Difference between revisions of "20.109(F16): Fall 2016 schedule"
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{{Template:20.109(F16)}} | {{Template:20.109(F16)}} | ||
<div style="padding: 10px; width: 790px; border: 5px solid #000FFF;"> | <div style="padding: 10px; width: 790px; border: 5px solid #000FFF;"> | ||
− | Welcome to 20.109! | + | |
+ | 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:'''<br> | ||
+ | '''Lecture:''' T/R 11-12 (16-220) <br> | ||
+ | '''Laboratory sections:''' T/R 1-5 or W/F 1-5 (56-322)<br> | ||
{| border=1px | {| border=1px | ||
Line 10: | Line 15: | ||
|'''LABORATORY EXPERIMENTS''' | |'''LABORATORY EXPERIMENTS''' | ||
|'''ASSIGNMENTS''' | |'''ASSIGNMENTS''' | ||
− | |||
|-- | |-- | ||
| | | | ||
| | | | ||
| R/F Sept 8/9 | | R/F Sept 8/9 | ||
− | | [http://be.mit.edu/directory/noreen-lyell NLL]<br> | + | | [http://be.mit.edu/directory/noreen-lyell NLL]<br>[[Media:Fa16 Orientation lecture.pdf| Orientation lecture]] |
− | | [[20.109(F16):Lab tour | Orientation]]<br> | + | | [[20.109(F16):Lab tour | Orientation]]<br>[[Media:MOD0_F16_LMM.pdf| Prelab T/R]]<br>[[Media:Fa16_M0D0_160909_marked.pdf| Prelab W/F]] |
− | | | + | |
| | | | ||
|-- | |-- | ||
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| T/W Sept 13/14 | | T/W Sept 13/14 | ||
| [http://be.mit.edu/directory/bevin-p-engelward BE] | | [http://be.mit.edu/directory/bevin-p-engelward BE] | ||
− | | [[20.109(F16):Prepare comet chips (Day1) | Prepare | + | | [[20.109(F16):Prepare comet chips (Day1) | Prepare microwell array and practice tissue culture]]<br>[[Media:M1D1_Fa16_LMM_1.pdf| Prelab T/R]]<br>[[Media:Fa16_M1D1_160914_marked.pdf| Prelab W/F]] |
| <font color=#04B45F>'''Lab orientation quiz'''</font color><br>[[20.109(F16):Homework#Due_M1D1| Homework due]] | | <font color=#04B45F>'''Lab orientation quiz'''</font color><br>[[20.109(F16):Homework#Due_M1D1| Homework due]] | ||
− | |||
|-- | |-- | ||
| 1 | | 1 | ||
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| R/F Sept 15/16 | | R/F Sept 15/16 | ||
| [http://be.mit.edu/directory/bevin-p-engelward BE] | | [http://be.mit.edu/directory/bevin-p-engelward BE] | ||
− | | [[20.109(F16):Test comet chip loading variables (Day2) | | + | | [[20.109(F16):Test comet chip loading variables (Day2) | Develop experiment to test loading variables and quantify growth rate]]<br>[[Media:M1D2_Fa16_LMM_1.pdf| Prelab T/R]]<br>[[Media:Fa16_M1D2_160916_marked.pdf| Prelab W/F]] |
− | | | + | |[[20.109(F16):Homework#Due_M1D2| Homework due]] |
− | | | + | |
|-- | |-- | ||
| 1 | | 1 | ||
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| T/W Sept 20/21 | | T/W Sept 20/21 | ||
| [http://be.mit.edu/directory/bevin-p-engelward BE] | | [http://be.mit.edu/directory/bevin-p-engelward BE] | ||
− | | [[20.109(F16): | + | | [[20.109(F16):Measure DNA damage with comet chip (Day3)| Test role of biochemical factors in genomic stability]]<br>[[Media:M1D3_Fa16_LMM_2.pdf| Prelab T/R]]<br>[[Media:Fa16_M1D3_160921_marked.pdf| Prelab W/F]] |
