Difference between revisions of "20.109(S23):Spring 2023 schedule"

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|--
 
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|  
 
|  
| R/F Sep 8/9  
+
| T/W Feb 7/8  
| [http://be.mit.edu/directory/noreen-lyell NLL] <br> [[Media:Fa22 Orientation lecture stdt.pdf| Lecture slides]] <br>  
+
| [http://be.mit.edu/directory/noreen-lyell NLL] <br> [[ Lecture slides]] <br>  
| [[20.109(F22):Laboratory tour | Orientation and laboratory tour]]<br> [[Media:Fa22 M0D0 bcm.pdf| T/R prelab]] <br> [[Media: Fa22_M0D0_jz.pptx| W/F prelab]]
+
| [[20.109(S23):Laboratory tour | Orientation and laboratory tour]]<br>  
 
|
 
|
 
|--
 
|--
 
| M1D1
 
| M1D1
| T/W Sep 13/14
+
| R/F Feb 9/10
| [http://be.mit.edu/directory/bevin-p-engelward BPE] <br>  [[Media:BE109 Fall22 Mod1 Day1 HANDOUT.pdf| Lecture slides]]<br>
+
| [ AK] <br>  
| [[20.109(F22):M1D1 | Learn best practices for mammalian cell culture]]<br> [[Media:Fa22 M1D1 bcm marked.pdf| T/R prelab]] <br> [[Media:Fa22 M1D1 jz corrected.pdf| W/F prelab corrected]]
+
| [[20.109(S23):M1D1 | Placeholder]]<br>  
| <font color= #0aa24d >'''Orientation quiz'''</font color> <br> [[20.109(F22):Homework#Due_M1D1|Homework due]]
+
| <font color= #0aa24d >'''Orientation quiz'''</font color> <br> [[20.109(S23):Homework#Due_M1D1|Homework due]]
 
|--
 
|--
 
| M1D2
 
| M1D2
| R/F Sep 15/16    
+
| T/W Feb 14/15   
| [http://be.mit.edu/directory/bevin-p-engelward BPE] <br> [[Media:BE109 Fall22 Mod1 Day2 HANDOUT.pdf| Lecture slides]]
+
| [ AK] <br>  
| [[20.109(F22):M1D2 |Prepare and treat cells for &gamma;-H2AX experiment]] <br> [[Media:Fa22 M1D2 bcm.pdf | T/R prelab]] <br>[[Media:Fa22 M1D2 jz.pdf | W/F prelab]]
+
| [[20.109(S23):M1D2 |Placeholder]] <br>  
| [[20.109(F22):Homework#Due_M1D2|Homework due]]
+
| [[20.109(S23):Homework#Due_M1D2|Homework due]]
 
|--
 
|--
 
| M1D3
 
| M1D3
| T/W Sep 20/21  
+
| R/F Feb 16/17  
| [http://be.mit.edu/directory/bevin-p-engelward BPE] <br> [[Media:BE109 Fall22 Mod1 Day3 HANDOUT v2.pdf| Lecture slides]]
+
| [ AK] <br>  
| [[20.109(F22):M1D3 |Use immunoflourescence staining to assess &gamma;-H2AX experiment]] <br> [[Media:Fa22 M1D3 bcm marked.pdf| T/R prelab]] <br> [[Media: Fa22 M1D3 jz.pdf | W/F prelab]]
+
| [[20.109(S23):M1D3 |Placeholder]] <br>  
| [[20.109(F22):Homework#Due_M1D3|Homework due]]
+
| [[20.109(S23):Homework#Due_M1D3|Homework due]]
 
|--
 
|--
 
|  
 
|  
| R/F Sep 22/23
+
| T/W Feb 21/22
| BE Comm Lab
+
|  
| <font color = #642664>'''Career Day holiday'''</font color>
+
| <font color = #015526>'''President's Day holiday'''</font color>
 
