SynBERC:MIT

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Synthetic Biology Working Group lunches

Announcements regarding Synthetic Biology Working Group lunches are sent to synthbio AT mit. To join the mailing list, go here or contact Isadora Deese. All are welcome to attend.

Next meeting

• SynBERC:MIT/Calendar/2006-10-25: 6th of restarted MIT SBWG lunch
  • Wednesday 10/25 (1-2p), TBA, MIT

Previous meetings

• 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

Scheduling constraints

• Transcriptional device family before Nov 1 (CMC)
• Biosynthetic device family between Oct 11 and Nov 1 inclusive (KJP)

Proposed topics

Some potential topics to be discussed at MIT SBWG lunch ... just brainstorming ... please edit. (I know that we had talked about having people present but I think there are also a set of issues that several people's projects touch on but aren't being addressed by any one person.) Apologies because these aren't articulated very well.

1. Electronics device families (introduction by TK) - SynBERC:MIT/Calendar/2006-9-27
2. Abstraction hierarchies
   1. Parts -> Devices -> Systems
   2. Biological layer model (AC)
3. DEVICES: Composability? Device family specification? Interfaces within families? Interfaces across families? Eventually parts datasheet? Eventually standards?
   1. Transcriptional device families (RS and CAF) - SynBERC:MIT/Calendar/2006-10-4, SynBERC:MIT/Calendar/2006-10-11
   2. Post-translational device families (SS)
   3. Biosynthetic device families (KJP lab) - SynBERC:MIT/Calendar/2006-10-18, SynBERC:MIT/Calendar/2006-10-25
   4. Ribozyme device families (AC)
   5. Translation device families?
4. PARTS:
   1. Terminators
   2. Coding regions
   3. RBSs
   4. Promoters
5. CHASSIS: Why do we want different kinds? What kinds? What are the simplest systems that work?
   1. Minimal chassis
   2. Mesoplasma florum
   3. E. coli standard strain and rE. coli
   4. Yeast
6. Synthesis technologies
   1. What is state of the art?
   2. What are the good ideas?
   3. How do we get more investment?
   4. Can the fabs constrain what people synthesize?
7. What does the CAD tool look like?
8. Human practice
9. Differentiation and cell to cell communication. Development. Programmed pattern formation. (Arthur Lander, Radhika)
10. Standards (also see talk page)
11. Load issues
    • What demands on the chassis are of most concern to us? Replication, transcription, 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?
12. Selection against our systems
    1. e.g. IS elements are showing up in our devices!
13. Statistics of codon pairs (UC Irvine folks)
14. iGEM 2010
15. Registry 2.0
16. Publishing (with CS on Oct 20)
17. Please add your topic to the list.