Difference between revisions of "20.109(S21):Spring 2021 schedule"

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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 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.
+
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.
  
 
<font color=  #d1b217 >'''SCHEDULE DETAILS:'''</font color><br>
 
<font color=  #d1b217 >'''SCHEDULE DETAILS:'''</font color><br>
−
<font color=  #d1b217 >'''Lecture times:'''</font color>  Tuesday (T) and Thursday (R) 11 - 12 pm ([ Zoom access)]<br>
+
<font color=  #d1b217 >'''Lecture times:'''</font color>  <br>
 +
*Tuesday (T) and Thursday (R) 11 - 12 pm ([https://mit.zoom.us/j/94815211031 Zoom access]; Meeting ID 948 1521 1031) <br>
 
<font color=  #d1b217 >'''Laboratory section times:'''</font color>  <br>
 
<font color=  #d1b217 >'''Laboratory section times:'''</font color>  <br>
−
*Tuesday (T) and Thursday (R) 1 - 5 pm ([ Zoom access]) <br>
+
*Tuesday (T) and Thursday (R) 1 - 4 pm ([https://mit.zoom.us/j/94585650880 Zoom access]) <br>
−
*Wednesday (W) and Friday (F) 1 - 5 pm ([ Zoom access]) <br>
+
*Wednesday (W) and Friday (F) 1 - 4 pm ([https://mit.zoom.us/j/92289710115 Zoom access]) <br>
  
 
{| border=1px
 
{| border=1px
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|'''LABORATORY EXPERIMENTS'''
 
|'''LABORATORY EXPERIMENTS'''
 
|'''ASSIGNMENTS'''
 
|'''ASSIGNMENTS'''
−
|--
 
−
| colspan="7" |  <font color = #0f688c > '''All lecture and laboratory sessions will meet via Zoom at the following links: <br> Lecture'''</font color>
 
 
|--
 
|--
 
|  
 
|  
−
| T/W Sep 1/2  
+
| T/W Feb 16/17  
−
| [http://be.mit.edu/directory/noreen-lyell NLL]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br> [https://mit.zoom.us/rec/share/zsNRMezr119IUp305lzuS54zB6TAaaa81SEaq_dbzoCPSCinH3kBIxY1_DkhoAo?startTime=1598972976000 Video] <br> [[Media:Fa20 Orientation lecture.pdf| Slides]]
+
| [http://be.mit.edu/directory/noreen-lyell NLL] <br> [[Media:Sp21 Orientation lecture students.pdf |Slides]]
−
| [[20.109(F20):Lab tour | Orientation and laboratory tour]]<br>[https://mit.zoom.us/j/98495764018 T/R Zoom access], [https://mit.zoom.us/rec/play/u5IuI7uhp2k3HoeQ4QSDAvV9W428Jvms2yAf8_cFn0yzUCICO1TyMOFBZOXpm25FJC_2UtxAo7NLZ-co?continueMode=true T/R prelab video], [[Media:Fa20 M0D0 bcm.pdf | T/R prelab slides]] <br> [https://mit.zoom.us/j/98495764018 W/F Zoom access], [https://mit.zoom.us/rec/play/HbefCTGbxVvI0DBFnq7G6G_o3pL63N9XkaSDDa-sr3VisyHnt88w8igMRUnHSpwF4EKppvSM6I5GVM0.HrMBuJuSWFOXbucE?continueMode=true W/F prelab video], [[Media:Fa20 M0D0 bcm.pdf | W/F prelab slides]] <br>
+
| [[20.109(S21):Laboratory tour | Orientation and laboratory tour]]<br> [https://www.dropbox.com/s/wkgflfcdyegxtg8/Sp21_M0D0_bcm.pdf?dl=0 T/R prelab] <br> [https://www.dropbox.com/sh/khcxnq9fyo68gvt/AACYdN42VVwvZ4WLUyp743_Na?dl=0 W/F prelab]
 
|
 
|
 
|--
 
|--
Line 29: Line 28:
 
|--
 
|--
 
| M1D1
 
| M1D1
−
| R/F Sep 3/4
+
| R/F Feb 18/19
−
| [http://be.mit.edu/directory/bevin-p-engelward BE]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br>
+
| [http://be.mit.edu/directory/leslie-mcclain LM] <br> [[Media:Sp21_Mod1_lecture_1.pdf|Slides]]  
−
| [[20.109(F20):M1D1 |Learn best practices for mammalian cell culture]]<br>[https://mit.zoom.us/j/98495764018 T/R Zoom access], [https://mit.zoom.us/rec/play/aZy5ACkiu-d_qLAUhwS027wBXBZBX4CK1sIk2AcXyCZaiizRSA4aHOz2UUpVXXDlTZORubSjv38ERVcK.WvDuOFRTdOUiv2l3?continueMode=true T/R prelab video], [[Media:Fa20 M1D1 bcm.pdf | T/R prelab slides]] <br> [https://mit.zoom.us/j/98495764018 W/F Zoom access], [https://mit.zoom.us/rec/play/o7QqrQ2hsRvzyFbjDZ7pbX8HHSdqrtgTkFZtYoArVdze2SbgnbT9jH4oPiYCl4gXeETXfpt2yAdPY1Ir.COOJhZe4nZ6AFNMB?continueMode=true W/F prelab video], [[Media:Fa20 M1D1 nll.pdf| W/F prelab slides]] <br>
+
| [[20.109(S21):M1D1 |Generate scFv library]] <br> [[Media:Sp21 M1D1 bcm marked.pdf | T/R prelab]] <br> [https://www.dropbox.com/sh/khcxnq9fyo68gvt/AACYdN42VVwvZ4WLUyp743_Na?dl=0 W/F prelab]
−
| <font color= #829c58 >'''Orientation quiz'''</font color><br>[[20.109(F20):Homework#Due_M1D1|Homework due]]
+
| <font color= #d1b217 >'''Orientation quiz'''</font color> <br> [[20.109(S21):Homework#Due_M1D1|Homework due]]
 
