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Does God play dice with the cell? Does God play dice with the cell? Does God play dice with the cell? Does God play dice with the cell? Does God play dice with the cell? Does God play dice with the cell? Does God play dice with the cell? Does

  1. Does God play dice with the cell? Does God play dice with the cell? Does God play dice with the cell? Does God play dice with the cell? Does God play dice with the cell? Does God play dice with the cell? Does God play dice with the cell? Does God play dice with the cell? HKUSTers HKUSTers HKUSTers HKUSTers HKUSTers HKUSTers HKUSTers HKUSTers Hong Kong University of Science & Technology Hong Kong University of Science & Technology iGEM 2008 iGEM 2008

  2. Integration of Integration of … … Integration of Integration of … … Students from Students from Students from Students from Students from Students from Students from Students from • • Biochemistry Biochemistry Biochemistry Biochemistry Biochemistry Biochemistry Biochemistry Biochemistry • Chemistry Chemistry Chemistry Chemistry Chemistry Chemistry • Chemistry Chemistry • Physics Physics Physics Physics Physics Physics • Physics Physics • Computer Science Computer Science Computer Science Computer Science Computer Science Computer Science • Computer Science Computer Science • • Computer Computer Computer Computer Computer Computer Computer Computer Engineering Engineering Engineering Engineering Engineering Engineering Engineering Engineering & & & & & & & & High School High School • • High School High School High School High School High School High School Science class Science class Science class Science class Science class Science class Science class Science class Instructor: Instructor: Instructor: Instructor: Instructor: Instructor: Instructor: Instructor: Dr. King L. Chow Dr. King L. Chow Dr. King L. Chow Dr. King L. Chow Dr. King L. Chow Dr. King L. Chow Dr. King L. Chow Dr. King L. Chow

  4. Randomizer Randomizer Randomizer Randomizer Randomizer Randomizer Randomizer Randomizer • Randomness Randomness – – Randomizer Randomizer • • Generate 0 or 1 randomly • Generate 0 or 1 randomly

  5. Application Application Application Application Application Application Application Application • Statistical Statistical Statistical sampling & analysis: • Statistical Statistical Statistical sampling & analysis: Statistical Statistical inputs inputs • Simulation Simulation of real and complex process, • Simulation Simulation of real and complex process, Simulation Simulation Simulation Simulation such as biological process: such as biological process: noise noise

  6. Outline Outline Outline Outline Outline Outline Outline Outline • Design Design Design & c & c onstruction onstruction • Design Design & c Design Design & c & c & construction & c onstruction onstruction onstruction onstruction Design & c onstruction • Simulation • Simulation Simulation Simulation Simulation Simulation Simulation Simulation • Lab work Lab work Lab work • Lab work Lab work Lab work Lab work Lab work • Further extension Further extension Further extension • Further extension Further extension Further extension Further extension Further extension

  7. A Switch A Switch A Switch A Switch A Switch A Switch A Switch A Switch … … .with randomness .with randomness … … ….with randomness … .with randomness .with randomness .with randomness .with randomness … … .with randomness [1] [0] either right [0], either right [0], ……… ……… either right [0], ……… either right [0], either right [0], either right [0], either right [0], either right [0], ……… ……… ……… ……… ………

  8. A Switch A Switch A Switch A Switch A Switch A Switch A Switch A Switch … … .with randomness .with randomness … … ….with randomness … .with randomness .with randomness .with randomness .with randomness … … .with randomness [1] [0] either right [0], either right [0], ……… ……… either right [0], ……… either right [0], either right [0], either right [0], either right [0], either right [0], ……… ……… ……… ……… ………

  9. A Switch A Switch A Switch A Switch A Switch A Switch A Switch A Switch … … .with randomness .with randomness … ….with randomness … … .with randomness .with randomness .with randomness .with randomness … … .with randomness [1] [0] … … ..or left [1]. ..or left [1]. …..or left [1]. … … … … … ..or left [1]. ..or left [1]. ..or left [1]. ..or left [1]. ..or left [1].

