20.109(S21): Laboratory Fundamentals of Biological Engineering
Welcome to 20.109! It is our goal to make this class a useful and fun introduction to the experiments and techniques used in biological engineering. Though there is not enough time to show you everything needed to do research, after this class you will feel confident and familiar with some fundamental experimental approaches and laboratory protocols. You will develop good habits at the bench, which will increase the likelihood of success in your work and ensure the health and safety of you and your labmates. By the end of the semester, you will also be well-versed in good scientific practices - through your experience with scientific writing, notebook keeping, and orally presenting data and novel ideas. All of us involved in teaching 20.109 hope you will find it a satisfying challenge and an exciting experience that has lasting value.
SCHEDULE DETAILS:
Lecture times:
- Tuesday (T) and Thursday (R) 11 - 12 pm (Zoom access; Meeting ID 948 1521 1031)
Laboratory section times:
MODULE
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DATE
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LECTURER
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LABORATORY EXPERIMENTS
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ASSIGNMENTS
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T/W Feb 16/17
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NLL Slides
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Orientation and laboratory tour T/R prelab W/F prelab
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M1D1
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R/F Feb 18/19
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LM Slides
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Generate scFv library T/R prelab W/F prelab
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Orientation quiz Homework due
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M1D2
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T/W Feb 23/24
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LM Slides
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Enrich candidate clones from library using FACS T/R prelab W/F prelab
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Homework due
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M1D3
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R/F Feb 25/26
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LM Slides
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Harvest clone plasmids from library T/R prelab W/F prelab
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Homework due
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M1D4
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T/W Mar 2/3
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LM Slides
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Purify and sequence clone plasmids T/R prelab W/F prelab
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Laboratory quiz Homework due
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M1D5
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R/F Mar 4/5
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LM Slides
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Analyze clone sequences and choose clone to characterize T/R prelab W/F prelab
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Homework due
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T/W Mar 9/10
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Student holiday
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M1D6
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R/F Mar 11/12
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LM Slides
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Characterize clone ligand binding using flow cytometry T/R prelab W/F prelab
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Homework due
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M1D7
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T/W Mar 16/17
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Guest, SC Slides
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Analyze ligand titration curves T/R prelab W/F prelab
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Laboratory quiz Homework due
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M2D1
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R/F Mar 18/19
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AK Slides
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Perform protein purification protocol T/R prelab
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Homework due
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T/W Mar 23/24
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Student holiday
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Data Summary draft due Wed, Mar 24 at 10 pm
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M2D2
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R/F Mar 25/26
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AK
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Assess purity and concentration of purified protein
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Homework due Mini-presentation due Sun, Mar 28 at 10 pm Blog post due Mon, Mar 29 at 10 pm
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M2D3
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T/W Mar 30/31
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AK
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Prepare and scan small molecule microarray (SMM) slides
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Homework due
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M2D4
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R/F Apr 1/2
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AK
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Analyze SMM data to identify putative small molecule binders
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Laboratory quiz Homework due Data Summary revision due Sun, Apr 4 at 10 pm
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T/W Apr 6/7
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Journal club presentations
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R/F Apr 8/9
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Journal club presentations
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Blog post due Sat, Apr 10 at 10 pm
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M2D5
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T/W Apr 13/14
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AK
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Learn best practices for mammalian cell culture
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Homework due
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M2D6
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R/F Apr 15/16
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AK
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Utilize cellular thermal shift assay (CETSA) to test putative small molecule binders
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Homework due
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T/W Apr 20/21
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Student holiday
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M2D7
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R/F Apr 22/23
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AK
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Complete CETSA experiment and analyze data
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Laboratory quiz Homework due
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M3D1
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T/W Apr 27/28
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AJ
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Review inverse pericam (IPC) cloning strategy
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Homework due
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M3D2
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R/F Apr 29/30
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AJ
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Examine IPC mutations
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Homework due Research article due Sun, May 2 at 10 pm Blog post due Mon, May 3 at 10 pm
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M3D3
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T/W May 4/5
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AJ
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Prepare expression system and purify IPC variants
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Laboratory quiz Homework due
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R/F May 6/7
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Research proposal pitches
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Develop Research proposal ideas and presentations
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M3D4
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T/W May 11/12
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AJ
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Evaluate effect of mutations on IPC variants
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Homework due
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M3D5
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R/F May 13/14
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AJ
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Design new IPC variant
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Laboratory quiz Homework due
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T/W May 18/19
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Research proposal presentations
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Blog post due Thu, May 20 at 10 pm
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R May 20
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Feedback session
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Mini-report due Mon, May 24 at 10 pm
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