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'''Synthetic Biology Engineering Research Center'''
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| colspan="2" | The '''Synthetic Biology Engineering Research Center''' (SynBERC) is a multi-institution research effort to lay the foundation for synthetic biology, which aims to build biological components and assemble them into integrated systems to accomplish specific tasks.
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<h3>News</h3>
*1/29/08: What needs to happen at upcoming retreat? Add to [[SynBERC:March 2008 retreat]]
*9/13/07: Contribute to brainstorming before the upcoming meeting: [[SynBERC:Automated cloning brainstorming|Automated Cloning]], [[SynBERC:Registry brainstorming|Registry]]
*5/21/2007: Devices Thrust meeting tomorrow on [[SynBERC:Devices:220507Devices | Genetic Devices]] from 2-5p EST. 
*5/1/2007: [[SynBERC:Seminar series/Christina Smolke|Christina Smolke]] is speaking at UC Berkeley on May 3 at 4pm PST
*4/25/2007: [[SynBERC:Seminar series/Remy Chait|Video]] of Remy Chait's talk is available.
*4/17/2007: [[SynBERC:Seminar series/Remy Chait|Remy Chait]] is speaking at MIT on April 24 at 12pm EST.
*4/9/2007: The SynBERC sponsored [[SynBERC:Seminar series | seminar series]] is in progress.  Andy Ellington is speaking at Prairie View A&M University on April 11 at 3pm CDT.
*3/22/2007: [[SynBERC:Seminar series/Steve Benner|Video]] of Steve Benner's talk is available.


==Working Drafts of Slides for December Site Visit==
<font size=1>[[SynBERC:News|Browse archive]]</font>
*Devices and Device Composition – [[User:Endy | Drew Endy]]
 
**[20 min. plus 10 min. Q/A]
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**Questions
 
***Should I include example of utility of hierarchy? [e.g., Polkadorks?]
<h3>SynBERC Calendar</h3>
***Should I include "process flow" meta-strategy slides?
[[2007-2008 calendar]]
**Outline
 
***Title Slide
<h3>Groups</h3>
***Abstraction Hierarchy
*[[SynBERC:Berkeley|Berkeley]]
***Utility of Hierarchy (allows decoupling, standards, and avoidance / management of complexity)
*[[SynBERC:Harvard|Harvard]]
***Walk-through of Hierarchy Levels (Parts (reminder), Devices, Applications)
*[[SynBERC:MIT|MIT]] ([[SynBERC:MIT/Lab video tours|videos]])
***(Talking Point) - Devices bridge connection between basic biological functions (parts) and high level applications.
*[[SynBERC:PV|Prairie View]]
***Introduce abstraction barriers and intefaces
*[[SynBERC:UCSF|UCSF]]
***Introduce construction of hierarchy via example 1, from Parts to Devices
*[[SynBERC:Training group|Training group]]
***Introduce issue of standard assembly (TK biobricks assembly scheme v1)
*[[SynBERC:COG|COG]]
***Introduce issue / challenge of functional composition (part-part junction)
*[[SynBERC:Open cell project|Open Cell]]
***Continue construction of hierarchy via example 2, from Devices to Systems
 
***Compare [protein]-based gene-expression devices with PoPS-based devices
<h3>Courses</h3>
***Detail PoPS and discuss issues (e.g., how do we measure PoPS)?
 
***Can we extend abstraction hierarchy to post-translational devices [Get Samantha Sutton's slides here]
*[[SynBERC:Courses| Courses]]
***Explain issues / challenge with PTL abstraction [Wendell, we need to synch. here for sure!]
 
***Can we extend abstraction hierarchy to metabolic devices [Kristala, we need to synch here!]
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***Revisit device / system interface, introduce Jason Kelly's operation definition based on ability to directly screen / select for device function, but not system / application function
 
***Provide summary of foundational research [e.g., extending abstraction to post-translational devices and metabolic devices, measurement of signal carriers, coupling to genetic screening and selection]
<h3>Research Thrusts</h3>
*** Introduce applied research.  As in, we will be building the following type of devices.  Information Processing, Transducers (from one device family to the next), Receivers, Actuators, Metabolism
*[[SynBERC:Parts|Parts]]
***(~3 slides) Provide examples of devices, detailing interface with Registry (e.g., BBa_F2620)
*[[SynBERC:Devices|Devices]]
*[[SynBERC:Chassis|Chassis]]
*[[SynBERC:Human Practice|Human Practice]]
 
<h3>Proposed Projects</h3>
*Add your proposed projects to the appropriate '''Research Thrusts''' above. If you don't wish to have your project viewed publicly, add it to the [http://synberc.private.openwetware.org SynBERC intranet].
 
