20.109(F18): 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 time enough 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: T/R 11 - 12 pm (16-220)
Laboratory section times: T/R 1 - 5 pm or W/F 1 - 5 pm (56-322)
MODULE
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DAY
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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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|
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R/F Sept 6/7
|
NLL Orientation lecture
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Orientation Prelab T/R Prelab W/F
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|
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1
|
1
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T/W Sept 11/12
|
BE
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Practice tissue culture and prepare microwell array Prelab T/R Prelab W/F
|
Laboratory orientation quiz Homework due
|
1
|
2
|
R/F Sept 13/14
|
BE
|
Design cell loading optimization experiment and research cell lines
|
Homework due
|
1
|
3
|
T/W Sept 18/19
|
BE
|
Prepare and treat cells for genomic instability experiment
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Homework due
|
|
|
R/F Sept 20/21
|
BE
|
Lecture, but no laboratory Career fair student holiday
|
|
1
|
4
|
T/W Sept 25/26
|
Comm Lab
|
Complete genomic instability experiment and load cells for sub-nuclear foci assay
|
Laboratory quiz Homework due
|
1
|
5
|
R/F Sept 27/28
|
BE
|
Analyze instability experiment data and treat cells for sub-nuclear foci assay
|
Homework due
|
1
|
6
|
T/W Oct 2/3
|
BE
|
Complete sub-nuclear foci assay
|
Homework due
|
1
|
7
|
R/F Oct 4/5
|
BE
|
Practice statistical analysis methods and complete data analysis
|
Laboratory quiz Homework due
|
|
|
T/W Oct 9/10
|
|
Columbus day holiday
|
Data Summary draft due Mon, Oct 8 at 10 pm Blog post due Tue, Oct 9 at 10 pm
|
|
2
|
1
|
R/F Oct 11/12
|
NLL
|
Complete in silico cloning
|
Homework due Mini-presentation due Sat, Oct 13 at 10 pm
|
2
|
2
|
T/W Oct 16/17
|
NLL
|
Design gRNA for CRISPRi
|
Homework due
|
2
|
3
|
R/F Oct 18/19
|
NLL
|
Generate gRNA plasmid
|
Homework due Data Summary revision due Sat, Oct 20 at 10 pm
|
2
|
4
|
T/W Oct 23/24
|
NLL
|
Journal club I
|
|
2
|
5
|
R/F Oct 25/26
|
NLL
|
Confirm gRNA sequence
|
Laboratory quiz Homework due
|
2
|
6
|
T/W Oct 30/31
|
NLL
|
Journal club II
|
|
2
|
7
|
R/F Nov 1/2
|
NLL
|
Induce CRISPRi system
|
Homework due Blog post due Fri, Nov 2 at 10 pm
|
2
|
8
|
T/W Nov 6/7
|
NLL
|
Measure fermentation products
|
Laboratory quiz Homework due
|
3
|
1
|
R/F Nov 8/9
|
AB
|
Grow phage-based active (cathode) material
|
Homework due
|
|
|
T/W Nov 13/14
|
|
Veterans' day holiday
|
Research article due Mon, Nov 12 at 10 pm Blog post due Tue, Nov 13 at 10 pm
|
3
|
2
|
R/F Nov 15/16
|
AB
|
Purify phage-based active (cathode) material
|
Homework due
|
|
|
T/W Nov 20/21
|
AB
|
Lecture, but no laboratory
|
|
|
|
R/F Nov 22/23
|
|
Thanksgiving holiday
|
|
3
|
3
|
T/W Nov 27/28
|
AB
|
Construct cathode with phage-based active material
|
Laboratory quiz Homework due
|
3
|
4
|
R/F Nov/Dec 29/30
|
AB
|
Visualize phage nanowires using transmission electron microscopy
|
Homework due
|
3
|
5
|
T/W Dec 4/5
|
AB
|
Assemble and test batteries
|
Laboratory quiz Homework due
|
|
|
R/F Dec 6/7
|
|
Research proposal presentations
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Research proposal presentation due Thu/Fri, Dec 6/7 at 1 pm Blog post due Sat, Dec 8 at 10 pm
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|
|
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T Dec 11
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|
Feedback and celebratory lunch
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Mini-report due Mon, Dec 10 at 10 pm
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