Software for Programming Cells
summary
Web-based CAD generates DNA sequences from high-level designs and compiles a molecular consensus algorithm into strands that are actually synthesized, with mouse experiments claiming instant immunity using an anthrax-binding aptamer. The toolchain includes a parts database, stochastic and deterministic simulators and visualizers that flag incompatible part choices before the wet lab, and it produces logic gates and even a DNA-implemented square-root circuit; several compiled systems are reported to work though noise and reliability still require extra redundancy.
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chapters (24)
- 0:00Intro
- 1:49Programming (biology) Molecules
- 2:28Machine Code (DNA)
- 3:10DNA codes the proteins
- 3:58Strange loops
- 5:10DNA strands
- 5:50DNA Strand Affinity Short complementary segments bind reversibly
- 6:31Bind, Migrate, Displace
- 9:39Domain abstraction (assembler)
- 15:48DNA strand displacement
- 17:01A DNA Consensus Algorithm
- 18:24Molecular components
- 18:41Analysing function: Z3 SMT Solver
- 19:44Programming cells Molecules
- 20:25Cross-platform coding
- 23:45Synthetic Biology Software
- 24:47Cell programming
- 25:24Transcription
- 25:42Low-level DNA Language A simplified view of DNA instructions
- 26:51Repressilator
- 30:57Programming (macro)
- 34:55Biophysical Modelling
- 35:24Biophysical patterning
- 36:13Biological Computation Group
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