Difference between revisions of "20.109(S18): Spring 2018 schedule"

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| 5
 
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| T/W Feb 27/28  
 
| T/W Feb 27/28  
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| [http://koehler-lab.mit.edu/group/people SD]<br>
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| [http://be.mit.edu/directory/angela-koehler AK]<br>
 
| [[20.109(S18):SECONDARY ASSAY D1 (Day5) |SECONDARY ASSAY D1]]<br>
 
| [[20.109(S18):SECONDARY ASSAY D1 (Day5) |SECONDARY ASSAY D1]]<br>
 
| <font color=#FE2E2E>'''Laboratory quiz'''</font color> <br> [[20.109(S18):Homework#Due_M1D5| Homework due]]
 
| <font color=#FE2E2E>'''Laboratory quiz'''</font color> <br> [[20.109(S18):Homework#Due_M1D5| Homework due]]
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| R/F Mar 8/9
 
| R/F Mar 8/9
 
| [http://be.mit.edu/directory/noreen-lyell NLL]<br>
 
| [http://be.mit.edu/directory/noreen-lyell NLL]<br>
−
| [[20.109(S18):Confirm cell lines and practice tissue culture techniques (Day1)| Confirm cell lines and practice tissue culture techniques]]<br>[[Media:Sp17_M2D1_170309_marked.pdf| Prelab T/R]]<br>[[Media:Sp17_M2D1_LMM_1.pdf| Prelab W/F]]
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| [[20.109(S18):Practice tissue culture techniques and seed cells for RNA purification (Day1)| Practice tissue culture techniques and seed cells for RNA purification]]<br>
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| [[20.109(S17):Homework#Due_M2D1| Homework due]]
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| [[20.109(S18):Homework#Due_M2D1| Homework due]]
 
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| 2
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| T/W Mar 14/15
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| T/W Mar 13/14
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| [http://be.mit.edu/directory/leona-d-samson LS]<br>Snow day
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| [http://be.mit.edu/directory/noreen-lyell NLL]<br>
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| [[20.109(S17):Prepare Western blot and induce DNA damage for quantitative PCR assay (Day2)| Prepare Western blot and induce DNA damage for quantitative PCR assay]]<br>[[Media:Sp17_M2D2_170314_marked.pdf| Prelab T/R]]<br>[[Media:Sp17_M2D2_LMM_1.pdf| Prelab W/F]]
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| [[20.109(S18):Induce DNA damage and apply drug treatments for RNA purification (Day2)| Induce DNA damage and apply drug treatments for RNA purification]]<br>
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| <font color=#04B45F>'''Laboratory quiz'''</font color> <br> [[20.109(S17):Homework#Due_M2D2| Homework due]]<br> [[20.109(S17): M1 Data Summary| Data Summary draft due]] Mon, Mar 13 at 10 pm
+
| <font color=#FE2E2E>'''Laboratory quiz'''</font color> <br> [[20.109(S18):Homework#Due_M2D2| Homework due]]<br> [[20.109(S18): M1 Data Summary| Data Summary draft due]] DATE at 10 pm
 
|--
 
|--
 
| 2
 
| 2
 
| 3
 
| 3
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| R/F Mar 16/17
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| R/F Mar 15/16
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| [http://be.mit.edu/directory/leona-d-samson LS] <br> [[Media:FINAL 20.109 Spring 2017 Lectures 2 and 3 (snow day).pdf| M2L2 & L3]]
+
| [http://be.mit.edu/directory/ernest-fraenkel EF] <br>  
−
| [[20.109(S17):Purify RNA for quantitative PCR assay and treat cells for survival assay (Day3)| Purify RNA for quantitative PCR assay and treat cells for viability assay]]<br>[[Media:Sp17_M2D3_170316_marked.pdf| Prelab T/R]]<br>[[Media:Sp17_M2D3_LMM_1.pdf| Prelab W/F]]
+
| [[20.109(S18):Purify RNA and practice RNA-seq data analysis methods (Day3)| Purify RNA and practice RNA-seq data analysis methods]]<br>
−
| [[20.109(S17):Homework#Due_M2D3| Homework due]] <br> [[20.109(S17): M1 Mini-presentation| Mini presentation due]] Sat, Mar 18 at 10 pm
+
| [[20.109(S18):Homework#Due_M2D3| Homework due]] <br> [[20.109(S18): M1 Mini-presentation| Mini presentation due]] DATE at 10 pm
 