− | | [[20.109(F16):Homework#Due_M1D3| Homework due]] | + | | <font color=#04B45F>'''Lab quiz'''</font color><br> [[20.109(F16):Homework#Due_M1D3| Homework due]] |
− | + | ||
|-- | |-- | ||
| | | | ||
| | | | ||
| R/F Sept 22/23 | | R/F Sept 22/23 | ||
− | | | + | | [http://be.mit.edu/directory/bevin-p-engelward BE] |
− | | <font color = 999999>Career fair student holiday</font color> | + | | <font color = #FF0000>Lecture, but no laboratory</font color><br><font color = 999999>Career fair student holiday</font color> |
− | + | ||
| | | | ||
|-- | |-- | ||
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| 4 | | 4 | ||
| T/W Sept 27/28 | | T/W Sept 27/28 | ||
− | | [http://be.mit.edu/directory/ | + | | [http://be.mit.edu/directory/noreen-lyell NLL] |
− | | [[20.109(F16): | + | | [[20.109(F16):Asses DNA repair variability with comet chip (Day4)| Query inter-individual variability in exposure susceptibility]]<br>[[Media:M1D4_Fa16_LMM_1.pdf| Prelab T/R]]<br>[[Media:Fa16_M1D4_160928_marked.pdf| Prelab W/F]] |
| <font color=#04B45F>'''Lab quiz'''</font color><br>[[20.109(F16):Homework#Due_M1D4| Homework due]] | | <font color=#04B45F>'''Lab quiz'''</font color><br>[[20.109(F16):Homework#Due_M1D4| Homework due]] | ||
− | |||
|-- | |-- | ||
| 1 | | 1 | ||
| 5 | | 5 | ||
| R/F Sept 29/30 | | R/F Sept 29/30 | ||
− | | [http://be.mit.edu/directory/ | + | | [http://be.mit.edu/directory/bevin-p-engelward BE] |
− | | [[20.109(F16):Seed cells for immuno-flourescence assay (Day5)| | + | | [[20.109(F16):Seed cells for immuno-flourescence assay (Day5)| Develop approach for sub-nuclear visualization of DNA damage]]<br>[[Media:M1D5_Fa16_LMM_1.pdf| Prelab T/R]]<br>[[Media:Fa16_M1D5_160930_marked.pdf| Prelab W/F]] |
| [[20.109(F16):Homework#Due_M1D5| Homework due]] | | [[20.109(F16):Homework#Due_M1D5| Homework due]] | ||
− | |||
|-- | |-- | ||
| 1 | | 1 | ||
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| T/W Oct 4/5 | | T/W Oct 4/5 | ||
| [http://be.mit.edu/directory/bevin-p-engelward BE] | | [http://be.mit.edu/directory/bevin-p-engelward BE] | ||
− | | [[20.109(F16):Complete immuno-fluorescence assay (Day6)| | + | | [[20.109(F16):Complete immuno-fluorescence assay (Day6)| Query DNA repair capacity in tumor cells]]<br>[[Media:M1D6_Fa16_LMM_1.pdf| Prelab T/R]]<br>[[Media:Fa16_M1D6_161005_marked.pdf| Prelab W/F]] |
− | | [[20.109(F16):Homework#Due_M1D6| Homework due]] | + | | <font color=#04B45F>'''Lab quiz'''</font color><br>[[20.109(F16):Homework#Due_M1D6| Homework due]] |
− | + | ||
|-- | |-- | ||
| 1 | | 1 | ||
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| R/F Oct 6/7 | | R/F Oct 6/7 | ||
| [http://be.mit.edu/directory/bevin-p-engelward BE] | | [http://be.mit.edu/directory/bevin-p-engelward BE] | ||
− | | [[20.109(F16): | + | | [[20.109(F16):Data analysis (Day7)| Analysis of sub-nuclear foci]]<br>[[Media:M1D7_Fa16_LMM.pdf| Prelab T/R]]<br>[[Media:Fa16_M1D7_161007_marked.pdf| Prelab W/F]] |