|--
 
|--
 
| M1D2
 
| M1D2
−
| T/W Sep 8/9    
+
| T/W Feb 23/24    
−
| [http://be.mit.edu/directory/bevin-p-engelward BE]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br>
+
| [http://be.mit.edu/directory/leslie-mcclain LM] <br> [[Media:Sp21_Mod1_lecture_2.pdf|Slides]]  
−
| [[20.109(F20):M1D2 | Prepare and treat cells for repair foci experiment]]<br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [https://mit.zoom.us/rec/share/vXBZQvn71ibjrhhFmwT6aiGIYWkh3NeJkcSdUBF3dD4eECwLbKsTVmyU8fueNuJh.7nv5VzLNbyMue2dK  T/R prelab video], [[Media:Fa20 M1D2 bcm.pdf | T/R prelab slides]] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [https://mit.zoom.us/rec/share/nwmcR1eb2vp9Xq6D4Kz52SUggx0uiz7NnD4Sg5HLI_HLdRmSq0zu-2gnUbVxC9G1.vnADhoR0Dgrhe9gM  W/F prelab video], [[Media:Fa20 M1D2 nll.pdf| W/F prelab slides]] <br>
+
| [[20.109(S21):M1D2 |Enrich candidate clones from library using FACS]] <br> [[Media:Sp21 M1D2 bcm marked.pdf | T/R prelab]] <br> [https://www.dropbox.com/sh/khcxnq9fyo68gvt/AACYdN42VVwvZ4WLUyp743_Na?dl=0 W/F prelab]
−
| [[20.109(F20):Homework#Due_M1D2|Homework due]]
+
| [[20.109(S21):Homework#Due_M1D2|Homework due]]
 
|--
 
|--
 
| M1D3
 
| M1D3
−
| R/F Sep 10/11  
+
| R/F Feb 25/26  
−
| [http://be.mit.edu/directory/bevin-p-engelward BE]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br>
+
| [http://be.mit.edu/directory/leslie-mcclain LM] <br> [[Media:Sp21_Mod1_lecture_3.pdf|Slides]]  
−
| [[20.109(F20):M1D3 | Use immunoflourescence staining to assess repair foci experiment]]<br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [https://mit.zoom.us/rec/share/eBv9YAQYE6QwbnftLx52nABx4E1TKnc0lBbM7BB_nyQTGgnX-K0o4P5g0-3lbvys.Q9Jkz0-_JZeCGoig  T/R prelab video], [[Media:Fa20 M1D3 bcm.pdf | T/R prelab slides]] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [https://mit.zoom.us/rec/share/eJgqA8Ucy8ydiX9AjHRClwAXJ1WrX5buMmMSFwhwg1AGXY8XHGVyUo9mGUxcD9j9.sMcDZpRGid983Xmt  W/F prelab video], [[Media:Fa20 M1D3 nll.pdf| W/F prelab slides]] <br>
+
| [[20.109(S21):M1D3 |Harvest clone plasmids from library]] <br> [[Media:Sp21 M2D2 bcm marked.pdf | T/R prelab]] <br> [https://www.dropbox.com/sh/khcxnq9fyo68gvt/AACYdN42VVwvZ4WLUyp743_Na?dl=0 W/F prelab]
−
| [[20.109(F20):Homework#Due_M1D3|Homework due]]
+
| [[20.109(S21):Homework#Due_M1D3|Homework due]]
 
|--
 
|--
 
| M1D4
 
| M1D4
−
| T/W Sep 15/16
+
| T/W Mar 2/3
−
| [http://be.mit.edu/directory/bevin-p-engelward BE]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br>
+
| [http://be.mit.edu/directory/leslie-mcclain LM] <br> [[Media:Sp21_Mod1_lecture_4.pdf|Slides]]  
−
| [[20.109(F20):M1D4 | Image repair foci experiment and quantify results]]<br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [https://mit.zoom.us/rec/share/wa6O0MHbnKKPfnoIs3sV4mjCW0-WpEhhbyq55DXREDeLvHO4s8t-ewjJ_nedj-F6.ko0M24tMPwyQ0kN5  T/R prelab video], [[Media:Fa20 M1D4 bcm.pdf | T/R prelab slides]] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [https://mit.zoom.us/rec/share/oT5bdz91C6l7CodSoHxmTxTyiSGgvYOU5qoGxHq7EAnvA-z5iNWgAdqj1zioRurO._8IMEkSefEJ_0U4B  W/F prelab video], [[Media:Fa20 M1D4 nll.pdf| W/F prelab slides]] <br>
+
| [[20.109(S21):M1D4 |Purify and sequence clone plasmids]] <br> [[Media:Sp21 M1D4 bcm marked.pdf | T/R prelab]] <br> [https://www.dropbox.com/sh/khcxnq9fyo68gvt/AACYdN42VVwvZ4WLUyp743_Na?dl=0 W/F prelab]
−
| <font color= #829c58 >'''Laboratory quiz'''</font color><br>[[20.109(F20):Homework#Due_M1D4|Homework due]]
+
| <font color= #d1b217 >'''Laboratory quiz'''</font color> <br> [[20.109(S21):Homework#Due_M1D4|Homework due]]
 
|--
 
|--
 
| M1D5
 
| M1D5
−
| R/F Sep 17/18
+
| R/F Mar 4/5
−
| [http://be.mit.edu/directory/bevin-p-engelward BE]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br>
+
| [http://be.mit.edu/directory/leslie-mcclain LM] <br> [[Media:Sp21_Mod1_lecture5marked.pdf|Slides]]  
−
| [[20.109(F20):M1D5 | Treat cells and perform high-throughput genome damage assay]]<br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [https://mit.zoom.us/rec/play/eVjNVsv1dKJr2sdLNWfi1KDV5suFqiULCT_y99ZvKqz9PkfY3WSj1BLMU4outG_KHTrxl6fD061ge3nF.3moasScGqvhKKo3r?autoplay=true&continueMode=true&startTime=1600373723000 T/R prelab video], [https://www.dropbox.com/s/ez21c84ddg8ussa/Fa20_M1D5_bcm.pdf?dl=0 T/R prelab slides] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [https://mit.zoom.us/rec/share/dSDZrHMs5VxJ1fR2qhNKURMtE3hAgi_xFocN6NkXdnROOpPoqUNwHsXsvL_z_8IP.zmP-_UD0LyC_6YYO  W/F prelab video], [[ W/F prelab slides]] <br>
+
| [[20.109(S21):M1D5 |Analyze clone sequences and choose clone to characterize]] <br> [[Media:Sp21 M1D5 bcm marked.pdf | T/R prelab]] <br> [https://www.dropbox.com/sh/khcxnq9fyo68gvt/AACYdN42VVwvZ4WLUyp743_Na?dl=0 W/F prelab]
−
| [[20.109(F20):Homework#Due_M1D5|Homework due]]
+
| [[20.109(S21):Homework#Due_M1D5|Homework due]]
 +
|--
 +
|
 +
| <font color = 999999>T/W Mar 9/10 </font color>
 +
|
 +
| <font color = #0d368e>'''Student holiday'''</font color>
 +
|
 