  10. A Switch A Switch A Switch A Switch A Switch A Switch A Switch A Switch … … .with randomness .with randomness … ….with randomness … … .with randomness .with randomness .with randomness .with randomness … … .with randomness [1] [0] … … ..or left [1]. ..or left [1]. …..or left [1]. … … … … … ..or left [1]. ..or left [1]. ..or left [1]. ..or left [1]. ..or left [1].

  11. A Switch A Switch A Switch A Switch A Switch A Switch A Switch A Switch … … .with randomness .with randomness … ….with randomness … … .with randomness .with randomness .with randomness .with randomness … … .with randomness [1] [0] … … ..or left [1]. ..or left [1]. …..or left [1]. … … … … … ..or left [1]. ..or left [1]. ..or left [1]. ..or left [1]. ..or left [1].

  12. Genetic circuit Genetic circuit Genetic circuit Genetic circuit START START START START T7 polymerase Promoter Terminator Ribosome binding site TetR repressor Green/Red fluorescence protein

  13. Genetic circuit Genetic circuit Genetic circuit Genetic circuit START START START START T7 polymerase Promoter Terminator Ribosome binding site TetR repressor Green/Red fluorescence protein

  14. Genetic circuit Genetic circuit Genetic circuit Genetic circuit START START START START T7 polymerase Promoter Terminator Ribosome binding site TetR repressor Green/Red fluorescence protein

  15. Genetic circuit Genetic circuit Genetic circuit Genetic circuit START START START START T7 polymerase Promoter Terminator Ribosome binding site TetR repressor Green/Red fluorescence protein

  16. Genetic circuit Genetic circuit Genetic circuit Genetic circuit START START START START Transcription blocked Transcription blocked Transcription blocked Transcription blocked T7 polymerase Promoter Terminator Ribosome binding site TetR repressor Green/Red fluorescence protein

  17. Genetic circuit Genetic circuit Genetic circuit Genetic circuit START START START START Transcription blocked Transcription blocked Transcription blocked Transcription blocked T7 polymerase Promoter Terminator Ribosome binding site cI434 repressor Green/Red fluorescence protein

  18. Integration Integration Integration Integration But h ow many targets can a polymerase act on ? But h But h But how many targets But h But h ow many targets ow many targets ow many targets ow many targets can a polymerase act on ow many targets can a polymerase act on can a polymerase act on can a polymerase act on? can a polymerase act on can a polymerase act on ? ? ? ? ? But h But h ow many targets can a polymerase act on ? If there are more than one, 1 and 0 are both read If there are more than one, 1 and 0 are both read ... ... If there are more than one, 1 and 0 are both read If there are more than one, 1 and 0 are both read... If there are more than one, 1 and 0 are both read If there are more than one, 1 and 0 are both read If there are more than one, 1 and 0 are both read If there are more than one, 1 and 0 are both read ... ... ... ... ... When you have too many coins, a single bacterium will still show a When you have too many coins, a single bacterium will still show a When you have too many coins, a single bacterium will still show a When you have too many coins, a single bacterium will still show a When you have too many coins, a single bacterium will still show a When you have too many coins, a single bacterium will still show a When you have too many coins, a single bacterium will still show a When you have too many coins, a single bacterium will still show a mix of colors. mix of colors. mix of colors. mix of colors. mix of colors. mix of colors. mix of colors. mix of colors.

  19. Integration system Integration system Integration system Integration system

  20. Integration system Integration system Integration system Integration system Lambda InCh a simple E. coli plasmid- chromosome shuttle system B oyd, D., Weiss, D. S., Chen, J. C. & Beckwith, J

  21. Integration system Integration system Integration system Integration system Loop out Loop out Loop out Loop out Loop out Loop out Loop out Loop out Lysogen Lysogen will be killed at 42 will be killed at 42 º º C C Lysogen Lysogen will be killed at 42 Lysogen Lysogen will be killed at 42 will be killed at 42 will be killed at 42º will be killed at 42 ºC º º º C C C C Lysogen Lysogen will be killed at 42 º C Lambda InCh a simple E. coli plasmid-chromosome shuttle system B oyd, D., Weiss, D. S., Chen, J. C. & Beckwith, J

  22. Cell number Cell number Cell number Cell number

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