Team:ENSPS-Strasbourg/Future

From 2011.igem.org

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= Future plans =
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= Further Improvements =
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<DIV STYLE="text-align:justify;">
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==ACHIEVEMENTS==
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We have proved that electronics and biology can be combined and work together if the synthetic biology field evolve towards more complex model designing. Our software is currently able to simulate the more complex biosystems published, thanks to the powerfulness of electronic tools. But now, we have to extend the concept, and build a new version of the software, more “biologists-friendly”, and more efficient.
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The work we have realized this year is just a part of the software suite, as you can see below :
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The current work has validated a crucial part of our works, to prove that synthetic biology and digital microelectronics could be correlated, and this part of electronics could be useful for helping biologists to create bio-systems. The current software version enables to create a system with two basic biological mechanisms simulated thanks to a VHDL-AMS modelisation.
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[[File:done_scheme.png|border|600px|center|link=]]
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For the moment our software asks the user to specify all the species characteristics manually. However there are many databases which already gathered that information like the [http://partsregistry.org/Main_Pagewebsite  http://partsregistry.org/Main_Pagewebsite] . Then we could imagine a program’s module that would get all the available protein, suggests them to the biologist and downloads all the needed characteristics.
 
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Furthermore, the current interface is not as user friendly as we want it to be. A decent drag and drop system would be required, so as to enable the user to easily add new species, blocks and new reactions of his system. Then, the interaction between different blocks would be more visual, and the user could have in real time an overview of the whole system.
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==NEXT VERSION==
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For our team, the next step will consist of developing this software in two ways.
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The first way consists of improving the software, so as to be as close as possible to the biologists’ needs. Indeed, several things need to be done:<br>
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1- PARTNERSHIPS WITH BIOLOGISTS: This will go along with partnerships with one or more teams in 2012 to have a better interaction between what we want to and what the biologists really needs. This year is a test for us, and we are open to any suggestion to improve our software. Strong partnerships have to be settled for next year.<br>
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2- COLLABORATION WITH OTHER SOFTWARE TEAMS: We have a lot of things to learn about other teams, because some teams are close to have realized some functions we want to add in our software suite. We want to have collaborations next year.<br><br><span id="next"></span>
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The second way is to add several functions to our software, and integrate step by step the missing elements of the suite:<br>
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1- USER INTERFACE : we will integrate a drag&drop interface so as to build the block diagram of the system, which will be a new functionality of the future software.<br>
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2- COMMUNICATION: To integrate a communication between both models is necessary. In the future version, one description will be done for both models, thanks to the graphical user interface.<br>
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3- SIMULATION: The next version will integrate new simulation parameters, so as to increase the possibilities of the system.<br>
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In the same idea, we could imagine than the software can launch the VHDL simulator (DOLPHIN Smash Vision) directly, with just a button pressed by the user. Then, the system generated could be simulated automatically.
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</DIV>
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Concerning the simulation, currently only basic stimuli are available. We could imagine extending the available simulation features for the system.
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Latest revision as of 17:05, 28 October 2011

Future plans

ACHIEVEMENTS

We have proved that electronics and biology can be combined and work together if the synthetic biology field evolve towards more complex model designing. Our software is currently able to simulate the more complex biosystems published, thanks to the powerfulness of electronic tools. But now, we have to extend the concept, and build a new version of the software, more “biologists-friendly”, and more efficient. The work we have realized this year is just a part of the software suite, as you can see below :

Done scheme.png


NEXT VERSION

For our team, the next step will consist of developing this software in two ways. The first way consists of improving the software, so as to be as close as possible to the biologists’ needs. Indeed, several things need to be done:
1- PARTNERSHIPS WITH BIOLOGISTS: This will go along with partnerships with one or more teams in 2012 to have a better interaction between what we want to and what the biologists really needs. This year is a test for us, and we are open to any suggestion to improve our software. Strong partnerships have to be settled for next year.
2- COLLABORATION WITH OTHER SOFTWARE TEAMS: We have a lot of things to learn about other teams, because some teams are close to have realized some functions we want to add in our software suite. We want to have collaborations next year.

The second way is to add several functions to our software, and integrate step by step the missing elements of the suite:
1- USER INTERFACE : we will integrate a drag&drop interface so as to build the block diagram of the system, which will be a new functionality of the future software.
2- COMMUNICATION: To integrate a communication between both models is necessary. In the future version, one description will be done for both models, thanks to the graphical user interface.
3- SIMULATION: The next version will integrate new simulation parameters, so as to increase the possibilities of the system.

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