what’s in store for today
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What’s in store for today
•Review weeks 1 & 2: All questions answered environment….
What’s in store for today
•Review weeks 1 & 2: All questions answered environment….•New Material: abstraction + bacterial photography system
What’s in store for today
•Review weeks 1 & 2: All questions answered environment….•New Material: abstraction + bacterial photography system•Hands on: Tinkercell CAD tool
What’s in store for today
•Review weeks 1 & 2: All questions answered environment….•New Material: abstraction + bacterial photography system•Hands on: Tinkercell CAD tool•Home stretch: Launch project groups
What’s in store for today
•Review weeks 1 & 2: All questions answered environment….•New Material: abstraction + bacterial photography system•Hands on: Tinkercell CAD tool•Home stretch: Launch project groups •Epilogue:
• 20.385: journal article discussion • 20.020: project discussions continue as needed/wanted
PCR
Genetic Engineering
Synthetic Biology
Sequencing
rDNA
Synthesis
Abstraction
Standardization
A+A+C+T+T…
Tools for Engineering Biology
Parts specification for stationary phase banana smell
BGDcell density
time
“lag”
“log”
“stationary”
OsmY is a promoter that is only active during stationary phase
Parts specification for log phase wintergreen smell
WGD
cell density
time
“lag”
“log”
“stationary”
Stationary LogOsmY 1 0OsmY + inverter
0 1
“Eau d’coli”
cell density
time
“lag”
“log”
“stationary”
saGD
iaGD BGD
WGD
Goal: build a working cell that uses a synthetic genome
• Design, synthesis and assembly of largest functional genome to date
art from Drew Endy
aka “Darwin is dead”
Cloning and PCR
Cloning and PCRhttp://openwetware.org/wiki/Talk:2020(S12)_Lecture:week_2
PCR
Genetic Engineering
Synthetic Biology
Sequencing
rDNA
Synthesis
Abstraction
Standardization
A+A+C+T+T…
Tools for Engineering Biology
Abstraction introduction
Natalie KuldellFebruary 22nd, 2012
Reverse Engineering
•Leaked•Need wrench and funnel to use
“Flimsies”
Fuel Cans used by WW I British army
German Wehrmachtskanister, 1930s
•Snapcap•X-marks for strength, expansion•Plastic lined•Pressed seems
“WWII JerryCans”
Reverse (historical) Engineering
"Study the past, if you would divine the future"-Confucius
"Learn from your mistakes"-my mom
Forward Engineering
Commercial needs (#passengers, cost, distance)
~100 year history of manned flight
Consumer data
Scientific understanding of materials, physics, atmosphere
238 teams of engineers8 mainframe computers2200 workstations
Forward Engineering
Scientific understanding of materials, physics, atmosphere
Abstraction Hierarchy
Some experts in electrical system wiring
Other experts who integrate of subcomponents
a human invention designed to assist people in engineering complex systems
Some system designers
Abstraction Hierarchya human invention designed to assist people in engineering complex systems
•Everyone has to do their job right for the final product to work
•No single person understands everything about the final product
•Interfaces between layers are critically important
Abstraction Hierarchya human invention designed to assist people in engineering complex systems
Abstraction Hierarchya human invention designed to assist people in engineering complex systems
Abstraction Hierarchya human invention designed to assist people in engineering complex systems
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