SEED/2012/Schedule

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Overview pages

Course schedule

Class Date Lecture Homework (due next week) Lab
Day 1 Feb. 4
  • Introductions
  • Molecular Biology Review
  • Units Review
  • Course description & requirements
  • Diagnostic test

Lab Day #1: doc pdf

  • Lab safety
  • Concentrations & dilutions
  • Using a micropipet
  • Serial dilutions & spectrophotometer
Day 2 Feb. 11
  • Goals of SynthBio
  • What makes a good standardized part
  • Why biology is hard to engineer
  • Parts/devices/systems hierarchy and black-boxing
  • Discuss Adventures in Synthbio and project ideas
  • Homework #2: doc pdf
  • Post-Lab #2
  • Pre-Lab #3

Lab Day #2: doc pdf

  • Overview of cloning process
  • Minipreps
  • Pre-Lab #2
No Class Feb. 19 Presidents' Day
Day 3 Feb. 25 Polymerase chain reaction

Lab Day #3: doc pdf

  • Polymerase Chain Reaction (PCR)
Day 4 Mar. 3 Restriction digest
  • Homework #4: Three Ideas Report doc pdf
    • (rough draft due Day 5, final draft due Day 6)
  • Post-Lab #4
  • Pre-Lab #5

Lab Day #4: doc pdf

  • Restriction Digest
Day 5 Mar. 10

Gel Electrophoresis & Purification

  • Homework #5: Finish Three Ideas Report
  • Post-Lab #5
  • Pre-Lab #6

Lab Day #5: doc pdf

  • Gel Electrophoresis
Day 6 Mar. 17

Ligation & transformation

  • Homework #6: doc pdf
  • Post-Lab #6
  • Pre-Lab #7

Lab Day #6: doc pdf

  • Ligation (morning)
  • Transformation (afternoon)
Day 7 Mar. 24
  • Sequencing to Verify Plasmids
  • Preparing Freezer Stocks
  • Homework #7: see Day 8
  • Post-Lab #7
  • Pre-Lab #8

Lab Day #7: doc pdf

  • Posted lab packet does not include protocol, but does include all information necessary to do homework
  • Miniprep for sequencing
  • Prepare sequencing reaction to verify transformed strains
  • Making glycerol freezer stocks of transformed strains
No SEED Mar. 31
Day 8 Apr. 7
  • Device diagrams
  • Internal logic & timing of systems
  • Homework #8: to be posted
  • Post-Lab #8
  • Pre-Lab #9

Lab Day #8: to be posted

  • Analyzing sequencing results
  • Measuring induction of fluorescent proteins
Day 9 Apr. 14 Projects!
  • Homework #9: to be posted
  • Post-lab #9

Lab Day #9: to be posted

  • Measuring LacZ expression with various promoter/RBS combos
No SEED Apr. 21
Day 10 April 28
  • Designing a poster
  • Presenting a poster
  • Prepare to present projects!

Project work time

May 4 Final Presentations
  • Kirsch Auditorium (room 32-123), Stata Center
  • 6:30pm-8pm
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