|   
 
|   
 
|--
 
|--
 
| M1D4
 
| M1D4
| T/W Sep 27/28
+
| R/F Feb 23/24
| [http://be.mit.edu/directory/bevin-p-engelward BPE] <br> [[Media:BE109 Fall22 Mod1 Day4 HANDOUT.pdf| Lecture slides]]
+
| [ AK] <br>  
| [[20.109(F22):M1D4 |Complete data analysis for &gamma;H2AX experiment]] <br> [[Media:Fa22 M1D4 bcm marked.pdf | T/R prelab]] <br> [[Media:Fa22 M1D4 jz.pdf | W/F prelab]]
+
| [[20.109(S23):M1D4 |Placeholder]] <br>  
| <font color= #0aa24d >'''Laboratory quiz'''</font color> <br> [[20.109(F22):Homework#Due_M1D4|Homework due]]
+
| <font color= #0aa24d >'''Laboratory quiz'''</font color> <br> [[20.109(S23):Homework#Due_M1D4|Homework due]]
 
|--
 
|--
 
| M1D5
 
| M1D5
| R/F Sep 29/30
+
| T/W Feb/Mar 28/1
| [http://be.mit.edu/directory/bevin-p-engelward BPE] <br> [[Media:BE109 Fall22 Mod1 Day5 HANDOUT.pdf|Lecture slides]]
+
| [ AK] <br>  
| [[20.109(F22):M1D5 |Treat cells for CometChip assay]] <br> [[Media:Fa22 M1D5 bcm.pdf | T/R prelab]] <br> [[Media:Fa22 M1D5 jz.pdf | W/F prelab]] <br> [[Media:ImageJ_Guide.pdf | ImageJ Guide]]
+
| [[20.109(S23):M1D5 |Placeholder]] <br>
| [[20.109(F22):Homework#Due_M1D5|Homework due]] <br> [[20.109(F22):Research talk| <font color =  #b3251c>'''Research talk due'''</font color>]] Sat, Oct 1 at 10 pm
+
| [[20.109(S23):Homework#Due_M1D5|Homework due]] <br> [[20.109(S23):Research talk| <font color =  #b3251c>'''Research talk due'''</font color>]] XX
 
|--
 
|--
 
| M1D6
 
| M1D6
| T/W Oct 4/5
+
| R/F Mar 2/3
| [http://be.mit.edu/directory/bevin-p-engelward BPE] <br> [[Media:BE109 Fall22 Mod1 Day6 HANDOUT.pdf|Lecture slides]]
+
| [ AK] <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(S23):M1D6 |Placeholder]] <br>  
| [[20.109(F22):Homework#Due_M1D6|Homework due]]  
+
| [[20.109(S23):Homework#Due_M1D6|Homework due]]  
 
|--
 
|--
 
| M1D7
 
| M1D7
| R/F Oct 6/7
+
| T/W Mar 7/8
| [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]]
+
| [ AK] <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>
+
| [[20.109(S23):M1D7 |Placeholder]] <br>  
| <font color= #0aa24d >'''Laboratory quiz'''</font color> <br> [[20.109(F22):Homework#Due_M1D7|Homework due]]  
+
| <font color= #0aa24d >'''Laboratory quiz'''</font color> <br> [[20.109(S23):Homework#Due_M1D7|Homework due]]  
|--
+
|
+
| <font color = 999999>T/W Oct 11/12 </font color>
+
|
+
| <font color = #642664>'''Indigenous Peoples' Day holiday'''</font color>
+
| [[20.109(F22):Data Summary| <font color =  #b3251c>'''Data Summary draft due'''</font color>]] Wed, Oct 12 at 10 pm <br> [https://app.slack.com/client/T01KU1VLZQB/C043RJYMC3B Blog post due] Thu, Oct 13 at 10 pm
+
 
|--
 
|--
 
| M2D1
 
| M2D1
| R/F Oct 13/14
+
| R/F Mar 9/10
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br> [[Media:L01 Intro Drug Discovery 20.109 Niles (presented).pdf | Lecture slides]]
+
| [ BCM] <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(S23):M2D1 |Determine mutagenesis strategy]] <br>  
| [[20.109(F22):Homework#Due_M2D1|Homework due]]  
+
| [[20.109(S23):Homework#Due_M2D1|Homework due]]  
 
