20.109(S19): Spring 2019 schedule

From Course Wiki
Revision as of 19:16, 8 May 2019 by Noreen Lyell (Talk | contribs)

(diff) ← Older revision | Latest revision (diff) | Newer revision → (diff)
Jump to: navigation, search
20.109(S19): Laboratory Fundamentals of Biological Engineering

Sp19 banner image v2.png

Spring 2019 schedule        FYI        Assignments        Homework        Class data        Communication
       1. Assessing ligand binding        2. Measuring gene expression        3. Engineering biomaterials              


Welcome to 20.109! It is our goal to make this class a useful and fun introduction to experiments and techniques 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 (32-124)
Laboratory section times: T/R 1 - 5 pm or W/F 1 - 5 pm (56-322)

MODULE DAY DATE LECTURER LABORATORY EXPERIMENTS ASSIGNMENTS
T/W Feb 5/6 NLL
Orientation lecture slides
Orientation and laboratory tour
Prelab T/R
Prelab W/F
1 1 R/F Feb 7/8 AK
M1D1 lecture slides
In silico cloning and confirmation digest of protein expression vector
Prelab T/R
Prelab W/F
Orientation quiz
Homework due
1 2 T/W Feb 12/13 AK
M1D2 lecture slides
Purify protein for secondary assays
Prelab T/R
Prelab W/F
Homework due
1 3 R/F Feb 14/15 AK
M1D3 lecture slides
Analyze small molecule microarray (SMM) data
Prelab T/R
Prelab W/F
Homework due
T/W Feb 19/20 President's day holiday
1 4 R/F Feb 21/22 AK
M1D4 lecture slides
Evaluate protein purity and concentration
Prelab T/R
Prelab W/F
Laboratory quiz
Homework due
1 5 T/W Feb 26/27 AK
M1D5 lecture slides
Test protein activity using peptidyl-prolyl cis-trans isomerase assay
Prelab T/R
Prelab W/F
Homework due
1 6 R/F Feb/Mar 28/1 AK
M1D6 lecture slides
Confirm ligand binding using differential scanning fluorimetry assay
Prelab T/R
Prelab W/F
Homework due
1 7 T/W Mar 5/6 AK
M1D7 lecture slides
Complete data analysis
Prelab T/R
Prelab W/F
Laboratory quiz
Homework due
2 1 R/F Mar 7/8 NLL
M2D1 lecture slides
Practice tissue culture techniques and prepare cells for RNA purification
Prelab T/R
Prelab W/F
Homework due
2 2 T/W Mar 12/13 NLL
M2D2 lecture slides
Etoposide treat cells for RNA purification
Prelab T/R
Prelab W/F
Homework due
Data summary draft due Mon, Mar 11 at 10 pm
2 3 R/F Mar 14/15 EF
M2D3 lecture slides
Purify RNA and practice RNA-seq data analysis methods
Prelab T/R
Prelab W/F
Homework due
Mini-presentation due Sat, Mar 16 at 10 pm
Blog post due Sun, Mar 17 at 10 pm
2 4 T/W Mar 19/20 EF
M2D4 lecture slides
Analyze RNA-seq data and prepare for quantitative PCR experiment
Prelab T/R
Prelab W/F
Laboratory quiz
Homework due
2 5 R/F Mar 21/22 NLL
M2D5 lecture slides
Perform quantitative PCR experiment and explore additional RNA-seq datasets
Prelab T/R
Prelab W/F
Homework due
T/W Mar 26/27 Spring vacation Data summary revision due Mon, Mar 25 at 10 pm
R/F Mar 28/29 Spring vacation
2 6 T/W Apr 2/3 EF
M2D6 lecture slides
Design cell viability experiment and complete RNA-seq data analysis
Prelab T/R
Prelab W/F
Homework due
2 7 R/F Apr 4/5 Comm Lab
Journal club I presentations
Blog post due Sat, Apr 6 at 10 pm
2 8 T/W Apr 9/10 EF
Journal club II presentations
2 9 R/F Apr 11/12 EF
Complete data analysis
Prelab T/R
Prelab W/F
Laboratory quiz
Homework due
T/W Apr 16/17 Patriots' day holiday
3 1 R/F Apr 18/19 AB
M3D1 lecture slides
Grow phage-based active (cathode) material
Prelab T/R
Prelab W/F
Homework due
Research article due Sat, Apr 20 at 10 pm
Blog post due Sun, Apr 21 at 10 pm
3 2 T/W Apr 23/24 AB
M3D2 lecture slides
Purify phage-based active (cathode) material
Prelab T/R
Prelab W/F
Homework due
3 R/F Apr 25/26 Lecture, but no laboratory
3 3 T/W Apr/May 30/1 AB
Construct cathode with phage-based active material
Prelab T/R
Prelab W/F
Laboratory quiz
Homework due
3 4 R/F May 2/3 AB
M3D4 lecture slides
Visualize phage nanowires using transmission electron microscopy
Prelab T/R
Prelab W/F
Homework due
3 5 T/W May 7/8 AB Assemble and test batteries
Prelab T/R
Prelab W/F
Laboratory quiz
Homework due
R/F May 9/10 Research proposal presentations Blog post due Sat, May 11 at 10 pm
T May 14 Feedback and celebratory lunch Mini-report due Mon, May 13 at 10 pm