− | + | | [[20.109(F16):Homework#Due_M1D7| Homework due]] | |
− | + | ||
|-- | |-- | ||
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| | | | ||
| <font color = 999999>Columbus day holiday</font color> | | <font color = 999999>Columbus day holiday</font color> | ||
− | | | + | | [[20.109(F16): M1 Data Summary| Data Summary draft due]] Wed, Oct 12 at 5 pm |
− | | | + | |
|-- | |-- | ||
| colspan="7" | | | colspan="7" | | ||
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| 1 | | 1 | ||
| R/F Oct 13/14 | | R/F Oct 13/14 | ||
− | | [http://be.mit.edu/directory/noreen-lyell NLL] | + | | [http://be.mit.edu/directory/noreen-lyell NLL]<br>[[Media:Fa16 M2D1 lecture slides.pdf|M2D1 lecture]] |
− | | [[20.109(F16):Complete in silico cloning (Day1)| Complete in silico cloning]] | + | | [[20.109(F16):Complete in silico cloning (Day1)| Complete in silico cloning]]<br>[[Media:Fa16_M2D1_LMM_1.pdf| Prelab T/R]]<br>[[Media:Fa16_M2D1_161014_marked.pdf| Prelab W/F]] |
− | | | + | | [[20.109(F16):Homework#Due_M2D1| Homework due]]<br>[[20.109(F16): M1 Mini-presentation| Mini-presentation due]] Sat, Oct 15 at 10 pm |
− | | | + | |
|-- | |-- | ||
| 2 | | 2 | ||
| 2 | | 2 | ||
| T/W Oct 18/19 | | T/W Oct 18/19 | ||
− | | [http://be.mit.edu/directory/noreen-lyell NLL] | + | | [http://be.mit.edu/directory/noreen-lyell NLL]<br> [[Media:Fa16 M2D2 lecture slides.pdf|M2D2 lecture]] |
− | | [[20.109(F16):Design gRNA for CRISPRi (Day2)| Design gRNA for CRISPRi]] | + | | [[20.109(F16):Design gRNA for CRISPRi (Day2)| Design gRNA for CRISPRi]]<br>[[Media:M2D2_Fa16_LMM_1.pdf| Prelab T/R]]<br>[[Media:Fa16_M2D2_161019_marked.pdf| Prelab W/F]] |
− | | | + | | [[20.109(F16):Homework#Due_M2D2| Homework due]] |
− | | | + | |
|-- | |-- | ||
| 2 | | 2 | ||
| 3 | | 3 | ||
| R/F Oct 20/21 | | R/F Oct 20/21 | ||
− | | [http://be.mit.edu/directory/noreen-lyell NLL] | + | | [http://be.mit.edu/directory/noreen-lyell NLL]<br>[[Media:Fa16 M2D3 lecture slides.pdf|M2D3 lecture]] |
− | | [[20.109(F16):Generate gRNA plasmid (Day3)| Generate gRNA plasmid]] | + | | [[20.109(F16):Generate gRNA plasmid (Day3)| Generate gRNA plasmid]]<br>[[Media:M2D3_Fa16_LMM_1.pdf| Prelab T/R]]<br>[[Media:Fa16_M2D3_161021_marked.pdf| Prelab W/F]]<br>[[Media:Fa16 M2D3 journal article discussion.pdf|Journal article discussion]] |
− | | | + | | [[20.109(F16):Homework#Due_M2D3| Homework due]]<br>[[20.109(F16): M1 Data Summary| Data Summary revision due]] Mon, Oct 24 at 5 pm |
− | | | + | |
|-- | |-- | ||
| 2 | | 2 | ||
| 4 | | 4 | ||
| T/W Oct 25/26 | | T/W Oct 25/26 | ||
− | | [http://be.mit.edu/directory/noreen-lyell NLL] | + | | [http://be.mit.edu/directory/noreen-lyell NLL]<br>[[Media:Fa16 M2D4 lecture slides student.pdf|M2D4 lecture]] |
| [[20.109(F16):Journal club I (Day4)| Journal club I]] | | [[20.109(F16):Journal club I (Day4)| Journal club I]] | ||
