Difference between revisions of "20.109(F22):Fall 2022 schedule"

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| T/W Oct 4/5
 
| T/W Oct 4/5
 
| [http://be.mit.edu/directory/bevin-p-engelward BPE] <br> [[Media:BE109 Fall22 Mod1 Day6 HANDOUT.pdf|Lecture slides]]
 
| [http://be.mit.edu/directory/bevin-p-engelward BPE] <br> [[Media:BE109 Fall22 Mod1 Day6 HANDOUT.pdf|Lecture slides]]
| [[20.109(F22):M1D6 |Image and analyze data for CometChip assay]] <br> [[Media:Fa22 M1D6 bcm marked.pdf | T/R prelab]] <br>
+
| [[20.109(F22):M1D6 |Image and analyze data for CometChip assay]] <br> [[Media:Fa22 M1D6 bcm marked.pdf | T/R prelab]] <br> [[Media:Fa22 M1D6 jz.pdf | W/F prelab]]<br>
 
| [[20.109(F22):Homework#Due_M1D6|Homework due]]  
 
| [[20.109(F22):Homework#Due_M1D6|Homework due]]  
 
|--
 
|--
 
| M1D7
 
| M1D7
 
| R/F Oct 6/7
 
| R/F Oct 6/7
| [http://be.mit.edu/directory/bevin-p-engelward BPE] <br>  
+
| [http://be.mit.edu/directory/bevin-p-engelward BPE] <br> [[Media:BE109 Fall22 Mod1 Day7 HANDOUT.pdf|Lecture slides]] <br> [[Media:Board Notes for Lecture 7 from Engelward.pdf|Board notes]]
| [[20.109(F22):M1D7 |Examine experimental data using statistical methods]] <br>  
+
| [[20.109(F22):M1D7 |Examine experimental data using statistical methods]] <br> [[Media:M1D7 marked.pdf | T/R prelab]] <br> [[Media:Fa22 M1D7 jz.pdf | W/F prelab]] <br>[[Media:Fa22 DS Discussion nll tr.pdf| Data Summary discussion]] <br>
 
| <font color= #963d97 >'''Laboratory quiz'''</font color> <br> [[20.109(F22):Homework#Due_M1D7|Homework due]]  
 
| <font color= #963d97 >'''Laboratory quiz'''</font color> <br> [[20.109(F22):Homework#Due_M1D7|Homework due]]  
 
|--
 
|--
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| M2D1
 
| M2D1
 
| R/F Oct 13/14
 
| R/F Oct 13/14
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br>
+
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br> [[Media:L01 Intro Drug Discovery 20.109 Niles (presented).pdf | Lecture slides]]
| [[20.109(F22):M2D1 |Complete in-silico cloning of protein expression plasmid]] <br>  
+
| [[20.109(F22):M2D1 |Complete in-silico cloning of protein expression plasmid]] <br> [[Media:Fa22 M2D1 bcm marked.pdf | T/R prelab]] <br> [[Media:Fa22_M2D1_jz.pdf | W/F prelab ]]
 
| [[20.109(F22):Homework#Due_M2D1|Homework due]]  
 
| [[20.109(F22):Homework#Due_M2D1|Homework due]]  
 
|--
 
|--
 
| M2D2
 
| M2D2
 
| T/W Oct 18/19
 
| T/W Oct 18/19
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br>  
+
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br> [[Media:L02 Therapeutic Target Selection 20.109 (Niles-presented).pdf | Lecture Slides]]
| [[20.109(F22):M2D2 |Perform protein purification protocol]] <br>
+
| [[20.109(F22):M2D2 |Perform protein purification protocol]] <br> [[Media:Fa22 M2D2 bcm marked.pdf | T/R prelab]]<br> [[Media:Fa22 M2D2 jz.pdf | W/F prelab]]
 
| [[20.109(F22):Homework#Due_M2D2|Homework due]]  
 
| [[20.109(F22):Homework#Due_M2D2|Homework due]]  
 
