlich

Problem

Much of the knowledge produced by biological research is passed down by oral tradition.

This makes it difficult for newcomers to enter the field.

Solution: OpenWetWare

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OpenWetWare's contributions

  1. Democratizing and disseminating content generation
  2. Digitization of biological knowledge, as it is generated

Courses on OpenWetWare

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Student contributions to OpenWetWare

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Model Construction and Documentation

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Models Are Poorly Communicated

Knowledge generated during model building is lost!

It is difficult to:

  1. construct a new model
  2. build on published models
  3. evaluate published models
  4. involve experimentalists

What About MIRIAM, SBML, etc?

  1. MIRIAM - Minimum Information Requested in the Annotation of Biochemical Models
  2. SBML - Systems Biology Markup Language

OK for publishing, but too complicated for discovery!

Can we design something more "agile" while utilizing and respecting the established standards?

  1. systematize data
  2. follow so-called "80/20" rule
  3. "living" models
  4. wikis foster communication

YeastPheromoneModel.org

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YeastPheromoneModel.org

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OpenWetWare's success

  • 2,800 contributors
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