ETH 2006 Half adder

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====Main Goal:====
====Main Goal:====
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*Write something with a chemical on a petri plate (like '''ETH''' for example)
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# Write something with a chemical on a petri plate (like '''ETH''' for example)
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*Let Bacteria grow uniformly on the plate
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# Let Bacteria grow uniformly on the plate
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*Expose the plate to a picture (black and white) of the same pattern  
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# Expose the plate to a picture (black and white) of the same pattern  
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*Result:
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# Result:
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**Bacteria gets green when pattern on the plate and picture match (light and chemical)
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#*Bacteria gets green when pattern on the plate and picture match (light and chemical)
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**Bacteria does not express fluorescent protein when pattern on the plate and picture match (no light and no chemical)
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#*Bacteria does not express fluorescent protein when pattern on the plate and picture match (no light and no chemical)
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**Bacteria gets red when pattern on the plate and picture do not match
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#*Bacteria gets red when pattern on the plate and picture do not match
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==Implementation==
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====Implementation from the ingenieur point of view====
====Implementation from the ingenieur point of view====
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*we would need to give a kind of first signal to the system (to don't have light reactions before a certain moment, otherwise we have to work in a dark room...), an activation signal after the bacterias have grown on the plate
*we would need to give a kind of first signal to the system (to don't have light reactions before a certain moment, otherwise we have to work in a dark room...), an activation signal after the bacterias have grown on the plate
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====Chemical Sensing====
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==== Pro's & Con's====
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* Lactate  lacI represses, IPTG induces ([http://partsregistry.org/Part:BBa_R0011 BBa_R0011] or [http://partsregistry.org/Part:BBa_R0010 BBa_R0010] )
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* Tetracycline, TetR inhibitor, Tet inducer by inhibiting TetR (or aTc, it's analog)  ([http://partsregistry.org/Part:BBa_R0040 BBa_R0040])
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* combination thereof ([http://partsregistry.org/Part:BBa_I13614 BBa_I13614] / [http://partsregistry.org/Part:BBa_I13617 BBa_13617] / [http://partsregistry.org/Part:BBa_I13623 BBa_I13623] / [http://partsregistry.org/Part:BBa_I13624 BBa_I13624] / [http://partsregistry.org/Part:BBa_I13627 BBa_I13627] /
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[http://partsregistry.org/Part:BBa_I13637 BBa_I13637] / [http://partsregistry.org/Part:BBa_I13653 BBa_I13653])
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* simple sugar Arabinose ([http://partsregistry.org/Part:BBa_R0080 BBa_R0080])
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* I see the main difficulty in the spatial separation as the cells are growing in the petri dishes. since the inducers are water-soluble we would have to fix the chemicals onto the petro dish.
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==Modelling==
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=====Selected XOR/AND Model Variants=====
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* [[media:eth-parts-and-xor.pdf|eth-parts-and-xor.pdf]] (∼0.5M) [[:image:eth-parts-and-xor.pdf|file versions]]
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* [[media:eth-parts-and-xor2.ppt|eth-parts-and-xor.ppt]] (∼0.5M) [[:image:eth-parts-and-xor.ppt|file versions]]
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=====Old=====
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* [[media:eth-xor.pdf|eth-xor.pdf]] (483KB)
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* [[media:eth-and.pdf|eth-and.pdf]] (185KB)
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*[[Media:AND34.ppt|AND34.ppt]]
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==Parts==
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We have already reserved parts for the adder and the gates in the registry the description of which are still tentative:
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* Half adder: [http://partsregistry.org/Part:BBa_J34000 BBa_J34000]
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* AND gate: [http://partsregistry.org/Part:BBa_J34100 BBa_J34100]
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* XOR gate: [http://partsregistry.org/Part:BBa_J34200 BBa_J34200]
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== Pro's & Con's==
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''Pro's:''
''Pro's:''
* meaningful from engineering point
* meaningful from engineering point

Latest revision as of 14:42, 26 October 2006

back to → ETH 2006 Main Page → Meat Monitor idea → other project ideas

Contents

Half-adder or Full-adder

An implementation of a half-adder or full-adder: 1-bit adder with carry

  • [http://en.wikipedia.org/wiki/Full_adder half/full adder in wikipedia]

Idea: Pattern recognition

→ Illustration of the concepts:

Main Goal:

  1. Write something with a chemical on a petri plate (like ETH for example)
  2. Let Bacteria grow uniformly on the plate
  3. Expose the plate to a picture (black and white) of the same pattern
  4. Result:
    • Bacteria gets green when pattern on the plate and picture match (light and chemical)
    • Bacteria does not express fluorescent protein when pattern on the plate and picture match (no light and no chemical)
    • Bacteria gets red when pattern on the plate and picture do not match

Implementation from the ingenieur point of view

  • Half Adder
  • = opportunity to build an AND and an XOR Gate

Implementation from the biologist point of view

  • AND Gate: presence of chemical induces the production of an inactive protein, which is activated by a second protein (produced when light is present): the first protein is then activating GFP production
  • XOR Gate: I think Marko had a good idea about that (I didn't really got it)
  • a light sensible promoter (there are some, see [http://partsregistry.org/Featured_Parts:Light_Sensor here])
  • a chemical sensible promoter (chemical to be defined)
  • we would need to give a kind of first signal to the system (to don't have light reactions before a certain moment, otherwise we have to work in a dark room...), an activation signal after the bacterias have grown on the plate

Pro's & Con's

Pro's:

  • meaningful from engineering point
  • valuable parts for synthetic biology
  • stepwise proceeding applicable (→ intermediate and partial results!)
  • experiments visually attractive
  • probably simple enough

Con's:

  • cheap copy of “bio-film” project ([http://partsregistry.org/cgi/htdocs/SBC04/index.cgi iGEM 2004])
  • sensational experiments, have little in common with half adder
  • maybe that a big vision is lacking
  • general/practical benefit? (counter-argument: is this required?)
  • too simple?
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