|--
 
|--
 
| M2D3
 
| M2D3
 
| R/F Oct 20/21
 
| R/F Oct 20/21
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br>  
+
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br> [[Media:L03 Choosing an Intervention Modality 20.109 (Niles-presented).pdf| Lecture slides]]
| [[20.109(F22):M2D3 |Assess purity and concentration of purified protein]] <br>
+
| [[20.109(F22):M2D3 |Assess purity and concentration of purified protein]] <br> [[Media:Fa22 M2D3 bcm.pdf | T/R prelab]] <br> [[Media:Fa22 M2D3 jz.pdf | W/F prelab]]
 
| [[20.109(F22):Homework#Due_M2D3|Homework due]] <br> [[20.109(F22):Data Summary| <font color =  #b3251c>'''Data Summary revision due'''</font color>]] Sat, Oct 22 at 10 pm <br>  
 
| [[20.109(F22):Homework#Due_M2D3|Homework due]] <br> [[20.109(F22):Data Summary| <font color =  #b3251c>'''Data Summary revision due'''</font color>]] Sat, Oct 22 at 10 pm <br>  
 
|--
 
|--
 
| M2D4
 
| M2D4
 
| T/W Oct 25/26
 
| T/W Oct 25/26
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br>  
+
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br> [[Media:L04 Introduction to Screening I.pdf|Lecture slides]]
| [[20.109(F22):M2D4 |Review small molecule microarray (SMM) technology and data analysis used to identify hits]] <br>
+
| [[20.109(F22):M2D4 |Review small molecule microarray (SMM) technology and data analysis used to identify hits]] <br> [[Media:Fa22 M2D4 bcm marked.pdf | T/R prelab]] <br> [[Media:Fa22 M2D4 jz.pdf | W/F prelab]]
 
| <font color= #963d97 >'''Laboratory quiz'''</font color> <br> [[20.109(F22):Homework#Due_M2D4|Homework due]]  
 
| <font color= #963d97 >'''Laboratory quiz'''</font color> <br> [[20.109(F22):Homework#Due_M2D4|Homework due]]  
 
|--
 
|--
 
| M2D5
 
| M2D5
 
| R/F Oct 27/28
 
| R/F Oct 27/28
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br>  
+
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br> [[Media:L05 Intro to Phenotypic Screening (Niles-presented).pdf|Lecture slides]]
| [[20.109(F22):M2D5 |Prepare protein for functional assay]] <br>
+
| [[20.109(F22):M2D5 |Prepare protein for functional assay]] <br> [[Media:Fa22 M2D5 bcm.pdf | T/R prelab]] <br> [[Media:Fa22 M2D5 jz.pdf | W/F prelab]]
 
| [[20.109(F22):Homework#Due_M2D5|Homework due]]  
 
| [[20.109(F22):Homework#Due_M2D5|Homework due]]  
 
|--
 
|--
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| T/W Nov 8/9
 
| T/W Nov 8/9
 
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br>  
 
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br>  
| [[20.109(F22):M2D4 |Complete data analysis of functional assay results]] <br>
+
| [[20.109(F22):M2D6 |Complete data analysis of functional assay results]] <br> [[Media:Fa22 M2D6 bcm.pdf | T/R Prelab]] <br> [[Media:Fa22 M2D6 jz.pdf | W/F Prelab]] <br>
 
| [[20.109(F22):Homework#Due_M2D5|Homework due]]  
 
| [[20.109(F22):Homework#Due_M2D5|Homework due]]  
 
|--
 
|--
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| T/W Nov 15/16
 
| T/W Nov 15/16
 
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br>  
 
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br>  
| [[20.109(F22):M2D7 |Evaluate protein structures]] <br>
+
| [[20.109(F22):M2D7 |Evaluate protein structures]] <br> [[Media:Fa22 RA discussion TR notes.pdf|T/R Prelab]] <br> [[Media:Fa22 RA discussion WF notes.pdf|W/F prelab]]
 
| <font color= #963d97 >'''Laboratory quiz'''</font color> <br> [[20.109(F22):Homework#Due_M2D7|Homework due]]  
 
