Difference between revisions of "Team:Aix-Marseille/Model"
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{{Aix-Marseille|title=Engineered M13 modelling|toc=__TOC__}} | {{Aix-Marseille|title=Engineered M13 modelling|toc=__TOC__}} | ||
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==What are we modeling ?== | ==What are we modeling ?== | ||
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Which led to the following model: | Which led to the following model: | ||
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| + | <--> Pour l tableau debut : {| fin : |}, chaque colonne débute par | et ligne par |-, pour définir une colone ! scope="col" | <--> | ||
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| + | <--> si tu souhaite merge plusieur colonne ligne je te renvoie a http://parts.igem.org/Part:BBa_K2255008 <--> | ||
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==Second iteration== | ==Second iteration== | ||
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| + | <-->les réference se place entre <ref>xxx</ref>. Si tu souhaite mettre plusieur foi la meme ref il faut que tu mettes <ref= nom>xxx</ref>. Sinon il va croire que c'est des ref differentes<--> | ||
This time, we decided to adapt the model of a "wild-type" M13's biology <ref>Smeal ''et al'', Simulation of the M13 life cycle I: Assembly of a genetically-structured deterministic chemical kinetic simulation, Virology, 500, January 2017</ref><ref>Smeal ''et al'', Simulation of the M13 life cycle II: Investigation of the control mechanisms of M13 infection and establishment of the carrier state, Virology, 500, January 2017</ref> to fit our own engineered version of M13 and better inform wetlab experiments, as well as explain some of their preliminary findings! | This time, we decided to adapt the model of a "wild-type" M13's biology <ref>Smeal ''et al'', Simulation of the M13 life cycle I: Assembly of a genetically-structured deterministic chemical kinetic simulation, Virology, 500, January 2017</ref><ref>Smeal ''et al'', Simulation of the M13 life cycle II: Investigation of the control mechanisms of M13 infection and establishment of the carrier state, Virology, 500, January 2017</ref> to fit our own engineered version of M13 and better inform wetlab experiments, as well as explain some of their preliminary findings! | ||
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==Wet-lab and dry-lab back and forth== | ==Wet-lab and dry-lab back and forth== | ||
| − | Reste à rédiger, et ça je ne peux pas le faire seul | + | <-->Reste à rédiger, et ça je ne peux pas le faire seul<--> |
==References== | ==References== | ||
Revision as of 06:55, 24 October 2017
Engineered M13 modelling
Contents
<--> commentaire 1: pour le wiki pas besoin de htlm <--> <--> Titre entre = (plus tu en met moins le titre est important <-->
What are we modeling ?
Reste à rédiger: décrire succintement le cycle de M13, idéalement avec un schéma (je peux m'en occuper. Du schéma aussi s'il n'y a pas de graphiste dispo)
First iteration of the model
We started with an excessively simple model to see wether our understanding of our system was profound enough to allow room for such simplifications. We made the following assumptions in this spirit:
Which led to the following model:
<--> Pour l tableau debut : {| fin : |}, chaque colonne débute par | et ligne par |-, pour définir une colone ! scope="col" | <-->
<--> si tu souhaite merge plusieur colonne ligne je te renvoie a http://parts.igem.org/Part:BBa_K2255008 <-->
| Assumption | Reasonning |
|---|---|
| Neglecting cooperative effects | |
| Constant rate of p5 transcription/traduction | |
| One M13KO7 per factory cell | |
| Phage assembly isn't a limiting factor | |
| Neglecting stochasticity |
insérer image que j'ai dans la présentation que j'ai faite, mais en mieux dessinée / plus travaillée / classe / raccord avec le reste du thème graphique + comment je mets les images sur le site pour qu'elle s'intègrent dans le wiki? Est-ce que je les met sur internet sinon?
Second iteration
<-->les réference se place entre [1]. Si tu souhaite mettre plusieur foi la meme ref il faut que tu mettes <ref= nom>xxx</ref>. Sinon il va croire que c'est des ref differentes<-->
This time, we decided to adapt the model of a "wild-type" M13's biology [2][3] to fit our own engineered version of M13 and better inform wetlab experiments, as well as explain some of their preliminary findings!
Model validation: compare particle profile to that obtained in wetlab
--> Insufficient p3 could cause the packing of several DNA molecules per phage.
What is the ideal number of plasmid copies if we produce p3 on a different plasmid?
Wet-lab and dry-lab back and forth
<-->Reste à rédiger, et ça je ne peux pas le faire seul<-->
References
- ↑ xxx
- ↑ Smeal et al, Simulation of the M13 life cycle I: Assembly of a genetically-structured deterministic chemical kinetic simulation, Virology, 500, January 2017
- ↑ Smeal et al, Simulation of the M13 life cycle II: Investigation of the control mechanisms of M13 infection and establishment of the carrier state, Virology, 500, January 2017