|--
 
|--
 
| M1D6
 
| M1D6
−
| T/W Sep 22/23
+
| R/F Mar 11/12
−
| [http://be.mit.edu/directory/bevin-p-engelward BE]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br>
+
| [http://be.mit.edu/directory/leslie-mcclain LM] <br> [[Media:Sp21 Mod1 lecture 6marked.pdf|Slides]]  
−
| [[20.109(F20):M1D6 | Image and analyze high-throughput genome damage assay]]<br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [https://mit.zoom.us/rec/share/QLLtl7DggGJFyjr41xQxUqOuaun3LaF2yGPOZgks6kIfMxLEG9FB_2_WItYYq4qy.mKZJit8-qTZmYCgd  T/R prelab video], [https://www.dropbox.com/s/v3chjq5xfjd29ap/Fa20_M1D6_bcm.pdf?dl=0 T/R prelab slides] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [https://mit.zoom.us/rec/share/YZHssgYuCeNPqI6KkgmXOvyvkizZCdtsPAzzguUK1mp1it9L1uoM2unabFgscwas.sopSMMZZpXui2A5q  W/F prelab video], [[Media:Fa20 M1D6 nll.pdf| W/F prelab slides]] <br>
+
| [[20.109(S21):M1D6 |Characterize clone ligand binding using flow cytometry]] <br> [[Media:Sp21 M1D6 bcm marked.pdf | T/R prelab]] <br> [https://www.dropbox.com/sh/khcxnq9fyo68gvt/AACYdN42VVwvZ4WLUyp743_Na?dl=0 W/F prelab]
−
| [[20.109(F20):Homework#Due_M1D6|Homework due]]
+
| [[20.109(S21):Homework#Due_M1D6|Homework due]]
 
|--
 
|--
 
| M1D7
 
| M1D7
−
| R/F Sep 24/25
+
| T/W Mar 16/17
−
| [http://be.mit.edu/directory/bevin-p-engelward BE]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br>
+
| [https://kdw-lab.mit.edu/members/sarah-cowles-research-interests/ Guest, SC] <br> [[Media:210316GuestLecture_SCCslides.pdf|Slides]]
−
| [[20.109(F20):M1D7 | Complete data analysis using statistical methods]]<br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [https://mit.zoom.us/rec/share/NBQHbV0bOhuRMNcOOEUFwiepv-F4UZZyuuGO7YaXkvdMrrKplUFor1F266qLmASY.etHku2LKdyArjAGI?startTime=1600975551000 T/R prelab video], [[Media:Fa20 M1D7 bcm.pdf | T/R prelab slides]] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [https://mit.zoom.us/rec/share/Wzarcb-E5YZ763DZHI8Nle4pzWg3hADf5o7FYns34cfY9f2hkcbkLbbfH2Yl7p-s.DxLWwTIzViFalP1K  W/F prelab video], [[Media:Fa20 M1D7 nll.pdf| W/F prelab slides]] <br>
+
| [[20.109(S21):M1D7 |Analyze ligand titration curves]] <br> [[Media:Sp21 M1D7 bcm marked.pdf | T/R prelab]] <br> [https://www.dropbox.com/sh/khcxnq9fyo68gvt/AACYdN42VVwvZ4WLUyp743_Na?dl=0 W/F prelab]
−
| <font color= #829c58 >'''Laboratory quiz'''</font color><br>[[20.109(F20):Homework#Due_M1D7|Homework due]]
+
| <font color= #d1b217 >'''Laboratory quiz'''</font color> <br> [[20.109(S21):Homework#Due_M1D7|Homework due]]
 
|--
 
|--
 
| colspan="6" |
 
| colspan="6" |
 
|--
 
|--
 
| M2D1
 
| M2D1
−
| T/W Sep 29/30
+
| R/F Mar 18/19
−
| [http://be.mit.edu/directory/jacquin-c-niles JN]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br> [https://mit.zoom.us/rec/share/D7KvRuRfDoWgOBZrq9pL4RhzdZ54s3RPQ6r0O9sJIyvn49akEjNwSZBgOe07AIDv.VXBUfeUJr9qpKdY4?startTime=1601392082000 Video] <br> [https://www.dropbox.com/sh/dz4jlc1b4kkmiqe/AADQWbknjnrRIbpTXpbY6GoDa?dl=0 Slides]
+
| [http://be.mit.edu/directory/angela-koehler AK] <br> [[Media:20109 M2L1 2021.pdf|Slides]]
−
| [[20.109(F20):M2D1 | Complete in silico cloning of protein expression plasmid]]<br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [https://mit.zoom.us/rec/share/-yY_fdGyNOWmzSPjZt8T-zsZUwdGz_yVM_kjyKWh_5N-iTI8XUSdN2DGZ6gByiXN.OLrxh9xLDDCJi1Dm T/R prelab video], [https://www.dropbox.com/s/695wo1cmg1xyu8c/Fa20_M2D1_bcm.pdf?dl=0 T/R prelab slides] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [https://mit.zoom.us/rec/share/XZmdbdZu8a1s9OfqqmYCYon8Atmi_cy1JV9yOgm1fTBc_yKy3M3kiVTa4IjhAnCL.ckSRZMh9w-UxS8hV  W/F prelab video], [[ W/F prelab slides]] <br>
+
| [[20.109(S21):M2D1 |Perform protein purification protocol]] <br> [[Media:Sp21 M2D1 bcm marked.pdf | T/R prelab]] <br> [https://www.dropbox.com/sh/khcxnq9fyo68gvt/AACYdN42VVwvZ4WLUyp743_Na?dl=0 W/F prelab]
−
| [[20.109(F20):Homework#Due_M2D1|Homework due]]
+
| [[20.109(S21):Homework#Due_M2D1|Homework due]]
 +
|--
 +
|
 +
| <font color = 999999>T/W Mar 23/24 </font color>
 +
|
 +
| <font color = #0d368e>'''Student holiday'''</font color>
 +
| [[20.109(S21):Data Summary| <font color =  #b3251c>'''Data Summary draft due'''</font color>]] Wed, Mar 24 at 10 pm <br>
 
