SynBERC:MIT: Difference between revisions

From OpenWetWare
Jump to navigationJump to search
No edit summary
 
(119 intermediate revisions by 4 users not shown)
Line 9: Line 9:


==Synthetic Biology Working Group lunches==
==Synthetic Biology Working Group lunches==
===Overview===
Current information about SBWG Lunches is located at [[SBWGLunches]].
Synthetic Biology Working Group lunches are an opportunity for anyone in the Boston-area who is interested in synthetic biology to get together and discuss current issues and topics in the field.  Each lunch discussion is led by someone (selected at the end of lunch the previous week) and focuses on a particular topic.  The style of the lunch is really meant to be a ''discussion'' rather than a presentation.  Therefore, discussion leaders frequently give a chalk talk or only have a handful of slides to help structure discussion.


Announcements regarding Synthetic Biology Working Group lunches are sent to synthbio AT mit.  To join the mailing list, go [https://ca.mit.edu/moira/index.jhtml here] or contact [[Isadora Deese]].  All are welcome to attend.
Information pre-2010 can be found at [[SynBERC:SBWGLunchesArchive]].
 
'''If you've previously led a discussion at SBWG lunch, please consider posting your slides or notes at the appropriate link below.'''
 
<font color=red>'''The SEPTEMBER lunch schedule will be Wednesdays at 12:00pm.  We will move to 11am starting in October.'''</font>
 
===Next meeting===
*[[SynBERC:MIT/Calendar/2007-9-26]]: 48th of restarted MIT SBWG lunch
**Wednesday 9/26 (12:00-1:00p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4D/D463.gif D463], MIT
 
*9/26 - Paul Oldham, Synthetic Biology: Interrogating the Patent Landscape
*10/3  - Erez Lieberman
*10/10 - Mo Khalil, single molecule mechanics of M13 bacteriophage
*Sept - Natalie and Felix, M13 refactoring
*12/5 - Radhika Nagpal and Daniel Yamins - 68-181
*After Nov 15 - Collin Martin
 
===Previous meetings===
{{hide|1=&nbsp;
 
