Difference between revisions of "20.109(S20): Spring 2020 schedule"

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| [http://be.mit.edu/directory/ernest-fraenkel EF]<br>
 
| [http://be.mit.edu/directory/ernest-fraenkel EF]<br>
 
| [[20.109(S20):Treat cells with etoposide and analyze RNA-seq data (Day2)| Treat cells with etoposide and analyze RNA-seq data]]<br>
 
| [[20.109(S20):Treat cells with etoposide and analyze RNA-seq data (Day2)| Treat cells with etoposide and analyze RNA-seq data]]<br>
| [[20.109(S20):Homework#Due_M2D2| Homework due]]<br> [[20.109(S20): Data Summary| <font color=#B40404>'''Data summary draft due'''</font color>]] Mon, Mar 11 at 10 pm<br>
+
| [[20.109(S20):Homework#Due_M2D2| Homework due]]<br> [[20.109(S20): Data Summary| <font color=#B40404>'''Data summary draft due'''</font color>]] Sun, Mar 8 at 10 pm<br>
 
|--
 
|--
 
| 2
 
| 2
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| [http://be.mit.edu/directory/ernest-fraenkel EF] <br>  
 
| [http://be.mit.edu/directory/ernest-fraenkel EF] <br>  
 
| [[20.109(S20):Purify RNA from etoposide-treated cells and and generate cDNA (Day3)| Purify RNA from etoposide-treated cells and generate cDNA]]<br>
 
| [[20.109(S20):Purify RNA from etoposide-treated cells and and generate cDNA (Day3)| Purify RNA from etoposide-treated cells and generate cDNA]]<br>
| [[20.109(S20):Homework#Due_M2D3| Homework due]] <br> [[20.109(S20): Mini-presentation| <font color=#B40404>'''Mini-presentation due'''</font color>]] Sat, Mar 16 at 10 pm<br>[https:// Blog post due] Sun, Mar 17 at 10 pm <br>
+
| [[20.109(S20):Homework#Due_M2D3| Homework due]] <br> [[20.109(S20): Mini-presentation| <font color=#B40404>'''Mini-presentation due'''</font color>]] Sun, Mar 15 at 10 pm<br>[https:// Blog post due] Mon, Mar 16 at 10 pm <br>
 
|--
 
|--
 
| 2
 
| 2
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|   
 
|   
 
| <font color = #FACC2E>'''Spring vacation'''</font color>
 
| <font color = #FACC2E>'''Spring vacation'''</font color>
| [[20.109(S20): Data Summary| <font color=#B40404>'''Data summary revision due'''</font color>]] Mon, Mar 25 at 10 pm
+
| [[20.109(S20): Data Summary| <font color=#B40404>'''Data summary revision due'''</font color>]] Sun, Mar 22 at 10 pm
 
|--
 
|--
 
|  
 
|  
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| [http://be.mit.edu/directory/noreen-lyell NLL]<br>
 
| [http://be.mit.edu/directory/noreen-lyell NLL]<br>
 
| [[20.109(S20):Examine qPCR results and complete data analysis (Day8) | Examine qPCR results and complete data analysis]]
 
| [[20.109(S20):Examine qPCR results and complete data analysis (Day8) | Examine qPCR results and complete data analysis]]
| [[20.109(S20):Homework#Due_M2D8| Homework due]]
+
| <font color= #01A9DB>'''Laboratory quiz'''</font color> <br> [[20.109(S20):Homework#Due_M2D8| Homework due]]
 
|--
 
|--
 
| colspan="7" |
 
| colspan="7" |
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| [http://be.mit.edu/directory/leslie-mcclain LM]<br>
 
| [http://be.mit.edu/directory/leslie-mcclain LM]<br>
 
| [[20.109(S20):Complete data analysis (Day9)| Complete data analysis]]<br>
 
| [[20.109(S20):Complete data analysis (Day9)| Complete data analysis]]<br>
| <font color= #01A9DB>'''Laboratory quiz'''</font color> <br> [[20.109(S20):Homework#Due_M2D9| Homework due]] <br>  
+
| [[20.109(S20):Homework#Due_M3D1| Homework due]] <br>  
 
|--
 
|--
 
| 3
 
| 3
 
| 2
 
| 2
| R/F Apr 14/15  
+
| T/W Apr 14/15  
 
| Comm Lab<br>
 
| Comm Lab<br>
 
| [[20.109(S20):Growth of phage-based active (cathode) material (Day1) | Grow phage-based active (cathode) material]]<br>
 
| [[20.109(S20):Growth of phage-based active (cathode) material (Day1) | Grow phage-based active (cathode) material]]<br>
| [[20.109(S20):Homework#Due_M3D1| Homework due]] <br> [[20.109(S20): Research article| <font color=#B40404>'''Research article due'''</font color>]] Sat, Apr 20 at 10 pm <br> [https:// Blog post due] Sun, Apr 21 at 10 pm
+
| [[20.109(S20):Homework#Due_M3D2| Homework due]] <br>  
 
|--
 
|--
 
| 3
 
| 3
 
| 3
 
| 3
| T/W Apr 16/17
+
| R/F Apr 16/17
 
| [http://be.mit.edu/directory/leslie-mcclain LM]<br>
 
| [http://be.mit.edu/directory/leslie-mcclain LM]<br>
 
| [[20.109(S20):Purify phage-based active (cathode) material (Day2) | Purify phage-based active (cathode) material]]<br>
 