|--
 
|--
 
| M2D2
 
| M2D2
−
| R/F Oct 1/2
+
| R/F Mar 25/26
−
| [http://be.mit.edu/directory/jacquin-c-niles JN]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br> [https://mit.zoom.us/rec/share/aU_T1Up_GU0qNWA-O_FqTVEO56f2VgZOCjEiHMn8d-biEwpHOkvzxdS54HjsHhWp.IDL9PosbQMA4Kl02 Video] <br> [https://www.dropbox.com/sh/dz4jlc1b4kkmiqe/AADQWbknjnrRIbpTXpbY6GoDa?dl=0 Slides]
+
| [http://be.mit.edu/directory/angela-koehler AK] <br> [[Media:20109 M2L2 2021.pdf|Slides]]
−
| [[20.109(F20):M2D2 | Perform protein purification protocol]]<br>[https://mit.zoom.us/j/96606548971 W/F Zoom access], [https://mit.zoom.us/rec/share/xY3F_44PE9nTrJt9n5CYL8m3-KfH2olQMxQ19504ZU8p9TuD1eGFAmpD_NDIumob.0uF-py1INLNVCnoN W/F prelab video], [https://www.dropbox.com/sh/x76rndhhltlxh8f/AAAddzBoW0xL5h0H6LT1ZipSa?dl=0 W/F prelab slides]
+
| [[20.109(S21):M2D2 |Assess purity and concentration of purified protein ]] <br> [[Media:Sp21 M2D2 bcm marked.pdf | T/R Prelab]] <br> [https://www.dropbox.com/sh/khcxnq9fyo68gvt/AACYdN42VVwvZ4WLUyp743_Na?dl=0 W/F prelab]
−
| [[20.109(F20):Homework#Due_M2D2| Homework due]]<br>[[20.109(F20):Data Summary| <font color =  #b3251c>'''Data Summary draft due'''</font color>]] Sun, Oct 4 at 10 pm<br>[https://be20109f20blog.blogspot.com/ Blog post due] Mon, Oct 5 at 10 pm
+
| [[20.109(S21):Homework#Due_M2D2| Homework due]] <br> [[20.109(S21):Mini-presentation| <font color =  #b3251c>'''Mini-presentation due'''</font color>]] Sun, Mar 28 at 10 pm <br>[http://app.slack.com/client/T01KU1VLZQB/C01KQNPD3UM Blog post due] Mon, Mar 29 at 10 pm
 
|--
 
|--
 
| M2D3
 
| M2D3
−
| T/W Oct 6/7
+
| T/W Mar 30/31
−
| [http://be.mit.edu/directory/jacquin-c-niles JN]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br> [https://mit.zoom.us/rec/share/4IANFA7azaffZDvl8OvyFof-C8ayGPf12Xp-h9EpgfH80o8gx-Nzf6UWQ9BBh9zY.yfxTtk2D9HJTYMGe Video] <br> [https://www.dropbox.com/sh/dz4jlc1b4kkmiqe/AADQWbknjnrRIbpTXpbY6GoDa?dl=0 Slides]
+
| [http://be.mit.edu/directory/angela-koehler AK] <br> [[Media:20109 M2L3 2021.pdf|Slides]]
−
| [[20.109(F20):M2D3 | Assess purity and concentration of purified protein]]<br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [https://mit.zoom.us/rec/share/tjXLQ7DEudS4ZXAEDoKGM1U1EoE9liNjUgcoP5yd9pUnlGWRn_x1yBv_Dqz-NgBQ.HgIe0-azNpTnftUB  T/R prelab video], [https://www.dropbox.com/s/5yj54i0n7ul5cx0/Fa20_M2D3_bcm.pdf?dl=0 T/R prelab slides] [[Media:Fa20 protein purification notes.pdf | purification notes]] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [https://mit.zoom.us/rec/share/6NmHjx_SOVnk2ty_0LL0gpz_ibJgls66XURl2TVxHNHYDInM8oyC2l-NuQ8rY-jg.6LhojnfjplDRvNrJ W/F prelab video], [[Media:Fa20 M2D3 nll.pdf| W/F prelab slides]] <br>
+
| [[20.109(S21):M2D3 |Prepare and scan small molecule microarray (SMM) slides]] <br> [[Media:Sp21 M2D3 bcm marked.pdf | T/R Prelab]] <br> [https://www.dropbox.com/sh/khcxnq9fyo68gvt/AACYdN42VVwvZ4WLUyp743_Na?dl=0 W/F prelab]
−
| [[20.109(F20):Homework#Due_M2D3|Homework due]]
+
| [[20.109(S21):Homework#Due_M2D3|Homework due]]
 
|--
 
|--
 
| M2D4
 
| M2D4
−
| R/F Oct 8/9
+
| R/F Apr 1/2
−
| [http://be.mit.edu/directory/jacquin-c-niles JN]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br> [https://mit.zoom.us/rec/share/dGIynwyX4ab21XVtAxIbPgquSYi2TjW9N8JEPkI7gV9dxlnrxZuUXXkKitc_j1gn.289G_71QkFTS1xko  Video] <br> [https://www.dropbox.com/sh/dz4jlc1b4kkmiqe/AADQWbknjnrRIbpTXpbY6GoDa?dl=0 Slides]
+
| [http://be.mit.edu/directory/angela-koehler AK] <br> [[Media:20109 M2L4 2021.pdf|Slides]]
−
| [[20.109(F20):M2D4 | Prepare small molecule microarray (SMM) slides with purified protein]]<br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [https://mit.zoom.us/rec/share/4k_hF0yO7q4mUMvoML08CuXCF_U-rI8c_rDCZyD4DZcFLeMDVra1Vngpxc7ph5DE.qseaDXdjiXbK8rCn  T/R prelab video], [https://www.dropbox.com/s/hmcfocxagxj9qoj/Fa20_M2D4_bcm.pdf?dl=0 T/R prelab slides] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [https://mit.zoom.us/rec/share/Wv4slQt_fdsHsBS9BmyUOCW9Kvx187zfrRg1F6A71vZrSos6wloYYql7hI-zDM-5.TRq93V2JGA76NUxk  W/F prelab video], [https://www.dropbox.com/sh/x76rndhhltlxh8f/AAAddzBoW0xL5h0H6LT1ZipSa?dl=0 W/F prelab slides] <br>
+
| [[20.109(S21):M2D4 |Analyze SMM data to identify putative small molecule binders]] <br> [[Media:Sp21 M2D4 bcm marked.pdf | T/R Prelab]] <br> [https://www.dropbox.com/sh/khcxnq9fyo68gvt/AACYdN42VVwvZ4WLUyp743_Na?dl=0 W/F prelab]
−
| <font color= #829c58 >'''Laboratory quiz'''</font color><br>[[20.109(F20):Homework#Due_M2D4|Homework due]]<br>[[20.109(F20):Mini-presentation| <font color =  #b3251c>'''Mini-presentation due'''</font color>]] Sun, Oct 11 at 10 pm
+
| <font color= #d1b217 >'''Laboratory quiz'''</font color> <br> [[20.109(S21):Homework#Due_M2D4|Homework due]]<br>[[20.109(S21):Data Summary| <font color =  #b3251c>'''Data Summary revision due'''</font color>]] Sun, Apr 4 at 10 pm <br>
 