*[[SynBERC:MIT/Calendar/2007-9-19]]: 47th of restarted MIT SBWG lunch
**Wednesday 9/19 (12:00-1:00p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4D/D463.gif D463], MIT
*[[SynBERC:MIT/Calendar/2007-9-12]]: 46th of restarted MIT SBWG lunch
**Wednesday 9/12 (12:00-1:00p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4D/D463.gif D463], MIT
*[[SynBERC:MIT/Calendar/2007-9-5]]: 45th of restarted MIT SBWG lunch
**Wednesday 9/5 (12:00-1:00p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4D/D463.gif D463], MIT
*[[SynBERC:MIT/Calendar/2007-8-29]]: 44th of restarted MIT SBWG lunch
**Wednesday 8/29 (12:30-1:30p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4D/D463.gif D463], MIT
*[[SynBERC:MIT/Calendar/2007-8-22]]: 43th of restarted MIT SBWG lunch
**Wednesday 8/22 (12:30-1:30p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4D/D463.gif D463], MIT
*[[SynBERC:MIT/Calendar/2007-8-15]]: 42th of restarted MIT SBWG lunch
**Wednesday 8/15 (12:30-1:30p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4D/D463.gif D463], MIT
*[[SynBERC:MIT/Calendar/2007-8-8]]: 41th of restarted MIT SBWG lunch
**Wednesday 8/8 (12:30-1:30p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4D/D463.gif D463], MIT
**'''Contains notes and references for the BioBricks parts wanted list'''
*[[SynBERC:MIT/Calendar/2007-8-1]]: 40th of restarted MIT SBWG lunch
**Wednesday 8/1 (12:30-1:30p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4D/D463.gif D463], MIT
*[[SynBERC:MIT/Calendar/2007-7-25]]: 39th of restarted MIT SBWG lunch
**Wednesday 7/25 (12:30-1:30p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4D/D463.gif D463], MIT
**'''Contains notes and references from the BioBricks tutorial'''
*[[SynBERC:MIT/Calendar/2007-7-18]]: 38th of restarted MIT SBWG lunch
**Wednesday 7/18 (12:30-1:30p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4D/D463.gif D463], MIT
*[[SynBERC:MIT/Calendar/2007-7-11]]: 37th of restarted MIT SBWG lunch
**Wednesday 7/11 (12:30-1:30p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4G/G449.gif G449], MIT
*[[SynBERC:MIT/Calendar/2007-6-20]]: 36th of restarted MIT SBWG lunch
**Wednesday 6/20 (12:30-1:30p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4D/D463.gif D463], MIT
*[[SynBERC:MIT/Calendar/2007-6-13]]: 35th of restarted MIT SBWG lunch
**Wednesday 6/13 (12:30-1:30p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4D/D463.gif D463], MIT
*[[SynBERC:MIT/Calendar/2007-6-6]]: 34th of restarted MIT SBWG lunch
**Wednesday 6/6 (12:30-1:30p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4G/G449.gif G449], MIT
*[[SynBERC:MIT/Calendar/2007-5-30]]: 33th of restarted MIT SBWG lunch
**Wednesday 5/30 (12:30-1:30p EST), 68-181, MIT
*[[SynBERC:MIT/Calendar/2007-5-22]]: 32th of restarted MIT SBWG lunch
**Tuesday 5/22 (12-1p EST), 56-614, MIT
*[[SynBERC:MIT/Calendar/2007-5-15]]: 31th of restarted MIT SBWG lunch
**Tuesday 5/15 (12-1p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4G/G449.gif G449], MIT
*[[SynBERC:MIT/Calendar/2007-5-8]]: 30th of restarted MIT SBWG lunch
**Tuesday 5/8 (12-1p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4D/D463.gif D463], MIT
*[[SynBERC:MIT/Calendar/2007-5-1]]: 29th of restarted MIT SBWG lunch
**Tuesday 5/1 (12-1p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4G/G449.gif G449], MIT
*[[SynBERC:Seminar series/Remy Chait]]: 28th of restarted MIT SBWG lunch
**Tuesday 4/24 (12-1p EST), [http://whereis.mit.edu/map-jpg?mapterms=68&mapsearch=go 68]-181, MIT
*[[SynBERC:MIT/Calendar/2007-4-17]]: 27th of restarted MIT SBWG lunch