| <font color= #963d97 >'''Laboratory quiz'''</font color> <br> [[20.109(F22):Homework#Due_M2D7|Homework due]]  
 
|--
 
|--
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| R/F Nov 17/18
 
| R/F Nov 17/18
 
| [http://be.mit.edu/directory/noreen-lyell NLL]<br>  
 
| [http://be.mit.edu/directory/noreen-lyell NLL]<br>  
| [[20.109(F22):M3D1 |Brainstorm ideas for Research proposal presentation]] <br>
+
| [[20.109(F22):M3D1 |Brainstorm ideas for Research proposal presentation]] <br> [[Media:Fa22 M3D1 bcm.pdf|T/R prelab]] <br> [[Media:Fa22 M3D1 bcm.pdf|W/F prelab]]
 
| [[20.109(F22):Homework#Due_M3D1|Homework due]] <br>
 
| [[20.109(F22):Homework#Due_M3D1|Homework due]] <br>
 
|--
 
|--
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|  
 
|  
 
|--
 
|--
|  
+
| M3D2
 
| T/W Nov 29/30
 
| T/W Nov 29/30
 
| [http://be.mit.edu/directory/angela-belcher AB]<br>  
 
| [http://be.mit.edu/directory/angela-belcher AB]<br>  
| <font color =  #b3251c>'''Research proposal pitches'''</font color> <br>
+
| [[20.109(F22):M3D2 |Pitch research proposal presentation ideas ]] <br>  
 
|  
 
|  
 
|--
 
|--
| M3D2
+
| M3D3
 
| R/F Dec 1/2
 
| R/F Dec 1/2
 
| BE Comm Lab
 
| BE Comm Lab
| [[20.109(F22):M3D2 |Develop ideas for Research proposal presentation ]] <br>  
+
| [[20.109(F22):M3D3 |Develop ideas for Research proposal presentation ]] <br> [[Media:Fa22 M3D3 prelab nll.pdf| T/R prelab]] <br> [[Media:Fa22 M3D3 prelab nll.pdf| W/F prelab]]
| [[20.109(F22):Homework#Due_M3D2|Homework due]]<br>
+
| [[20.109(F22):Homework#Due_M3D3|Homework due]]<br>
 
|--
 
|--
| M3D3
+
| M3D4
 
| T/W Dec 6/7
 
| T/W Dec 6/7
 
| [http://be.mit.edu/directory/noreen-lyell NLL] <br>  
 
| [http://be.mit.edu/directory/noreen-lyell NLL] <br>  
| [[20.109(F22):M3D3 |Participate in Research proposal peer reviews]] <br>  
+
| [[20.109(F22):M3D4 |Participate in Research proposal peer reviews]] <br>  
| [[20.109(F22):Homework#Due_M3D3|Homework due]]
+
| [[20.109(F22):Homework#Due_M3D4|Homework due]]
 
|--
 
|--
 
|  
 
|  

Latest revision as of 17:51, 2 December 2022

20.109(F22): Laboratory Fundamentals of Biological Engineering

Fa22 banner image v3.png

Fall 2022 schedule        FYI        Assignments        Homework        Class data        Communication        Accessibility

       M1: Genomic instability        M2: Drug discovery        M3: Project design       


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 enough time 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: Tuesday (T) and Thursday (R) 11 - 12 pm in 16-220
Laboratory section times: Tuesday (T) and Thursday (R) 1 - 5 pm or Wednesday (W) and Friday (F) 1 - 5 pm in 56-322

ABSENCE POLICY:
Absences from lecture: Attendance will be recorded for participation points throughout the semester. If absent, student is responsible for all information provided in lecture.
Absences from laboratory: Excused absences should be discussed with the Instructors as soon as possible. Because make-up laboratory time is not provided, attendance in another section may be required to complete the necessary experiments. Unexcused absences will result in a 1/3 of a letter grade deduction from the final grade on the major assignment for the module (for example, a B+ would become a B).