| [[20.109(S20):Purify phage-based active (cathode) material (Day2) | Purify phage-based active (cathode) material]]<br>
| [[20.109(S20):Homework#Due_M3D2| Homework due]]
+
| <font color= #01A9DB>'''Laboratory quiz'''</font color> <br> [[20.109(S20):Homework#Due_M3D3| Homework due]] <br> [[20.109(S20): Research article| <font color=#B40404>'''Research article due'''</font color>]] Sun, Apr 19 at 10 pm <br> [https:// Blog post due] Mon, Apr 20 at 10 pm
 
|--
 
|--
 
|  
 
|  
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| [http://be.mit.edu/directory/leslie-mcclain LM]<br>
 
| [http://be.mit.edu/directory/leslie-mcclain LM]<br>
 
| [[20.109(S20):Construct cathode with phage-based active material (Day3)| Construct cathode with phage-based active material]]<br>
 
| [[20.109(S20):Construct cathode with phage-based active material (Day3)| Construct cathode with phage-based active material]]<br>
| <font color= #01A9DB>'''Laboratory quiz'''</font color> <br> [[20.109(S20):Homework#Due_M3D3| Homework due]]
+
| [[20.109(S20):Homework#Due_M3D3| Homework due]]
 
|--
 
|--
 
|  
 
|  
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|
 
|
 
| [[20.109(S20):Research proposal presentation | Research proposal presentations]]
 
| [[20.109(S20):Research proposal presentation | Research proposal presentations]]
| [https:// Blog post due] Sat, May 11 at 10 pm
+
| [https:// Blog post due] Sat, May 9 at 10 pm
 
|--
 
|--
 
|
 
|
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|  
 
|  
 
| <font color = #FACC2E>'''Feedback and celebratory lunch'''</font color>
 
| <font color = #FACC2E>'''Feedback and celebratory lunch'''</font color>
| [[20.109(S20): Mini-report | <font color=#B40404>'''Mini-report due'''</font color>]] Mon, May 13 at 10 pm <br>
+
| [[20.109(S20): Mini-report | <font color=#B40404>'''Mini-report due'''</font color>]] Tue, May 12 at 10 pm <br>
 
|}
 
|}
 
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Revision as of 20:58, 16 January 2020

20.109(S20): Laboratory Fundamentals of Biological Engineering

Sp20 banner image v2.png

Spring 2020 schedule        FYI        Assignments        Homework        Class data        Communication
       1. Screening ligand binding        2. Measuring gene expression        3. Engineering antibodies              


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 (56-154)
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 4/5 NLL
Orientation and laboratory tour
1 1 R/F Feb 6/7 AK
Complete in silico cloning and induce TDP43 protein expression
Orientation quiz
Homework due
1 2 T/W Feb 11/12 AK
Purify TDP43 protein
Homework due
1 3 R/F Feb 13/14 AK
Assess purity and concentration of TDP43 protein
Homework due
T/W Feb 18/19 President's day holiday
1 4 R/F Feb 20/21 AK
Perform small molecule microarray (SMM) with TDP43 protein
Laboratory quiz
Homework due
1 5 T/W Feb 25/26 AK
Scan SMM slides to identify binders of TDP43 protein
Homework due
1 6 R/F Feb 27/28 AK
Analyze SMM data
Homework due
1 7 T/W Mar 3/4 AK
Examine TDP43 binders for chemical features
Laboratory quiz
Homework due
2 1 R/F Mar 5/6 NLL
Prepare cells for RNA purification and practice RNA-seq data analysis methods
Homework due
2 2 T/W Mar 10/11 EF
Treat cells with etoposide and analyze RNA-seq data
Homework due
Data summary draft due Sun, Mar 8 at 10 pm
2 3 R/F Mar 12/13 EF
Purify RNA from etoposide-treated cells and generate cDNA
Homework due
Mini-presentation due Sun, Mar 15 at 10 pm
[https:// Blog post due] Mon, Mar 16 at 10 pm
2 4 T/W Mar 17/18 EF
Journal club I presentations
2 5 R/F Mar 19/20 EF
Journal club II presentations
T/W Mar 24/25 Spring vacation Data summary revision due Sun, Mar 22 at 10 pm
R/F Mar 26/27 Spring vacation
2 6 T/W Mar/Apr 31/1 EF
Analyze RNA-seq data and select gene targets for quantitative PCR experiment
Laboratory quiz
Homework due
2 7 R/F Apr 2/3 EF
Perform qPCR experiment and continue RNA-seq data analysis
Homework due
2 8 T/W Apr 7/8 NLL
Examine qPCR results and complete data analysis Laboratory quiz
Homework due
3 1 R/F Apr 9/10 LM
Complete data analysis
Homework due
3 2 T/W Apr 14/15 Comm Lab
Grow phage-based active (cathode) material
Homework due
3 3 R/F Apr 16/17 LM
Purify phage-based active (cathode) material
Laboratory quiz
Homework due
Research article due Sun, Apr 19 at 10 pm
[https:// Blog post due] Mon, Apr 20 at 10 pm
T/W Apr 21/22 Patriots' day holiday
3 4 T/W Apr 23/24 LM
Construct cathode with phage-based active material
Homework due
T/W Apr 28/29 Research proposal pitches in lecture, no laboratory
3 5 R/F Apr/May 30/1 LM
Visualize phage nanowires using transmission electron microscopy
Homework due
3 6 T/W May 5/6 LM Assemble and test batteries
Laboratory quiz
Homework due
R/F May 7/8 Research proposal presentations [https:// Blog post due] Sat, May 9 at 10 pm
T May 12 Feedback and celebratory lunch Mini-report due Tue, May 12 at 10 pm