**Tuesday 4/17 (12-1p EST), Meet at [http://maps.google.com/maps?f=q&hl=en&q=320+Charles+St,+Cambridge,+Massachusetts+02141&sll=37.0625,-95.677068&sspn=38.638819,64.335938&layer=&ie=UTF8&z=16&ll=42.368532,-71.0865&spn=0.008815,0.015707&om=1&iwloc=addr 320 Charles St Cambridge, MA 02141] at 12pm
*[[SynBERC:MIT/Calendar/2007-4-10]]: 26th of restarted MIT SBWG lunch
**Tuesday 4/10 (12-1p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4G/G449.gif G449], MIT
*[[SynBERC:MIT/Calendar/2007-4-3]]: 25th of restarted MIT SBWG lunch
**Tuesday 4/3 (12-1p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4G/G449.gif G449], MIT
*[[SynBERC:MIT/Calendar/2007-3-28]]: 24th of restarted MIT SBWG lunch
**Wednesday 3/28 (12-1p EST), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4G/G449.gif G449], MIT
*[[SynBERC:MIT/Calendar/2007-3-20]]: 23th of restarted MIT SBWG lunch
**Tuesday 3/20 (12-1p), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4G/G449.gif G449], MIT
*[[SynBERC:MIT/Calendar/2007-3-13]]: 22th of restarted MIT SBWG lunch
**Tuesday 3/13 (12-1p), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4G/G449.gif G449], MIT
*[[SynBERC:MIT/Calendar/2007-3-6]]: 21th of restarted MIT SBWG lunch
**Tuesday 3/6 (12-1p), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4G/G449.gif G449], MIT
*[[SynBERC:MIT/Calendar/2007-2-27]]: 20th of restarted MIT SBWG lunch
**Tuesday 2/27 (12-1p), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4G/G449.gif G449], MIT
*[[SynBERC:MIT/Calendar/2007-2-13]]: 19th of restarted MIT SBWG lunch
**Tuesday 2/13 (12-1p), 68-181, MIT
*[[SynBERC:MIT/Calendar/2007-2-6]]: 18th of restarted MIT SBWG lunch
**Tuesday 2/6 (12-1p), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4G/G449.gif G449], MIT
*[[SynBERC:MIT/Calendar/2007-1-31]]: 17th of restarted MIT SBWG lunch
**Wednesday 1/31 (1-2p), [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4G/G449.gif G449], MIT
*[[SynBERC:MIT/Calendar/2007-1-24]]: 16th of restarted MIT SBWG lunch
**Wednesday 1/24 (1-2p), 56-614, MIT
*[[SynBERC:MIT/Calendar/2007-1-17]]: 15th of restarted MIT SBWG lunch
**Wednesday 1/17 (1-2p), 56-614, MIT
*[[SynBERC:MIT/Calendar/2007-1-10]]: 14th of restarted MIT SBWG lunch
**Wednesday 1/10 (1-2p), 32-G449, MIT
*[[SynBERC:MIT/Calendar/2006-12-20]]: 13th of restarted MIT SBWG lunch
**Wednesday 12/20 (1-2p), 68-180, MIT
*[[SynBERC:MIT/Calendar/2006-12-13]]: 12th of restarted MIT SBWG lunch
**Wednesday 12/13 (1-2p), 68-180, MIT
*[[SynBERC:MIT/Calendar/2006-12-6]]: 11th of restarted MIT SBWG lunch
**Wednesday 12/06 (1-2p), 68-180, MIT
*[[SynBERC:MIT/Calendar/2006-11-29]]: 10th of restarted MIT SBWG lunch
**Wednesday 11/29 (1-2p), 68-180, MIT
*[[SynBERC:MIT/Calendar/2006-11-15]]: 9th of restarted MIT SBWG lunch
**Wednesday 11/15 (1-2p), 68-180, MIT
*[[SynBERC:MIT/Calendar/2006-11-08]]: 8th of restarted MIT SBWG lunch
**Wednesday 11/08 (1-2p), 68-180, MIT
*[[SynBERC:MIT/Calendar/2006-11-01]]: 7th of restarted MIT SBWG lunch
**Wednesday 11/01 (1-2p), 32-G449, MIT
*[[SynBERC:MIT/Calendar/2006-10-25]]: 6th of restarted MIT SBWG lunch
**Wednesday 10/25 (1-2p), 32-G449, MIT
*[[SynBERC:MIT/Calendar/2006-10-18]]: 5th of restarted MIT SBWG lunch
**Wednesday 10/18 (1-2p), 68-180, MIT
*[[SynBERC:MIT/Calendar/2006-10-11]]: 4th of restarted MIT SBWG lunch
**Wednesday 10/11 (1-2p), 32-G449 (Kiva conference room), MIT
*[[SynBERC:MIT/Calendar/2006-10-4]]: 3rd of restarted MIT SBWG lunch
**Wednesday 10/4 (1-2p), 68-180, MIT
*[[SynBERC:MIT/Calendar/2006-9-27]]: 2nd of restarted MIT SBWG lunch
**Wednesday 9/27 (1-2p), 32-D463, MIT
*[[SynBERC:MIT/Calendar/2006-9-20]]: 1st of restarted MIT SBWG lunch
**Wednesday 9/20 (1-2p), 32-G449
**Please feel free to add yourself to the agenda.
*[[SynBERC:MIT/Calendar/2006-8-30]]: Kickoff Meeting @ MIT
**Wednesday 8/30 (4-5p), 68-574 or immediately local surrogate
}}
 