|--
 
|--
 
| 2
 
| 2
 
| 4
 
| 4
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| T/W Mar 21/22
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| T/W Mar 20/21
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| [http://be.mit.edu/directory/leona-d-samson LS]<br> [[Media:Sp17 M2L4.pdf| M2L4]]
+
| [http://be.mit.edu/directory/ernest-fraenkel EF]<br>  
−
| [[20.109(S17):Complete cell survival assay and examine transcript levels in response to DNA damage (Day 4)| Complete cell viability assay and examine transcript levels in response to DNA damage]]<br>[[Media:Sp17_M2D4_170320_marked.pdf| Prelab T/R]]<br>[[Media:Sp17_M2D4_LMM_1.pdf| Prelab W/F]]
+
| [[20.109(S18):Analyze RNA-seq data and prepare for quantitative PCR experiment (Day 4)| Analyze RNA-seq data and prepare for quantitative PCR experiment]]<br>
−
| <font color=#04B45F>'''Laboratory quiz'''</font color> <br> [[20.109(S17):Homework#Due_M2D4| Homework due]]
+
| <font color=#FE2E2E>'''Laboratory quiz'''</font color> <br> [[20.109(S18):Homework#Due_M2D4| Homework due]]
 
|--
 
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| 2
 
| 2
 
| 5
 
| 5
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| R/F Mar 23/24
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| R/F Mar 22/23
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| DC
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| [http://be.mit.edu/directory/ernest-fraenkel EF]<br>
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| [[20.109(S17):Journal Club I (Day5) | Journal club I]]
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| [[20.109(S18):ANALYZE RNA SEQ DATA (Day5) | ANALYZE RNA SEQ DATA]]
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|
+
| [[20.109(S18):Homework#Due_M2D5| Homework due]]
 
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|  
 
|  
 
|  
 
|  
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| <font color = 999999>T/W Mar 28/29</font color>
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| <font color = 999999>T/W Mar 27/28</font color>
 
|   
 
|   
 
| <font color = 999999>Spring vacation</font color>
 
| <font color = 999999>Spring vacation</font color>
−
| [[20.109(S17): M1 Data Summary| Data Summary revision due]] Mon, Mar 27 at 10 pm
+
| [[20.109(S18): M1 Data Summary| Data Summary revision due]] DATE at 10 pm
 
|--
 
|--
 
|  
 
|  
 
|  
 
|  
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| <font color = 999999>R/F Mar 30/31</font color>
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| <font color = 999999>R/F Mar 29/30</font color>
 
|   
 
|   
 
| <font color = 999999>Spring vacation</font color>
 
| <font color = 999999>Spring vacation</font color>
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| 6
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| T/W Apr 4/5
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| T/W Apr 3/4
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| [http://be.mit.edu/directory/ernest-fraenkel EF]<br>[[Media:170404 Fraenkel Lecture 1.pdf| M2L6]]
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| Comm Lab<br>
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| [[20.109(S17):Practice data analysis methods (Day6)| Practice data analysis methods]]<br>[[Media:Sp17_M2D6_170404_marked.pdf| Prelab T/R]]<br>[[Media:Sp17_M2D6_LMM_1.pdf| Prelab W/F]]
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| [[20.109(S18):Journal club (Day6 and 7)| Journal club I]]<br>
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| [http://be20109s17.blogspot.com/ Blog post due] Mon, Apr 3 at 10 pm <br> [[20.109(S17):Homework#Due_M2D6| Homework due]]
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| [http://be20109s17.blogspot.com/ Blog post due] DATE at 10 pm <br>  
 
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| 7
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| R/F Apr 6/7
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| R/F Apr 5/6
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| [http://be.mit.edu/directory/ernest-fraenkel EF]<br>[[Media:170406 Fraenkel Lecture 2.pdf| M2L7]]
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| [http://be.mit.edu/directory/noreen-lyell NLL]<br>
−
| [[20.109(S17):Analyze RNA-seq data (Day7) | Analyze RNA-seq data]]<br>[[Media:Sp17_M2D7_170406_marked.pdf| Prelab T/R]]<br>[[Media:Sp17_M2D7_LMM_1.pdf| Prelab W/F]]
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| [[20.109(S18):Journal club (Day6 and 7)| Journal club II]]<br>
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| [[20.109(S17):Homework#Due_M2D7| Homework due]]
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|  
 
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| 2
 
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| 8
 
| 8
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| T/W Apr 11/12
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| T/W Apr 10/11
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| [http://be.mit.edu/directory/leona-d-samson LS] <br> [[Media:THE FINAL 20.109 Spring 2017 Lecture 5.pptx| M2L8]]
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| [http://be.mit.edu/directory/ernest-fraenkel EF]<br>  
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| [[20.109(S17):Journal Club II (Day8)| Journal club II]]
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| [[20.109(S18):Induce DNA damage and apply drug treatments for cell viability and RNA_SEQ DATA ANALYSIS (Day8)| Journal club II]]
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|
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| [[20.109(S18):Homework#Due_M2D8| Homework due]]
 
