Aipotu: a Computer Simulation Linking Genetics, Biochemistry, Molecular Biology, and Evolution

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Aipotu a Computer Simulation Linking Genetics,
Biochemistry, Molecular Biology, and Evolution

• Brian White
• Biology Department
• UMass Boston

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Goals of this talk

• Present Aipotu
• Recruit users
• Education
• Research?
• Feedback on design, model, etc.

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Outline

• Simulation Goals
• Description
• Sample Evolution Run
• Questions

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Connections
Evolution
Genes
Genetics
Individual functions of living things
Molecular Biology
Life
Biochemistry
Proteins
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Experiment Select for Black

• Start with Green/Green
• Relative Fitnesses
• Black 10
• White 0
• Other Colors 1

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Select for Black Generation 0
Time (minsec) 0000
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Select for Black Generation 1
Time (minsec) 0016
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Select for Black Generation 2
Time (minsec) 0026
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Select for Black Generation 3
Time (minsec) 0042
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Select for Black Generation 4
Time (minsec) 0059
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Select for Black Generation 5
Time (minsec) 0109
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Select for Black Generation 6
Time (minsec) 0126
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Select for Black Generation 7
Time (minsec) 0138
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Select for Black Generation 8
Time (minsec) 0150
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Select for Black Generation 9
Time (minsec) 0158
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Select for Black Generation 10
Time (minsec) 0207
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Acknowledgements

• Ethan Bolker (CS)
• CS MS Students
• My Students
• John Jungck (BioQUEST)

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• http//intro.bio.umb.edu/aipotu/
• brian.white_at_umb.edu
• Questions?
• My questions to you
• How would you use this in teaching?
• What features would you add?
• How best to model evolution with it?
• How do I know if this is behaving properly?
• What other experiments should I do?