==Proposed topics==
Past and present research topics for synthetic biology working group lunches.  Please add to the list.
 
#Electronics device families (introduction by TK) - [[SynBERC:MIT/Calendar/2006-9-27]]
#Abstraction hierarchies
##Parts -> Devices -> Systems
##Biological layer model (AC)
#'''DEVICES''': Composability? Device family specification? Interfaces within families?  Interfaces across families?  Eventually parts datasheet?  Eventually standards?
##Transcriptional device families (RS and CAF) - [[SynBERC:MIT/Calendar/2006-10-4]], [[SynBERC:MIT/Calendar/2006-10-11]]
##Post-translational device families  (SS) - [[SynBERC:MIT/Calendar/2007-2-13]]
##Biosynthetic device families (KJP lab) - [[SynBERC:MIT/Calendar/2006-10-18]], [[SynBERC:MIT/Calendar/2006-10-25]]
##Ribozyme device families (AC) - [[SynBERC:MIT/Calendar/2007-1-10]], [[SynBERC:MIT/Calendar/2007-1-17]] and [[SynBERC:MIT/Calendar/2007-1-24]] and [[SynBERC:MIT/Calendar/2007-3-28]]
##Translation device families?
#'''PARTS''': [[SynBERC:MIT/Calendar/2007-2-6]]
##Terminators
##Coding regions
##RBSs
##Promoters
##Composability and characterization - [[SynBERC:MIT/Calendar/2006-11-01]]
#'''CHASSIS''': Why do we want different kinds?  What kinds?  What are the simplest systems that work?
##Minimal chassis
##Mesoplasma florum - [[SynBERC:MIT/Calendar/2006-12-13]]
##E. coli standard strain and rE. coli - [[SynBERC:MIT/Calendar/2006-12-6]]
##Yeast
##Power supply - [[SynBERC:MIT/Calendar/2006-11-15]]
##Vectors - [[SynBERC:MIT/Calendar/2007-1-31]]
#Synthesis technologies
##What is state of the art?
##What are the good ideas?
##How do we get more investment?
##Can the fabs constrain what people synthesize?
#What does the CAD tool look like? - [[SynBERC:MIT/Calendar/2007-7-18]], [[SynBERC:MIT/Calendar/2007-8-1]]
#Human practice
#Differentiation and cell to cell communication.  Development.  Programmed pattern formation.  (Arthur Lander, Radhika)
#[[Synthetic Biology:BioBricks/Standardization|Standards]] (also see talk page)
#Load issues
#*What demands on the chassis are of most concern to us? Replication, transcription, [[Endy:Translation demand|translation]], Enzyme activity?
#**Are we regularly placing high demands on the chassis with our existing systems?
#*What chassis responses to an applied demand are of relevance? Growth rate, protein synthesis capacity?
#**Can we specify a threshold demand level above which the chassis response is so severe as to render the our engineered systems inoperable? 
#Selection against our systems [[SynBERC:MIT/Calendar/2006-12-20]]
##e.g. IS elements are showing up in our devices!
#Statistics of codon pairs (UC Irvine folks)
#iGEM 2010 - [[SynBERC:MIT/Calendar/2006-11-08]]
#Registry 2.0 - [[SynBERC:MIT/Calendar/2007-6-20]]
#Publishing (with CS on Oct 20) - held separately
#Controlled transcriptional termination as an implementation for logic - Chris Anderson
#Designing enzymatic reactions by splitting catalytic activity and substrate specificity potentially by scaffolds - John Dueber? ask Adam Arkin for someone to talk about this
#What is the obvious list of things to do?
##Parts characterization
##How do we get basic tasks done?
#Experience with different parts: RBSs, promoters, terminators - Jen? Chris Anderson? Curt and Hal Alper
#Web of registries - Randy
#Repetitive sequences and potential for recombination - ask Graham Walker, someone in Philadelphia
#Registry of models - Barry and Vincent
#Bacterial counter and how you implement it - Tom or Gerry - [[SynBERC:MIT/Calendar/2007-5-30]]
#How do I get a computer inside my cell? - Tom
#Human practices - Michael Rossi
#Writing DNA - Maia, Farren?, Church lab, Adam Arkin, Sasha and polony sequencing - [[SynBERC:MIT/Calendar/2007-4-3]]
#Noncoding RNAs - Ron Breaker
#Materials - Angie Belcher, Julie Norville - [[SynBERC:MIT/Calendar/2007-5-8]]
#Education in SB - Natalie and Scot and Austin and Michael and Shawn? - [[SynBERC:MIT/Calendar/2007-3-20]], [[SynBERC:MIT/Calendar/2007-5-22]]
##Curriculum
##Workshop implementation
##Materials
##Bootcamp
#Security - are we ok with the current investments in biotechnology? - Drew, Gautam? Phil Sharp and Gerry Fink and Jonathan King and Noam Chomsky and Ed Hammond - [[SynBERC:MIT/Calendar/2007-6-6]], [[SynBERC:MIT/Calendar/2007-6-13]]
#*Must act in the absence of perfect knowledge
#Impact of big pharma and big ag and big energy on our field
#Inteins and Fran Perler from NEB - [[SynBERC:MIT/Calendar/2007-4-10]]
#Brian Baynes and Codon Devices - future of DNA synthesis technology
#Ownership, sharing and innovation - [[SynBERC:MIT/Calendar/2007-5-1]]
##IP around DNA fabrication technology (synthesis and automated assembly)
##How do we incent contributions?  i.e. documentation of parts in the Registry
##Historical examples around IP
##SynBERC OSI model
##BBF work
#Bioenergy - [[SynBERC:MIT/Calendar/2007-5-15]]
#Please add your topic to the list.
 
==Summer room schedule==
SBWG lunch will be on Wednesdays at 12:30pm during the summer term.  If the timing doesn't work for you, please let [[Reshma Shetty|Reshma]] know.
 
===Room reservations===
All lunches except those below will be in Star, [http://whereis.mit.edu/map-jpg?mapterms=32&mapsearch=go 32]-[http://www.csail.mit.edu/resources/maps/4D/D463.gif D463], [http://maps.google.com/maps?f=q&hl=en&q=MIT&layer=&ie=UTF8&z=12&om=1&iwloc=addr MIT] ending August 29, 2007.

Latest revision as of 10:18, 9 September 2010

<wikionly> < SynBERC</wikionly> <nonwikionly>Visit the wiki version of this page.</nonwikionly>

SynBERC Research @ MIT

Short summaries of MIT SynBERC research projects.

Lab Video Tours

MIT lab video tours

Synthetic Biology Working Group lunches

Current information about SBWG Lunches is located at SBWGLunches.

Information pre-2010 can be found at SynBERC:SBWGLunchesArchive.

Retrieved from "https://openwetware.org/mediawiki/index.php?title=SynBERC:MIT&oldid=452954"