|--
 
|--
 
|  
 
|  
−
| <font color = 999999>T/W Oct 13/14</font color>
+
| T/W Apr 6/7
 
|  
 
|  
−
| <font color = #0d368e>'''Indigenous Peoples Day holiday'''</font color>
+
| [[20.109(S21):Journal club presentation| <font color = #b3251c>'''Journal club presentations'''</font color>]]
−
| [[20.109(F20):Data Summary| <font color =  #b3251c>'''Data Summary revision due'''</font color>]] Wed, Oct 14 at 10 pm
+
|
 +
|--
 +
|
 +
| R/F Apr 8/9
 +
|
 +
| [[20.109(S21):Journal club presentation| <font color =  #b3251c>'''Journal club presentations'''</font color>]]
 +
| [http://app.slack.com/client/T01KU1VLZQB/C01KQNPD3UM Blog post due] Sat, Apr 10 at 10 pm
 
|--
 
|--
 
| M2D5
 
| M2D5
−
| R/F Oct 15/16
+
| T/W Apr 13/14
−
| [http://be.mit.edu/directory/jacquin-c-niles JN]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br> [https://mit.zoom.us/rec/share/FpZHKp2wbeQg_JjcZDHQ8vp2Swy9OviSf75xauagT482Lujhy3iFnYq2U31IF_pH.qFJ44GM9YBVxuRDO Video] <br> [https://www.dropbox.com/sh/dz4jlc1b4kkmiqe/AADQWbknjnrRIbpTXpbY6GoDa?dl=0 Slides]
+
| [http://be.mit.edu/directory/angela-koehler AK] <br> [[Media:20109 M2L5 2021.pdf|Slides]]<br> AI articles linked: [[Media:S41587-020-0418-2.pdf|here]] and [[Media:S41587-020-0417-3.pdf|here]]
−
| [[20.109(F20):M2D5 | Scan SMM slides to identify putative small molecule binders]]<br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [https://mit.zoom.us/rec/play/W2Ok0vZcxN4kU_xMz6uCjZUjrXNJWcxGeZYGaYSq5lfRm2iscXp8iGZLR2gHr0xaLqc5A6D66k4C3eOQ.dsuGTbxPFrr38-HT?autoplay=true&continueMode=true&startTime=1602792632000 T/R prelab video], [[Media:Fa20 M2D5 bcm.pdf | T/R prelab slides]] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [https://mit.zoom.us/rec/share/qRa5VRy-05qtGJ6TI3nx0yqjht3TUQOMFj72c-FMziY512hUj8ThR9-E14ae3gtB.8dhG663QBfypUeJW  W/F prelab video], [https://www.dropbox.com/sh/x76rndhhltlxh8f/AAAddzBoW0xL5h0H6LT1ZipSa?dl=0 W/F prelab slides] <br>
+
| [[20.109(S21):M2D5 |Learn best practices for mammalian cell culture ]] <br> [[Media:Sp21 M2D5 bcm marked.pdf | T/R Prelab]]<br> [[Media:Sp21_M2D5_lmm.pdf| W/F Prelab]]
−
| [[20.109(F20):Homework#Due_M2D5|Homework due]]<br>
+
| [[20.109(S21):Homework#Due_M2D5|Homework due]]<br>
 +
|--
 +
| M2D6
 +
| R/F Apr 15/16
 +
| [http://be.mit.edu/directory/angela-koehler AK] <br> [[Media:20109 M2L6 2021.pdf|Slides]]
 +
| [[20.109(S21):M2D6 |Utilize cellular thermal shift assay (CETSA) to test putative small molecule binders]] <br> [[Media:Sp21 M2D6 JCH update.pdf| T/R Prelab]]<br> [[Media:Sp21 M2D6 lmm.pdf| W/F Prelab]]
 +
| [[20.109(S21):Homework#Due_M2D6|Homework due]]<br>
 
|--
 
|--
 
|  
 
|  
−
| T/W Oct 20/21
+
| <font color = 999999>T/W Apr 20/21 </font color>
 
|  
 
|  
−
| [[20.109(F20):Journal club presentation| <font color = #b3251c>'''Journal club presentations'''</font color>]]
+
| <font color = #0d368e>'''Student holiday'''</font color>
 
|  
 
|  
−
|--
 
−
|
 
−
| R/F Oct 22/23
 
−
|
 
−
| [[20.109(F20):Journal club presentation| <font color =  #b3251c>'''Journal club presentations'''</font color>]]
 
−
| [https://be20109f20blog.blogspot.com/ Blog post due] Sun, Oct 25 at 10 pm
 
−
|--
 
−
| M2D6
 
−
| T/W Oct 27/28
 
−
| [http://be.mit.edu/directory/jacquin-c-niles JN]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br> [https://mit.zoom.us/rec/share/vcUUIslbuwKrKE9nCwC4u6CND6Thj0Y3wnats9mDjlhKZ0yUZ5U95xtp2B_5w6ag.heMvV0Dlw-ApbUeo  Video] <br> [https://www.dropbox.com/sh/dz4jlc1b4kkmiqe/AADQWbknjnrRIbpTXpbY6GoDa?dl=0 Slides]
 