|--
 
|--
 
| M2D2
 
| M2D2
| T/W Oct 18/19
+
| T/W Mar 14/15
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br> [[Media:L02 Therapeutic Target Selection 20.109 (Niles-presented).pdf | Lecture Slides]]
+
| [ RCM] <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(S23):M2D2 |Perform site-directed mutagenesis]] <br>  
| [[20.109(F22):Homework#Due_M2D2|Homework due]]  
+
| [[20.109(S23):Homework#Due_M2D2|Homework due]]  
 
|--
 
|--
 
| M2D3
 
| M2D3
| R/F Oct 20/21
+
| R/F Mar 16/17
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br> [[Media:L03 Choosing an Intervention Modality 20.109 (Niles-presented).pdf| Lecture slides]]
+
| [ RCM] <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(S23):M2D3 |Sequence clones and transform into yeast cells]] <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>  
+
| [[20.109(S23):Homework#Due_M2D3|Homework due]] <br> [[20.109(S23):Data Summary| <font color =  #b3251c>'''Data Summary revision due'''</font color>]] XX <br>  
 
|--
 
|--
 
| M2D4
 
| M2D4
| T/W Oct 25/26
+
| T/W Mar 21/22
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br> [[Media:L04 Introduction to Screening I.pdf|Lecture slides]]
+
| [ AK] <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]]
+
| [[20.109(S23):M2D4 |Prepare conditions for metal incubation experiment]] <br>  
| <font color= #0aa24d >'''Laboratory quiz'''</font color> <br> [[20.109(F22):Homework#Due_M2D4|Homework due]]  
+
| <font color= #0aa24d >'''Laboratory quiz'''</font color> <br> [[20.109(S23):Homework#Due_M2D4|Homework due]]  
 
|--
 
|--
 
| M2D5
 
| M2D5
| R/F Oct 27/28
+
| R/F Mar 23/24
| [http://be.mit.edu/directory/jacquin-c-niles JCN] <br> [[Media:L05 Intro to Phenotypic Screening (Niles-presented).pdf|Lecture slides]]
+
| [ AK] <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(S23):M2D5 |Analyze ICP-OES data and complete IF staining]] <br>  
| [[20.109(F22):Homework#Due_M2D5|Homework due]]  
+
| [[20.109(S23):Homework#Due_M2D5|Homework due]]  
 +
|--
 +
|
 +
| <font color = 999999>T/W Mar 28/29 and R/F Mar 30/31 </font color>
 +
|
 +
| <font color = #015526>'''Spring Break'''</font color>
 +
|
 
|--
 
|--
 
|  
 
|  

Revision as of 22:15, 4 January 2023

20.109(S23): Laboratory Fundamentals of Biological Engineering

Sp23 banner image v2.png

Spring 2023 schedule        FYI        Assignments        Homework        Class data        Communication        Accessibility

       M1: Drug discovery        M2: Protein engineering        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
T/W Feb 7/8 NLL
Lecture slides
Orientation and laboratory tour
M1D1 R/F Feb 9/10 [ AK]
Placeholder
Orientation quiz
Homework due
M1D2 T/W Feb 14/15 [ AK]
Placeholder
Homework due
M1D3 R/F Feb 16/17 [ AK]
Placeholder
Homework due
T/W Feb 21/22 President's Day holiday
M1D4 R/F Feb 23/24 [ AK]
Placeholder
Laboratory quiz
Homework due
M1D5 T/W Feb/Mar 28/1 [ AK]
Placeholder
Homework due
Research talk due XX
M1D6 R/F Mar 2/3 [ AK]
Placeholder
Homework due
M1D7 T/W Mar 7/8 [ AK]
Placeholder
Laboratory quiz
Homework due
M2D1 R/F Mar 9/10 [ BCM]
Determine mutagenesis strategy
Homework due
M2D2 T/W Mar 14/15 [ RCM]
Perform site-directed mutagenesis
Homework due
M2D3 R/F Mar 16/17 [ RCM]
Sequence clones and transform into yeast cells
Homework due
Data Summary revision due XX
M2D4 T/W Mar 21/22 [ AK]
Prepare conditions for metal incubation experiment
Laboratory quiz
Homework due
M2D5 R/F Mar 23/24 [ AK]
Analyze ICP-OES data and complete IF staining
Homework due
T/W Mar 28/29 and R/F Mar 30/31 Spring Break
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!