SynBERC:COG

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#Produce a [[SynBERC:COG/Report|report]] with evaluation of current assembly approaches and recommendations for going forward.
#Produce a [[SynBERC:COG/Report|report]] with evaluation of current assembly approaches and recommendations for going forward.
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=COG:Meeting 1=
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=Meetings=
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Agenda:
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*[[SynBERC:COG/October 2007 Meeting]]
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==What are the goals for COG?==
 
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Proposed based on SynBERC meeting / conversations since:
 
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#Stay up to date with current automated cloning research projects taking place in SynBERC labs
 
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#Get the ball rolling for solving the automated cloning problem in the short term
 
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===Research Updates===
 
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*1/2 the meeting?
 
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*Brief updates from each of the groups? one longer presentation each month about one project?
 
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**Something else?
 
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===Getting the ball rolling for solving automated cloning===
 
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#Define the problem we want solved
 
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#Specify the possible solutions
 
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#Evaluate / Act on solutions
 
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====Define problem(s)====
 
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*Combinatorial libraries of assembled parts (Wendall, UCSF iGEM team project)
 
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*Automation of standard BioBrick Assembly (Registry)
 
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*Automation of assembly independent of BBs (Synth companies?)
 
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====Specify Possible Solutions====
 
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#Decentralized approach
 
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#*We make cloning easier by using some automation combined with "normal" individual cloning approaches.  For example, each lab buys a Qiacube to partially automate minipreps and restriction digests.  Then ligations and transformations are done by hand at the bench.
 
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#Centralized academic facility
 
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#*We find the resources to start an assembly facility similar to how sequencing facilities are set up on campus
 
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#Outsource to DNA synthesis company
 
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#*We work with a DNA synthesis company so that they can offer commercial automated cloning services.  How do we ensure that such a partnership wouldn't fall apart as soon as a big synthesis order comes along?  Automated cloning may be too small a market and/or too large a problem for DNA synthesis companies to tackle right now?
 
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====Evaluate / Act on Solutions====
 
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*Registry hires more staff to do process engineering
 
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*Trial QIAcube / other "cheap" robots for distributed approach
 
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*Figure out how big an assembly order iGEM + labs using parts could put together for a Synth company (George suggestion)
 
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*Go talk to Synth companies see if they'll do this.
 
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*Plot the cost of synth vs. assembly over time for particular length scales (drew's suggestion)
 
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==Meeting Frequency==
 
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*Monthly?
 
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*Any weekday's particularly bad for certain groups? (Weds at MIT)
 
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==Next steps==
 
=Communication=
=Communication=

Revision as of 07:55, 29 October 2007

Image:Service lab.png Welcome to the Construction Optimization Group (COG)!

At the last SynBERC retreat SynBERCers decided that solving the challenge of automated DNA assembly/cloning would be a priority for the center. COG will be tasked with drafting a report for the upcoming NSF visit in March(?) that evaluates current assembly approaches and proposes a path forward. This page is just getting started, please add/edit!

Contents

Goals

  1. Maintain communication across labs on status of automated assembly projects.
  2. Produce a report with evaluation of current assembly approaches and recommendations for going forward.

Meetings


Communication

Members

Personal tools