Team:BCCS-Bristol/Modeling/Population Dynamics

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{{:Team:BCCS-Bristol/Header}}
 
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==Population Dynamics==
 
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We are trying to find answers to these problems and questions:
 
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[http://www.pubmedcentral.nih.gov/picrender.fcgi?artid=98908&blobtype=pdf Morphogenesis E.Coli]
 
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*Bacteria change [http://www.pubmedcentral.nih.gov/picrender.fcgi?artid=2134870&blobtype=pdf size].
 
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**Minimum size
 
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***When the bacterium will be at the minimum size?
 
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***How fast the bacterium increase its dimension?
 
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**Maximum size
 
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***When the bacterium will be to the maximum size?
 
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**There is same relationship between [http://books.google.co.uk/books?id=0SPMLpTxGpMC&pg=PA51&lpg=PA51&dq=e.coli+size+velocity+motion&source=bl&ots=rqCBRQ1IN1&sig=__zft5KeWbLpUodXwGcyvnOBQtM&hl=en&ei=ZUhkSprSKcaZjAeN6IUC&sa=X&oi=book_result&ct=result&resnum=5 velocity and size] ?
 
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**Relationship beetwen size/time/growth rate
 
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*Separation.
 
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**When this happen?
 
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**Where the bacterium get placed?
 
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***Maybe following the [http://books.google.co.uk/books?id=DjdgXGLoJY8C&printsec=frontcover&dq=E.+coli+in+motion++By+Howard+C.+Berg&source=gbs_similarbooks_s&cad=1 bacterium motion] ?
 
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***Random?
 
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***Fluid dynamics?
 
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**Motion properties after the separation.
 
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***Velocity after separation.
 
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**The two bacteria after the separation have the same size?
 
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*Genetic information
 
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**After the separation the two bacteria have the same genetic properties:
 
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***same replication time distribution?
 
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***or the new one has a normal/uniform distribution on the normal/uniform distribution of the oldest one?
 
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*[http://aem.asm.org/cgi/reprint/71/12/7920 Growth]
 
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**Rate of growth
 
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**Connection between the rate of duplication and the growth phase.
 
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*Standing phase
 
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**One bacterium can "kill" another one to make its replication?
 
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***If yes which one is going to die?
 
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*Environment
 
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**we can try to model a variable condition of the environment:
 
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***100% Suitable for the replication of the bacteria
 
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***80% Suitable for the replication of the bacteria
 
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***and so on...
 
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*[http://jon.visick.faculty.noctrl.edu/research/aging.htm Growth Phase]
 
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*[http://www.science-projects.com/SteadyState/SSProjects.htm Steady State]
 
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*[http://www.ecoli-model.com/index_files/Page382.html Growth and Environments]
 
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==BSim Verify Some Concepts==
 
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*Collision (Distance calculation)
 
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*Draw an element smoller than bacterium
 
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**Rescale all BSim? (Maybe solution found!
 
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*Increase the lifeTime for each bacterium every timeStep?
 
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*Direction aid?
 
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==BSim ToDO List==
 
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*CentrePosition
 
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**Class BSimObject
 
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**Method setPosition
 
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**Usage: linearMotion:run:BSimCollisionPhysicsThread
 
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==BSim Fixed Problems==
 
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*Now we can draw shape using a "double" precision and not "int" precision
 
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===Problems===
 
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The most popular replication time for an E.Coli is about 20/25 minutes.<br\>
 
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Can our simulation take so long time?<br\>
 
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How can we simulate on "world" day with 400 bacteria?
 

Latest revision as of 00:06, 21 October 2009