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

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'''Schedule details:'''<br>
 
'''Schedule details:'''<br>
'''Lecture:'''  T/R 11-12 (4-149)  <br>
+
'''Lecture:'''  T/R 11-12 (16-220)  <br>
 
'''Laboratory sections:'''      T/R 1-5 or W/F 1-5 (56-322)<br>
 
'''Laboratory sections:'''      T/R 1-5 or W/F 1-5 (56-322)<br>
  
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|  
 
|  
 
|  
 
|  
| T/W Feb 7/8  
+
| T/W Feb 6/7  
| [http://be.mit.edu/directory/noreen-lyell NLL]<br> [[Media:Sp17 Orientation lecture.pdf| Orientation lecture]]
+
| [http://be.mit.edu/directory/noreen-lyell NLL]<br>
| [[20.109(S17):Lab tour | Orientation]]<br>[[Media:Sp17_M0D0_170207_marked.pdf| Prelab T/R]]<br>[[Media:Sp17_M0D0_LMM_1.pdf| Prelab W/F]]
+
| [[20.109(S18):Lab tour | Orientation]]<br>
 
|
 
|
 
|--
 
|--
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| 1
 
| 1
 
| 1
 
| 1
| R/F Feb 9/10
+
| R/F Feb 8/9
| [http://be.mit.edu/directory/angela-koehler AK]<br>Snow day
+
| [http://be.mit.edu/directory/angela-koehler AK]<br>
| [[20.109(S17):In silico cloning and induction of protein expression (Day1) |In silico cloning and induce protein expression]]<br>[[Media:SP17_M1D1_170209_marked.pdf| Prelab T/R]]<br>[[Media:M1D1_Sp17_LMM_1.pdf| Prelab W/F]]
+
| [[20.109(S18):In silico cloning and confirmation digest (Day1) |In silico cloning and confirmation digest]]<br>
| <font color=#04B45F>'''Orientation quiz'''</font color> <br> [[20.109(S17):Homework#Due_M1D1| Homework due]]
+
| <font color=#FE2E2E>'''Orientation quiz'''</font color> <br> [[20.109(S18):Homework#Due_M1D1| Homework due]]
 
|--
 
|--
 
| 1
 
| 1
 
| 2
 
| 2
| T/W Feb 14/15    
+
| T/W Feb 13/14    
| [http://be.mit.edu/directory/angela-koehler AK]<br>[[Media:20109 M1L1.pdf | M1L1]] 
+
| [http://be.mit.edu/directory/angela-koehler AK]<br>
| [[20.109(S17):Purification of induced protein (Day2) |Purify induced protein]]<br>[[Media:Sp17_M1D2_170214_marked.pdf| Prelab T/R]]<br>[[Media:SP17_M1D2_LMM_1.pdf| Prelab W/F]]<br>
+
| [[20.109(S18):Analyze small microarray data and induce protein expression (Day2) |Complete small microarry analysis and induce protein expression]]<br>
| [[20.109(S17):Homework#Due_M1D2| Homework due]]
+
| [[20.109(S18):Homework#Due_M1D2| Homework due]]
 
|--
 
|--
 
| 1
 
| 1
 
| 3
 
| 3
| R/F Feb 16/17  
+
| R/F Feb 15/16  
| [http://be.mit.edu/directory/angela-koehler AK]<br>[[Media:20109 M1L2.pdf | M1L2]]
+
| [http://be.mit.edu/directory/angela-koehler AK]<br>
| [[20.109(S17):Evaluation of purified protein (Day3) |Evaluate purity and concentration of protein]]<br>[[Media:Sp17_M1D3_170216_marked.pdf| Prelab T/R]]<br>[[Media:Sp17_M1D3_LMM_1.pdf| Prelab W/F]]
+
| [[20.109(S18):Purify protein (Day3) |Purify protein]]<br>
| <font color=#04B45F>'''Laboratory quiz'''</font color> <br> [[20.109(S17):Homework#Due_M1D3| Homework due]]
+
| <font color=#FE2E2E>'''Laboratory quiz'''</font color> <br> [[20.109(S18):Homework#Due_M1D3| Homework due]]
 
|--
 
|--
 
|  
 
|  
 
|  
 
|  
| T/W Feb 21/22
+
| T/W Feb 20/21
 
|
 
|
 
| <font color = #999999>President's day holiday</font color>
 
| <font color = #999999>President's day holiday</font color>
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| 1
 
| 1
 
| 4
 
| 4
| R/F Feb 23/24
+
| R/F Feb 22/23
| [http://be.mit.edu/directory/angela-koehler AK]<br>[[Media:20109 M1L3.pdf | M1L3]] 
+
| [http://be.mit.edu/directory/angela-koehler AK]<br>  
| [[20.109(S17):Screen chemical library for FKBP12 binders (Day4) |Screen ligand library for FKBP12 binders]]<br>[[Media:Sp17_M1D4_170223_marked.pdf| Prelab T/R]]<br>[[Media:Sp17_M1D4_LMM_1.pdf| Prelab W/F]]
+
| [[20.109(S18):Assess protein purity and concentration (Day4) |Assess protein purity and concentration]]<br>
| [[20.109(S17):Homework#Due_M1D4| Homework due]]
+
| [[20.109(S18):Homework#Due_M1D4| Homework due]]
 