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| 9
 
| 9
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| R/F Apr 13/14
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| R/F Apr 12/13
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| [http://be.mit.edu/directory/noreen-lyell NLL]<br>[[Media:Sp17 M2D9 lecture slides.pdf| M2L9]]
+
| [http://be.mit.edu/directory/ernest-fraenkel EF]<br>
−
| [[20.109(S17):Examine quantitative PCR results (Day9)| Examine quantitative PCR results]]<br>[[Media:Sp17_M2D9_170413_marked.pdf| Prelab T/R]]<br>[[Media:Sp17_M2D9_LMM_1.pdf| Prelab W/F]]
+
| [[20.109(S17):Complete cell viability assay (Day9)| Complete cell viability assay]]<br>
−
| <font color=#04B45F>'''Laboratory quiz'''</font color> <br> [[20.109(S17):Homework#Due_M2D9| Homework due]] <br> [http://be20109s17.blogspot.com/ Blog post due] Sat, Apr 15 at 10 pm
+
| <font color=#FE2E2E>'''Laboratory quiz'''</font color> <br> [[20.109(S18):Homework#Due_M2D9| Homework due]] <br> [http://be20109s17.blogspot.com/ Blog post due] DATE at 10 pm
 
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| colspan="7" |
 
| colspan="7" |

Revision as of 14:53, 4 January 2018

20.109(S18): Laboratory Fundamentals of Biological Engineering

Sp18 banner image v2.png

Spring 2018 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 -- ones that will increase the likelihood of success in your work and ensure the health and safety of you and those around you. By the end of the semester, you should also be aware of good scientific practice, having had some experience with scientific writing, notebook keeping, and orally presenting data and your 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: T/R 11-12 (16-220)
Laboratory sections: T/R 1-5 or W/F 1-5 (56-322)

MODULE DAY DATE LECTURER LABORATORY EXPERIMENTS ASSIGNMENTS
T/W Feb 6/7 NLL
 Orientation
1 1 R/F Feb 8/9 AK
 In silico cloning and confirmation digest
 Orientation quiz
Homework due
1 2 T/W Feb 13/14 AK
 Complete small microarry analysis and induce protein expression
 Homework due
1 3 R/F Feb 15/16 AK
 Purify protein
 Laboratory quiz
Homework due
T/W Feb 20/21 President's day holiday
1 4 R/F Feb 22/23 AK
 Assess protein purity and concentration
 Homework due
1 5 T/W Feb 27/28 AK
 SECONDARY ASSAY D1
 Laboratory quiz
Homework due
1 6 R/F Mar 1/2 AK
 SECONDARY ASSAY D2
 Homework due
1 7 T/W Mar 6/7 AK
 Complete data analysis
 Laboratory quiz
Homework due
2 1 R/F Mar 8/9 NLL
 Practice tissue culture techniques and seed cells for RNA purification
 Homework due
2 2 T/W Mar 13/14 NLL
 Induce DNA damage and apply drug treatments for RNA purification
 Laboratory quiz
Homework due
Data Summary draft due DATE at 10 pm
2 3 R/F Mar 15/16 EF
Purify RNA and practice RNA-seq data analysis methods
 Homework due
Mini presentation due DATE at 10 pm
2 4 T/W Mar 20/21 EF
 Analyze RNA-seq data and prepare for quantitative PCR experiment
 Laboratory quiz
Homework due
2 5 R/F Mar 22/23 EF
 ANALYZE RNA SEQ DATA Homework due
T/W Mar 27/28 Spring vacation Data Summary revision due DATE at 10 pm
R/F Mar 29/30 Spring vacation
2 6 T/W Apr 3/4 Comm Lab
 Journal club I
 Blog post due DATE at 10 pm
2 7 R/F Apr 5/6 NLL
 Journal club II
2 8 T/W Apr 10/11 EF
 Journal club II Homework due
2 9 R/F Apr 12/13 EF
 Complete cell viability assay
 Laboratory quiz
Homework due
Blog post due DATE at 10 pm
T/W Apr 18/19 Patriots' day holiday
3 1 R/F Apr 20/21 AB
M3L1 		Grow phage active material
Prelab T/R
Prelab W/F 		Homework due
Research article due April 22 at 10 pm
Blog post due Sun, Apr 23 at 10 pm
3 2 T/W Apr 25/26 AB
M3L2 		Purify phage active material
Prelab T/R
Prelab W/F 		Laboratory quiz
Homework due
3 3 R/F Apr 27/28 AB
 Construct cathode with phage active material
Prelab T/R
Prelab W/F 		Homework due
3 T/W May 2/3 Lecture, but no laboratory
3 4 R/F May 4/5 AB Visualize phage nanowires using TEM
Prelab T/R
Prelab W/F 		Homework due
3 5 T/W May 9/10 AB Assemble and test battery
Prelab T/R
Prelab W/F 		Laboratory quiz
Homework due
R/F May 11/12 no lecture Research proposal presentations Blog post due Thu/Fri, May 11/12 at 10 pm
T/W May 16/17 Open office hours Mini report due Tue/Wed, May 16/17 at 10 pm
R May 18 Feedback and celebratory lunch
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