−
| [[20.109(F20):M2D6 | Analyze SMM data to confirm putative small molecule binders]]<br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [https://mit.zoom.us/rec/play/8_-yqEhoAEX50nYcC9IB3LX4Rrv0cu6zISlQ57j5HWM687ZHTbUuOs5v3O-HoNT3jthF5RCPbN1GOvaI.BPfydOr9-E1hPjiW?continueMode=true T/R prelab video], [https://www.dropbox.com/s/cfusa6z8z2bvqfs/Fa20_M2D6_bcm.pdf?dl=0 T/R prelab slides] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [https://mit.zoom.us/rec/share/eempA_2TXzs_mEWr71f_xh8AFjzYp0hN1QXfHY8GoI_FgQpXwhq8kaoPMMaPSPWc.jdX3w_22eE0V57eQ  W/F prelab video], [https://www.dropbox.com/sh/x76rndhhltlxh8f/AAAddzBoW0xL5h0H6LT1ZipSa?dl=0 W/F prelab slides] <br>
 
−
| [[20.109(F20):Homework#Due_M2D6|Homework due]]<br>
 
 
|--
 
|--
 
| M2D7
 
| M2D7
−
| R/F Oct 29/30
+
| R/F Apr 22/23
−
| [http://be.mit.edu/directory/jacquin-c-niles JN]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br> [https://mit.zoom.us/rec/share/slcV6QJeOUZLOLhuhc0xtGumIQpVvKEIwOwKAc7ijTykj6DL3Ls1tPdzH7GXgQAM.-pR5_VvBe6j_0QKR  Video] <br> [https://www.dropbox.com/sh/dz4jlc1b4kkmiqe/AADQWbknjnrRIbpTXpbY6GoDa?dl=0 Slides]
+
| [http://be.mit.edu/directory/angela-koehler AK] <br> [[Media:20109 M2L7 2021.pdf|Slides]]
−
| [[20.109(F20):M2D7 | Examine putative small molecule binders for common features]] <br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [https://mit.zoom.us/rec/share/yX05CxSRGxVxKAE610t1MLgqyS8P4QNWarHrGZF_zRUAtwoz7mewijJBmKd41GDP.O-Dl6JacT-9O5Yua  T/R prelab video], [[Media:Fa20 M2D7 bcm.pdf | T/R prelab slides]] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [https://mit.zoom.us/rec/share/4PO_9K9EBOPjHoqvrWb0Kd4lo5_-IumrX9m7EVS6cKO_cizpA2G7rChJlRYnUpUL.f7y2GB8XlhodLOc4  W/F prelab video], [https://www.dropbox.com/sh/x76rndhhltlxh8f/AAAddzBoW0xL5h0H6LT1ZipSa?dl=0 W/F prelab slides] <br>
+
| [[20.109(S21):M2D7 |Complete CETSA experiment and analyze data]] <br> [[Media:Sp21 M2D7 bcm marked.pdf| T/R Prelab]]<br> [[Media:Sp21_M2D7_lmm.pdf | W/F Prelab]]
−
| <font color= #829c58 >'''Laboratory quiz'''</font color><br>[[20.109(F20):Homework#Due_M2D7|Homework due]]<br>
+
| <font color= #d1b217 >'''Laboratory quiz'''</font color> <br> [[20.109(S21):Homework#Due_M2D7|Homework due]]<br>
 
|--
 
|--
 
| colspan="6" |
 
| colspan="6" |
 
|--
 
|--
 
| M3D1
 
| M3D1
−
| T/W Nov 3/4
+
| T/W Apr 27/28
−
| [http://be.mit.edu/directory/noreen-lyell NLL]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br> [https://mit.zoom.us/rec/share/pr1Lh3PdwHqXfXlZX6IZTsdko_o_o2ARRKptp13yX4mhMLcAPG8jloLukAduKGX4.Xalztna5UiIkG7V8  Video] <br> [https://www.dropbox.com/sh/blb2r826you6m90/AABEGALoCTYkFzq6mOwHxv7ua?dl=0 Slides]
+
| [http://be.mit.edu/directory/alan-p-jasanoff AJ] <br> [[Media:2021 lect1 overview nomovies.pptx|Slides]]
−
| [[20.109(F20):M3D1 | Research project scope and experimental strategy]]<br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [https://mit.zoom.us/rec/share/kA99Bku1xgI1bMCUZxwGi5Hn54XDzor5WDzjgxn8nl9LFk7J3SdugLTWu782U7NI.sHKOjEL7KeBctF6Z T/R prelab video], [https://www.dropbox.com/s/axbpqvvfszxh8ww/Fa20_M3D1_bcm.pdf?dl=0 T/R prelab slides] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [https://mit.zoom.us/rec/share/uKWJpE6Cbc4Psr5grP8wLbNGp69neHf2u4cj5sACBo64YUgWnchH_VfhYnNkXmF1.fnTViBGY4GxXvII0  W/F prelab video], [https://www.dropbox.com/sh/x76rndhhltlxh8f/AAAddzBoW0xL5h0H6LT1ZipSa?dl=0 W/F prelab slides]<br>
+
| [[20.109(S21):M3D1 |Review IPC literature and examine structural characteristics]] <br> [[Media:Sp21 M3D1 bcm marked.pdf| T/R Prelab]]<br> [[Media:Sp21_M3D1_lmm.pdf | W/F Prelab]]
−
| [[20.109(F20):Homework#Due_M3D1|Homework due]]<br>
+
| [[20.109(S21):Homework#Due_M3D1|Homework due]] <br>
 