MODULE DATE LECTURER LABORATORY EXPERIMENTS ASSIGNMENTS
R/F Sep 8/9 NLL
Lecture slides
Orientation and laboratory tour
T/R prelab
W/F prelab
M1D1 T/W Sep 13/14 BPE
Lecture slides
Learn best practices for mammalian cell culture
T/R prelab
W/F prelab corrected
Orientation quiz
Homework due
M1D2 R/F Sep 15/16 BPE
Lecture slides
Prepare and treat cells for γ-H2AX experiment
T/R prelab
W/F prelab
Homework due
M1D3 T/W Sep 20/21 BPE
Lecture slides
Use immunoflourescence staining to assess γ-H2AX experiment
T/R prelab
W/F prelab
Homework due
R/F Sep 22/23 BE Comm Lab Career Day holiday
M1D4 T/W Sep 27/28 BPE
Lecture slides
Complete data analysis for γH2AX experiment
T/R prelab
W/F prelab
Laboratory quiz
Homework due
M1D5 R/F Sep 29/30 BPE
Lecture slides
Treat cells for CometChip assay
T/R prelab
W/F prelab
ImageJ Guide
Homework due
Research talk due Sat, Oct 1 at 10 pm
M1D6 T/W Oct 4/5 BPE
Lecture slides
Image and analyze data for CometChip assay
T/R prelab
W/F prelab
Homework due
M1D7 R/F Oct 6/7 BPE
Lecture slides
Board notes
Examine experimental data using statistical methods
T/R prelab
W/F prelab
Data Summary discussion
Laboratory quiz
Homework due
T/W Oct 11/12 Indigenous Peoples' Day holiday Data Summary draft due Wed, Oct 12 at 10 pm
Blog post due Thu, Oct 13 at 10 pm
M2D1 R/F Oct 13/14 JCN
Lecture slides
Complete in-silico cloning of protein expression plasmid
T/R prelab
W/F prelab
Homework due
M2D2 T/W Oct 18/19 JCN
Lecture Slides
Perform protein purification protocol
T/R prelab
W/F prelab
Homework due
M2D3 R/F Oct 20/21 JCN
Lecture slides
Assess purity and concentration of purified protein
T/R prelab
W/F prelab
Homework due
Data Summary revision due Sat, Oct 22 at 10 pm
M2D4 T/W Oct 25/26 JCN
Lecture slides
Review small molecule microarray (SMM) technology and data analysis used to identify hits
T/R prelab
W/F prelab
Laboratory quiz
Homework due
M2D5 R/F Oct 27/28 JCN
Lecture slides
Prepare protein for functional assay
T/R prelab
W/F prelab
Homework due
T/W Nov 1/2 Journal article presentations
R/F Nov 3/4 Journal article presentations Blog post due Sat, Nov 5 at 10 pm
M2D6 T/W Nov 8/9 JCN
Complete data analysis of functional assay results
T/R Prelab
W/F Prelab
Homework due
R/F Nov 10/11 Veterans' Day holiday
M2D7 T/W Nov 15/16 JCN
Evaluate protein structures
T/R Prelab
W/F prelab
Laboratory quiz
Homework due
M3D1 R/F Nov 17/18 NLL
Brainstorm ideas for Research proposal presentation
T/R prelab
W/F prelab
Homework due
T/W Nov 22/23 Thanksgiving Day holiday Research article due Mon, Nov 21 at 10 pm
Blog post due Tue, Nov 22 at 10 pm
R/F Nov 24/25 Thanksgiving Day holiday
M3D2 T/W Nov 29/30 AB
Pitch research proposal presentation ideas
M3D3 R/F Dec 1/2 BE Comm Lab Develop ideas for Research proposal presentation
T/R prelab
W/F prelab
Homework due
M3D4 T/W Dec 6/7 NLL
Participate in Research proposal peer reviews
Homework due
R/F Dec 8/9 Research proposal presentations Blog post due Sat, Dec 10 at 10 pm
T Dec 13 Celebration lunch!