Biomod/2011/UTAustin/Hook'em Hybridizers: Difference between revisions

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<span style="font-size:40px; font-family: Arial; font-weight:bold; color:#CC5500; vertical-align: middle;">The Hook'em Hybridizers</span>
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[[Biomod/2011/UTAustin/Hook'em_Hybridizers | <span style='font-size:16px; font-family: "trebuchet ms"; font-weight:bold; color:#FFFFFF; vertical-align: middle; text-decoration: none;'>'''Home'''</span> ]]
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[[Biomod/2011/UTAustin/Hook'em Hybridizers:Simulation | <span style='font-size:16px; font-family: "trebuchet ms"; font-weight:bold; color:#FFFFFF; vertical-align: middle; text-decoration: none;'>'''Simulation'''</span> ]]
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[[Biomod/2011/UTAustin/Hook'em Hybridizers:Methods | <span style='font-size:16px; font-family: "trebuchet ms"; font-weight:bold; color:#FFFFFF; vertical-align: middle; text-decoration: none;'>'''Methods'''</span> ]]
[[Biomod/2011/UTAustin/Hook'em Hybridizers:Methods | <span style='font-size:16px; font-family: "trebuchet ms"; font-weight:bold; color:#FFFFFF; vertical-align: middle; text-decoration: none;'>'''Methods'''</span> ]]
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<span style="font-size: 20px; font-family: Verdana; color:#FFFFFF; vertical-align: middle;">Team</span>
<span style="font-size: 20px; font-family: Verdana; color:#FFFFFF; vertical-align: middle;">Objective</span>
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*Team name: The Hook'em Hybridizers
*Institution: The University of Texas at Austin


*Team Members
<center>'''Counting Events with a DNA Processor'''</center>
**[[User:Ben_Braun|Ben Braun]]
**[[User:Victor J. Kronberg|Victor Kronberg]]
**[[User:Jeremy R. McLain|Jeremy McLain]]
**[[User:Daniel Winkler|Daniel Winkler]]


*Postdoc Mentors
A major goal in nanotechnology is the find useful forms of DNA computation. This broad definition includes amplifiers, logic gates, oscillators, structural manipulations, and many more forms of controlled responses. We believe an enzyme-free, DNA toehold exchange catalyzed system that preforms the computation of “counting” can be useful in various fields of biotechnology. Counting, by our definition, relies on two main principles. The first is the input that is being counted must be the same with each pulse and the second is the output of the counter must be independent of the input quantity or concentration. That is, regardless of the amount of input used, the counter must only reach completion after the specified number of counts, or pulses.
**Dr. Peter Allen
**[[User:Xi_Chen|Dr. Xi Chen]]


*Faculty mentors
**[http://ellingtonlab.org/ Dr. Andrew Ellington]
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<span style="font-size: 20px; font-family: Verdana; color:#FFFFFF; vertical-align: middle;">About</span>
<span style="font-size: 20px; font-family: Verdana; color:#FFFFFF; vertical-align: middle;">The essence of a counter</span>
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====The Counting Machine as a Modular Nanoscale DNA Component.====
 
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One major goal of nanotechnology is to control chemical
reactions pera logical specification. Nano-biological devices have
been"programmed" to function as AND / OR gates, timed oscillators,
motors,and to have other forms of controlled responses to their
environment.We have engineered a prototype of an enzyme-free DNA
circuit based on toeholdexchange to 'count' signal pulses
corresponding to additions of adefined chemical. Counting, by our
definition, needs to meet twocriteria: First, the input being being
counted is a single chemicalused for each pulse. Second, the counter
should output an ON signalonly when some fixed number of pulses have
been encountered,regardless of the amount of input added in any pulse,
and the strengthof the ON signal should be independent of the amount
of input addedeach pulse. The molecular basis of our prototype
count-to-two unitincludes (1) a time-delayedsignal transduction series
coupled to an AND gate and (2) a mechanism forconstant input
degradation.  In theory such units can be connected seriallyto make a
counter that is capable to count to any pre-specified finitenumber.
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Latest revision as of 23:37, 2 November 2011

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Objective

Counting Events with a DNA Processor

A major goal in nanotechnology is the find useful forms of DNA computation. This broad definition includes amplifiers, logic gates, oscillators, structural manipulations, and many more forms of controlled responses. We believe an enzyme-free, DNA toehold exchange catalyzed system that preforms the computation of “counting” can be useful in various fields of biotechnology. Counting, by our definition, relies on two main principles. The first is the input that is being counted must be the same with each pulse and the second is the output of the counter must be independent of the input quantity or concentration. That is, regardless of the amount of input used, the counter must only reach completion after the specified number of counts, or pulses.

The essence of a counter

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