|--
 
|--
 
| 1
 
| 1
 
| 5
 
| 5
| T/W Feb/Mar 28/1
+
| T/W Feb 27/28  
| [http://koehler-lab.mit.edu/group/people SD]<br>[[Media:20109 M1L4.pdf | M1L4]]
+
| [http://koehler-lab.mit.edu/group/people SD]<br>
| [[20.109(S17):Scan slides to identify FKBP12 binders (Day5) |Scan slides to identify FKBP12 binders]]<br>[[Media:Sp17_M1D5_170228_pptx.pdf| Prelab T/R]]<br>[[Media:Sp17_M1D5_LMM_1.pdf| Prelab W/F]]
+
| [[20.109(S18):SECONDARY ASSAY D1 (Day5) |SECONDARY ASSAY D1]]<br>
| <font color=#04B45F>'''Laboratory quiz'''</font color> <br> [[20.109(S17):Homework#Due_M1D5| Homework due]]
+
| <font color=#FE2E2E>'''Laboratory quiz'''</font color> <br> [[20.109(S18):Homework#Due_M1D5| Homework due]]
 
|--
 
|--
 
| 1
 
| 1
 
| 6
 
| 6
| R/F Mar 2/3
+
| R/F Mar 1/2
| [http://be.mit.edu/directory/angela-koehler AK]<br>[[Media:20109 M1L5.pdf | M1L5]]
+
| [http://be.mit.edu/directory/angela-koehler AK]<br>
| [[20.109(S17):Complete data analysis (Day6) |Complete data analysis]]<br>[[Media:Prelab M1D6.pdf| Prelab T/R]]<br>[[Media:Prelab M1D6.pdf| Prelab W/F]]
+
| [[20.109(S18):SECONDARY ASSAY D2 (Day6) |SECONDARY ASSAY D2]]<br>
| [[20.109(S17):Homework#Due_M1D6| Homework due]]
+
| [[20.109(S18):Homework#Due_M1D6| Homework due]]
 
|--
 
|--
 
| 1
 
| 1
 
| 7
 
| 7
| T/W Mar 7/8
+
| T/W Mar 6/7
| [http://be.mit.edu/directory/angela-koehler AK]<br>[[Media:20109 M1L6.pdf | M1L6]]
+
| [http://be.mit.edu/directory/angela-koehler AK]<br>
| [[20.109(S17):Identify chemical structures common among FKBP12 binders |Identify chemical structures common in FKBP12 binders]]<br>[[Media:Sp17_M1D7_170307_marked.pdf| Prelab T/R]]<br>[[Media:Sp17_M1D7_LMM_1.pdf| Prelab W/F]]
+
| [[20.109(S18):Complete data analysis (Day7) |Complete data analysis]]<br>
| <font color=#04B45F>'''Laboratory quiz'''</font color> <br> [[20.109(S17):Homework#Due_M1D7| Homework due]]
+
| <font color=#FE2E2E>'''Laboratory quiz'''</font color> <br> [[20.109(S18):Homework#Due_M1D7| Homework due]]
 
|--
 
|--
 
| colspan="7" |
 
| colspan="7" |
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| 2
 
| 2
 
| 1
 
| 1
| R/F Mar 9/10
+
| R/F Mar 8/9
| [http://be.mit.edu/directory/leona-d-samson LS]<br>[[Media:20109 M2L1.pdf | M2L1]] 
+
| [http://be.mit.edu/directory/noreen-lyell NLL]<br>
| [[20.109(S17):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]]
+
| [[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]]
 
| [[20.109(S17):Homework#Due_M2D1| Homework due]]
 
| [[20.109(S17):Homework#Due_M2D1| Homework due]]
 
|--
 
|--

Revision as of 14:31, 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 SD
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
Confirm cell lines and practice tissue culture techniques
Prelab T/R
Prelab W/F
Homework due
2 2 T/W Mar 14/15 LS
Snow day
Prepare Western blot and induce DNA damage for quantitative PCR assay
Prelab T/R
Prelab W/F
Laboratory quiz
Homework due
Data Summary draft due Mon, Mar 13 at 10 pm
2 3 R/F Mar 16/17 LS
M2L2 & L3
Purify RNA for quantitative PCR assay and treat cells for viability assay
Prelab T/R
Prelab W/F
Homework due
Mini presentation due Sat, Mar 18 at 10 pm
2 4 T/W Mar 21/22 LS
M2L4
Complete cell viability assay and examine transcript levels in response to DNA damage
Prelab T/R
Prelab W/F
Laboratory quiz
Homework due
2 5 R/F Mar 23/24 DC Journal club I
T/W Mar 28/29 Spring vacation Data Summary revision due Mon, Mar 27 at 10 pm
R/F Mar 30/31 Spring vacation
2 6 T/W Apr 4/5 EF
M2L6
Practice data analysis methods
Prelab T/R
Prelab W/F
Blog post due Mon, Apr 3 at 10 pm
Homework due
2 7 R/F Apr 6/7 EF
M2L7
Analyze RNA-seq data
Prelab T/R
Prelab W/F
Homework due
2 8 T/W Apr 11/12 LS
M2L8
Journal club II
2 9 R/F Apr 13/14 NLL
M2L9
Examine quantitative PCR results
Prelab T/R
Prelab W/F
Laboratory quiz
Homework due
Blog post due Sat, Apr 15 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