|--
 
|--
 
| M3D2
 
| M3D2
−
| R/F Nov 5/6
+
| R/F Apr 29/30
−
| [http://be.mit.edu/directory/noreen-lyell NLL]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br> [https://mit.zoom.us/rec/share/l2sVJO3Qc6bNYW-z3IThzEaDAuH5bemK5FgWet6fMMyjR7uIHz_64hYqiUTR9_4W.VDz0bOpLgngz6fef  Video] <br> [https://www.dropbox.com/sh/blb2r826you6m90/AABEGALoCTYkFzq6mOwHxv7ua?dl=0 Slides]
+
| [http://be.mit.edu/directory/alan-p-jasanoff AJ]<br> [[Media:2021 lect2 rationaldesign.pptx|Slides]]
−
| [[20.109(F20):M3D2 | Align gRNA sequences with genomic targets]]<br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [https://mit.zoom.us/rec/play/UUyYGXorRbiYzHFfhUWmutGqSG8pRp2ZvlvNrcXsUN7rqautmBwXTnQWzqKEw5XmfwBMwzhr_yDgaJzv.NNEUUQZe3ljsrdEH?continueMode=true T/R prelab video], [[Media:Fa20 M3D2 bcm.pdf | T/R prelab slides]] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [https://mit.zoom.us/rec/share/jxvUTG-22lSFcbZmIdjJNcFEzELqyQR2RpgmrUChfvLGsXx0U0cQ17zwYieNORNX.aodbZIjNPmFC6gLa  W/F prelab video], [https://www.dropbox.com/sh/x76rndhhltlxh8f/AAAddzBoW0xL5h0H6LT1ZipSa?dl=0 W/F prelab slides]<br>
+
| [[20.109(S21):M3D2 |Identify IPC mutations]] <br> [[Media:Sp21 M3D2 bcm marked.pdf| T/R prelab]]<br> [[Media:Sp21_M3D2_CP.pdf| W/F prelab]]
−
| [[20.109(F20):Homework#Due_M3D2|Homework due]]
+
| [[20.109(S21):Homework#Due_M3D2|Homework due]] <br> [[20.109(S21):Research article| <font color =  #b3251c>'''Research article due'''</font color>]]  Sun, May 2 at 10 pm <br> [http://app.slack.com/client/T01KU1VLZQB/C01KQNPD3UM Blog post due] Mon, May 3 at 10 pm
−
|--
+
−
|
+
−
| <font color = 999999>T/W Nov 10/11</font color>
+
−
|
+
−
| <font color = #0d368e>'''Veterans day holiday'''</font color>
+
−
| [[20.109(F20):Research article| <font color =  #b3251c>'''Research article due'''</font color>]]  Wed, Nov 11 at 10 pm <br>[https://be20109f20blog.blogspot.com/ Blog post due] Thu, Nov 12 at 10 pm
+
 
|--
 
|--
 
| M3D3
 
| M3D3
−
| R/F Nov 12/13
+
| T/W May 4/5
−
| [http://be.mit.edu/directory/noreen-lyell NLL]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br> [https://mit.zoom.us/rec/share/xL1iREP5-pvvL4WMFiafAFfdUlLrZgSZpYsrDaQoqM9d4ymSGQNS4wHFn8nLZ343.rYWIpbR3gIz5RHNz Video] <br> [https://www.dropbox.com/sh/blb2r826you6m90/AABEGALoCTYkFzq6mOwHxv7ua?dl=0 Slides]
+
| [http://be.mit.edu/directory/alan-p-jasanoff AJ] <br> [[Media:2021 lect3 binding.pptx|Slides]]
−
| [[20.109(F20):M3D3 | Analyze ethanol yield data]]<br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [ T/R prelab video], [[ T/R prelab slides]] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [ W/F prelab video], [[ W/F prelab slides]] <br>
+
| [[20.109(S21):M3D3 |Evaluate effect of mutations on IPC variants ]] <br> [[media:Sp21 M3D3 bcm marked.pdf| T/R prelab]] <br> [[media:Sp21_M3D3_lmm.pdf| W/F prelab]]
−
| <font color= #829c58 >'''Laboratory quiz'''</font color><br>[[20.109(F20):Homework#Due_M3D3|Homework due]]<br>
+
| [[20.109(S21):Homework#Due_M3D3|Homework due]]<br>
 
|--  
 
|--  
 
|  
 
|  
−
| T/W Nov 17/18
+
| R/F May 6/7
−
| Research proposal pitches <br> [https://mit.zoom.us/j/93419708072 Zoom access] <br>
+
| Research proposal pitches <br>  
−
| Develop Research proposal ideas and presentations <br>[https://mit.zoom.us/j/97716476442 T/R Zoom access]<br> [https://mit.zoom.us/j/96606548971 W/F Zoom access]
+
| [[Develop Research proposal ideas and presentations|Develop Research proposal ideas and presentations]] <br> [[Media:Sp21 Societal M3D4 HW ex.pdf| Prompts for discussion/homework]]
 
|
 
|
 
|--
 
|--
 
| M3D4
 
| M3D4
−
| R/F Nov 19/20
+
| T/W May 11/12
−
| [http://be.mit.edu/directory/noreen-lyell NLL]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br> [ Video] <br> [https://www.dropbox.com/sh/blb2r826you6m90/AABEGALoCTYkFzq6mOwHxv7ua?dl=0 Slides]
+
| [http://be.mit.edu/directory/alan-p-jasanoff AJ] <br> [[Media:2021 lect4 fluorescence.pptx|Slides]]
−
| [[20.109(F20):M3D4 | Examine features in gRNA-targeted genomic sequences]]<br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [ T/R prelab video], [[ T/R prelab slides]] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [ W/F prelab video], [[ W/F prelab slides]] <br>
+
| [[20.109(S21):M3D4 |Design new IPC variant ]] <br> [[Media:Sp21 M3D4 bcm.pdf| T/R prelab]]<br> [[Media:Sp21_M3D4_lmm.pdf | W/F prelab]]
−
| [[20.109(F20):Homework#Due_M3D4|Homework due]]
+
| <font color= #d1b217 >'''Laboratory quiz''' <br>[[20.109(S21):Homework#Due_M3D5|Homework due]]
 
|--
 
|--
−
|
 
−
| <font color = 999999>T/W Nov 24/25</font color>
 
 
|  
 
|  
−
| <font color = #0d368e>'''Thanksgiving holiday'''</font color>
+
| R/F May 13/14
 +
| [http://be.mit.edu/directory/alan-p-jasanoff AJ] <br> [[Media:2021 lect5 screening.pptx|Slides]]
 +
| [[20.109(S21):Mini-report | <font color = #b3251c>'''Mini-report due'''</font color>]] by 10 pm
 
|  
 
|  
−
|--
 
−
|
 
−
| <font color = 999999>R/F Nov 26/27</font color>
 
−
|
 
−
| <font color = #0d368e>'''Thanksgiving holiday'''</font color>
 
−
|
 
−
|--
 
−
| M3D5
 
−
| T/W Dec 1/2
 
−
| [http://be.mit.edu/directory/noreen-lyell NLL]<br> [https://mit.zoom.us/j/93419708072 Zoom access] <br> [ Video] <br> [https://www.dropbox.com/sh/blb2r826you6m90/AABEGALoCTYkFzq6mOwHxv7ua?dl=0 Slides]
 