To access the SynBERC intranet, please [[Join|request an OpenWetWare account]] and then email Kevin Costa with your username to be added as a SynBERC user.
 
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<h3>Testbed Applications</h3>
*[[SynBERC:TKB|Tumor killing bacteria]]
*[[SynBERC:Drugs|In vivo chemical factories]]
*[[SynBERC:MoreTestbeds|More testbeds]]
 
<h3>Links</h3>
*http://synberc.org
*http://syntheticbiology.org
*http://parts.mit.edu
 
<h3>Resources</h3>
*SynBERC IM
*[[SynBERC:VTC | SynBERC VideoConferencing]]
*SynBERC Parts (c/o Registry of Standard Biological Parts)
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==Recent changes==
{{Special:Recentchanges/SynBERC}}
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<nonwikionly>
Visit the [http://openwetware.org/wiki/SynBERC SynBERC wiki].
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__NOTOC__

Latest revision as of 05:30, 21 February 2008

The Synthetic Biology Engineering Research Center (SynBERC) is a multi-institution research effort to lay the foundation for synthetic biology, which aims to build biological components and assemble them into integrated systems to accomplish specific tasks.

News

  • 1/29/08: What needs to happen at upcoming retreat? Add to SynBERC:March 2008 retreat
  • 9/13/07: Contribute to brainstorming before the upcoming meeting: Automated Cloning, Registry
  • 5/21/2007: Devices Thrust meeting tomorrow on Genetic Devices from 2-5p EST.
  • 5/1/2007: Christina Smolke is speaking at UC Berkeley on May 3 at 4pm PST
  • 4/25/2007: Video of Remy Chait's talk is available.
  • 4/17/2007: Remy Chait is speaking at MIT on April 24 at 12pm EST.
  • 4/9/2007: The SynBERC sponsored seminar series is in progress. Andy Ellington is speaking at Prairie View A&M University on April 11 at 3pm CDT.
  • 3/22/2007: Video of Steve Benner's talk is available.

Browse archive

SynBERC Calendar

2007-2008 calendar

Groups

Courses

Research Thrusts

Proposed Projects

  • Add your proposed projects to the appropriate Research Thrusts above. If you don't wish to have your project viewed publicly, add it to the SynBERC intranet.

To access the SynBERC intranet, please request an OpenWetWare account and then email Kevin Costa with your username to be added as a SynBERC user.

Testbed Applications

Links

Resources

<wikionly>

Recent changes

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25 April 2024

      00:22  The paper that launched microfluidics - Xi Ning‎‎ 7 changes history +4,723‎ [Xning098‎ (7×)]
     
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24 April 2024

      22:50  WAKNA:Basics‎‎ 8 changes history +610‎ [Berthold Drexler‎ (8×)]
     
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     18:35  User:Yanbin Huang‎‎ 2 changes history +25‎ [Yanbin Huang‎ (2×)]
     
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     17:49  Hu‎‎ 2 changes history +28‎ [Hugangqing‎ (2×)]
     
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     08:14  "Pick and Place" Assembly of Parts Using PDMS - Amy Lim, Rylie Costello‎‎ 6 changes history +394‎ [Rcostello‎ (6×)]
     
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     08:02 Upload log Rcostello talk contribs uploaded File:Pick and Place.mp4 ‎

23 April 2024

      15:33  "Pick and Place" Assembly of Parts Using PDMS - Amy Lim, Rylie Costello‎‎ 6 changes history +837‎ [Rcostello‎ (6×)]
     
15:33 (cur | prev) +1‎ Rcostello talk contribs (→‎"Pick and Place" for Microfluidics)
     
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     11:58  BioMicroCenter:People‎‎ 2 changes history +30‎ [Lttran‎ (2×)]
     
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     11:46 Upload log Lttran talk contribs uploaded File:SKR BMC.jpg ‎

22 April 2024

      19:28  "Pick and Place" Assembly of Parts Using PDMS - Amy Lim, Rylie Costello‎‎ 2 changes history −2‎ [Rcostello‎ (2×)]
     
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     19:01  Microfluidic Sensing- Microfluidic Biosensors- Xiao Fan‎‎ 13 changes history +131‎ [Khiemle‎ (13×)]
     
19:01 (cur | prev) +14‎ Khiemle talk contribs (→‎Microfluidic immunosensors)
     
19:00 (cur | prev) +7‎ Khiemle talk contribs (→‎DNA-based microfluidic biosensors)
     
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</wikionly> <nonwikionly> Visit the SynBERC wiki. </nonwikionly>


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