User:Pakpoom Subsoontorn/Notebook/Genetically Encoded Memory/2009/03/29

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Modeling and measurements for flipper operation Insert content here... Detail Mechanism Inducer IPTG diffuse into a cell Mechanism: IPTG diffuses across E.coli cell membrane and cytosol and binds to lacI Rate Diffusion rate of IPTG across cell membrane Diffusion rate of IPTG in cytosol IPTG-lacI binding rate Number number of lacI in a single cell lacI-IPTG leaves the promoter Mechanism: lacI-IPTG has much lower affinity toward Lac operator than lacI and likely to dissociate Rate Dissociation rate of lacI-IPTG from the lac operon Number Transcription of Flipper Mechanism: RNAP bind to the promoter, transcribing mRNA of the flipper out Rate Estimated transcription rate promoter occupancy of our promoter Number Size of the gene number of RNAP molecules Translation of Flipper Mechanism Rate Number Flipper localizes at Flippee Mechanism Rate Number DNA inversion Mechanism Rate Number Transcription of reporter Mechanism Rate Number Translation of reporter Mechanism Rate Number Maturation of reporter Mechanism Rate Number Detection Mechanism Rate Number Measurement (Currently available in our lab) Bulk GFP signal readout Bulk b-gal activity readout Bulk Restriction Digestion Bulk PCR Single-cell GFP readout (Not available in our lab yet) IPTG diffusion Bulk Flipper transcription Single-cell fipper transcription Bulk Flipper translation Single-cell flipper translation Flipper localizes on the flippee in vivo single cell DNA inversion Bulk Flippee transcription Single-cell Flippee translation