−
| [[20.109(F20):M3D5 | Design optimized gRNA sequence for enhanced ethanol production]]<br>[https://mit.zoom.us/j/97716476442 T/R Zoom access], [ T/R prelab video], [[ T/R prelab slides]] <br> [https://mit.zoom.us/j/96606548971 W/F Zoom access], [ W/F prelab video], [[ W/F prelab slides]] <br>
 
−
| <font color= #829c58 >'''Laboratory quiz'''</font color><br>[[20.109(F20):Homework#Due_M3D5|Homework due]]
 
 
|--
 
|--
 
|  
 
|  
−
| R/F Dec 3/F
+
| T/W May 18/19
 
|  
 
|  
−
| [[20.109(F20):Research proposal presentation| <font color =  #b3251c>'''Research proposal presentations'''</font color>]]
+
| [[20.109(S21):Research proposal presentation| <font color =  #b3251c>'''Research proposal presentations'''</font color>]]
−
| [https://be20109f20blog.blogspot.com/ Blog post due] Fri, Dec 4 at 10 pm
+
| [http://app.slack.com/client/T01KU1VLZQB/C01KQNPD3UM Blog post due] Thu, May 20 at 10 pm
 
|--
 
|--
 
| colspan="6" |
 
| colspan="6" |
 
|--
 
|--
 
|  
 
|  
−
| T Dec 8
+
| R May 20
 +
| <font color =  #0d368e>'''Feedback session'''</font color> <br>
 +
| 
 
|  
 
|  
−
| <font color =  #0d368e>'''Feedback session'''</font color><br> [https://mit.zoom.us/j/93419708072 Zoom access] <br>
 
−
| [[20.109(F20):Mini-report | <font color =  #b3251c>'''Mini-report due'''</font color>]] Mon, Dec 7 at 10 pm <br>
 
 
|}
 
|}
 
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Latest revision as of 16:40, 12 May 2021

20.109(S21): Laboratory Fundamentals of Biological Engineering

Sp21 banner image v2.png

Spring 2021 schedule        FYI        Assignments        Homework        Communication |        Accessibility

       M1: Antibody engineering        M2: Drug discovery        M3: Protein engineering       


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 (Zoom access; Meeting ID 948 1521 1031)

Laboratory section times:

MODULE DATE LECTURER LABORATORY EXPERIMENTS ASSIGNMENTS
T/W Feb 16/17 NLL
Slides 		Orientation and laboratory tour
T/R prelab
W/F prelab
M1D1 R/F Feb 18/19 LM
Slides 		Generate scFv library
T/R prelab
W/F prelab 		Orientation quiz
Homework due
M1D2 T/W Feb 23/24 LM
Slides 		Enrich candidate clones from library using FACS
T/R prelab
W/F prelab 		Homework due
M1D3 R/F Feb 25/26 LM
Slides 		Harvest clone plasmids from library
T/R prelab
W/F prelab 		Homework due
M1D4 T/W Mar 2/3 LM
Slides 		Purify and sequence clone plasmids
T/R prelab
W/F prelab 		Laboratory quiz
Homework due
M1D5 R/F Mar 4/5 LM
Slides 		Analyze clone sequences and choose clone to characterize
T/R prelab
W/F prelab 		Homework due
T/W Mar 9/10 Student holiday
M1D6 R/F Mar 11/12 LM
Slides 		Characterize clone ligand binding using flow cytometry
T/R prelab
W/F prelab 		Homework due
M1D7 T/W Mar 16/17 Guest, SC
Slides 		Analyze ligand titration curves
T/R prelab
W/F prelab 		Laboratory quiz
Homework due
M2D1 R/F Mar 18/19 AK
Slides 		Perform protein purification protocol
T/R prelab
W/F prelab 		Homework due
T/W Mar 23/24 Student holiday Data Summary draft due Wed, Mar 24 at 10 pm
M2D2 R/F Mar 25/26 AK
Slides 		Assess purity and concentration of purified protein
T/R Prelab
W/F prelab 		Homework due
Mini-presentation due Sun, Mar 28 at 10 pm
Blog post due Mon, Mar 29 at 10 pm
M2D3 T/W Mar 30/31 AK
Slides 		Prepare and scan small molecule microarray (SMM) slides
T/R Prelab
W/F prelab 		Homework due
M2D4 R/F Apr 1/2 AK
Slides 		Analyze SMM data to identify putative small molecule binders
T/R Prelab
W/F prelab 		Laboratory quiz
Homework due
Data Summary revision due Sun, Apr 4 at 10 pm
T/W Apr 6/7 Journal club presentations
R/F Apr 8/9 Journal club presentations Blog post due Sat, Apr 10 at 10 pm
M2D5 T/W Apr 13/14 AK
Slides
AI articles linked: here and here 		Learn best practices for mammalian cell culture
T/R Prelab
W/F Prelab 		Homework due
M2D6 R/F Apr 15/16 AK
Slides 		Utilize cellular thermal shift assay (CETSA) to test putative small molecule binders
T/R Prelab
W/F Prelab 		Homework due
T/W Apr 20/21 Student holiday
M2D7 R/F Apr 22/23 AK
Slides 		Complete CETSA experiment and analyze data
T/R Prelab
W/F Prelab 		Laboratory quiz
Homework due
M3D1 T/W Apr 27/28 AJ
Slides 		Review IPC literature and examine structural characteristics
T/R Prelab
W/F Prelab 		Homework due
M3D2 R/F Apr 29/30 AJ
Slides 		Identify IPC mutations
T/R prelab
W/F prelab 		Homework due
Research article due Sun, May 2 at 10 pm
Blog post due Mon, May 3 at 10 pm
M3D3 T/W May 4/5 AJ
Slides 		Evaluate effect of mutations on IPC variants
T/R prelab
W/F prelab 		Homework due
R/F May 6/7 Research proposal pitches
Develop Research proposal ideas and presentations
Prompts for discussion/homework
M3D4 T/W May 11/12 AJ
Slides 		Design new IPC variant
T/R prelab
W/F prelab 		Laboratory quiz
Homework due
R/F May 13/14 AJ
Slides 		Mini-report due by 10 pm
T/W May 18/19 Research proposal presentations Blog post due Thu, May 20 at 10 pm
R May 20 Feedback session

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