Difference between revisions of "Summer 2012 SynBio Project (Davidson and MWSU)"
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==Cellular Automata== | ==Cellular Automata== | ||
| − | *[http://en.wikipedia.org/wiki/Elementary_cellular_automaton] Elementary Cellular Automata | + | *[http://en.wikipedia.org/wiki/Elementary_cellular_automaton], [http://mathworld.wolfram.com/ElementaryCellularAutomaton.html] Elementary Cellular Automata |
*[http://en.wikipedia.org/wiki/Elementary_cellular_automaton] Rule 110--Universal Computation | *[http://en.wikipedia.org/wiki/Elementary_cellular_automaton] Rule 110--Universal Computation | ||
Revision as of 19:37, 23 May 2012
Contents
Student Proposals from Ind. Studies
- Erich Baker Proposal: Media:Erich_Baker_proposal.docx This proposal deals with Phytochromes and Light Sensitive Channel Proteins
- Ben Clarkson Proposal: Media:Ben_Clarkson_proposal.docx
- Duke DeLoache Proposal: Media:Duke_DeLoache_Proposal.docx
- Becca Evans Proposal: Media:Becca_Evans_proposal.docx
- Ellen Johnson Proposal: Media:Ellen_Johnson_proposal.docx
PPT Presentations
- This PPT file contains all the slides from student presentations addressing the idea proposed by MWSU.
Media:Reports_on_Circuits.pptx
- This PPT contains slides summarizing some of the best and most complicated papers from Week 11.
Papers
Methods Papers
- DNA assembly for synthetic biology: from parts to pathways and beyond
Tom Ellis, Tom Adieac and Geoff S. Baldwin
Integr. Biol., 2011, 3, 109–118
- Everyone should watch this 5 minute video on optogenetics. Combine that video with the 2010 champoinship iGEM invention of E. glowi.
Older Lab Papers
- Engineering bacteria to solve the Burnt Pancake Problem.
Haynes, Karmella, et al.
Journal of Biological Engineering. Vol. 2(8): 1 – 12.
- Solving a Hamiltonian Path Problem with a Bacterial Computer.
Baumgardner, Jordan et al.
Journal of Biological Engineering. Vol. 3:11
- Bacterial Hash Function Using DNA-Based XOR Logic Reveals Unexpected Behavior of the LuxR Promoter.
Brianna Pearson*, Kin H. Lau* et al.
Interdisciplinary Bio Central. Vol. 3, article no. 10.
Time Delayed Growth Movie
Network Papers
Jonathan M. Raser and Erin K. O’Shea
Science. Vol. 309, page 2010
Please post pdf.
Nagarajan Nandagopal and Michael B. Elowitz
Science. Vol. 333, page 1244.
Please post pdf.
R. Milo, S. Shen-Orr, et al
Science. Vol. 298, page 824.
Please post pdf.
Yang-Yu Liu, Jean-Jacques Slotine, & Albert-La ́szlo ́ Baraba ́si
Nature. 2011. Vol. 473, page 167.
Please post pdf.
Ethics Papers
Colin Mcilswain
Nature. Vol 465, page 867.
- Word selection affects perceptions of synthetic biology. Brianna Pearson, Sam Snell, Kyri Bye-Nagel, Scott Tonidandel, Laurie J Heyer, and A Malcolm Campbell.
- Read "Moral" ethics paper on synthetic biology. Media:Moral.pdf
- Read "Future" ethics paper on synthetic biology. Media:Future.pdf
Questions to Consider About Network Pathways
- Are they naturally occurring or synthetic?
- Do they involve screening or selection?
- Are they anabolic or catabolic?
- How long are they?
- How can they relate to cell fitness?
- What are possible sources of error?