− | | | + | | <font color=#04B45F>'''Lab quiz'''</font color><br>[http://be20109f16.blogspot.com/ Blog post due] Tue, Oct 25 at 5pm |
− | + | ||
|-- | |-- | ||
| 2 | | 2 | ||
| 5 | | 5 | ||
| R/F Oct 27/28 | | R/F Oct 27/28 | ||
− | | [http://be.mit.edu/directory/noreen-lyell NLL] | + | | [http://be.mit.edu/directory/noreen-lyell NLL]<br>[[Media:Fa16 M2D5 lecture slides.pdf|M2D5 lecture]] |
− | | [[20.109(F16):Confirm gRNA sequence (Day5)| Confirm gRNA sequence]] | + | | [[20.109(F16):Confirm gRNA sequence (Day5)| Confirm gRNA sequence]]<br>[[Media:M2D5 Pre-Lab TR.pdf| Prelab T/R]]<br>[[Media:Fa16 M2D5 EmilyClark 161027 pptx.pdf| Prelab W/F]] |
− | | | + | | [[20.109(F16):Homework#Due_M2D5| Homework due]] |
− | | | + | |
|-- | |-- | ||
| 2 | | 2 | ||
| 6 | | 6 | ||
| T/W Nov 1/2 | | T/W Nov 1/2 | ||
− | | [http://be.mit.edu/directory/noreen-lyell NLL] | + | | [http://be.mit.edu/directory/noreen-lyell NLL]<br>[[Media:Fa16 M2D6 lecture slides.pdf|M2D6 lecture]] |
| [[20.109(F16):Journal club II (Day 6) | Journal club II]] | | [[20.109(F16):Journal club II (Day 6) | Journal club II]] | ||
− | | | + | | <font color=#04B45F>'''Lab quiz'''</font color><br> |
− | + | ||
|-- | |-- | ||
| 2 | | 2 | ||
| 7 | | 7 | ||
| R/F Nov 3/4 | | R/F Nov 3/4 | ||
− | | [http://be.mit.edu/directory/noreen-lyell NLL] | + | | [http://be.mit.edu/directory/noreen-lyell NLL]<br>[[Media:Fa16 M2D7 lecture slides.pdf|M2D7 lecture]] |
− | | [[20.109(F16):Induce CRISPRi system (Day7)| Induce CRISPRi system]] | + | | [[20.109(F16):Induce CRISPRi system (Day7)| Induce CRISPRi system]]<br>[[Media:M2D7_Fa16_LMM_1.pdf| Prelab T/R]]<br>[[Media:Fa16_M2D7_161104_marked.pdf| Prelab W/F]] |
− | | | + | | [[20.109(F16):Homework#Due_M2D7| Homework due]] |
− | | | + | |
|-- | |-- | ||
| 2 | | 2 | ||
| 8 | | 8 | ||
| T/W Nov 8/9 | | T/W Nov 8/9 | ||
− | | [http://be.mit.edu/directory/noreen-lyell NLL] | + | | [http://be.mit.edu/directory/noreen-lyell NLL]<br>[[Media:Fa16 M2D8 lecture slides.pdf|M2D8 lecture]] |
− | | [[20.109(F16): | + | | [[20.109(F16)::Measure_fermentation_products_(Day8) | Measure fermentation products]]<br>[[Media:M2D8_Fa16_LMM_1.pdf| Prelab T/R]]<br>[[Media:Fa16_M2D8_161109_marked.pdf| Prelab W/F]] |
− | | | + | | <font color=#04B45F>'''Lab quiz'''</font color><br>[[20.109(F16):Homework#Due_M2D8| Homework due]] |
− | | | + | |
|-- | |-- | ||
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| <font color = 999999>Veterans' day holiday</font color> | | <font color = 999999>Veterans' day holiday</font color> | ||
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|-- | |-- | ||
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| T/W Nov 15/16 | | T/W Nov 15/16 | ||
| [http://be.mit.edu/directory/angela-belcher AB] | | [http://be.mit.edu/directory/angela-belcher AB] | ||
− | | [[20.109(F16):Growth of phage materials (Day1)| Growth of phage materials]] | + | | [[20.109(F16):Growth of phage materials (Day1)| Growth of phage materials]]<br>[[Media:Fa16 M3D1 prelab slides.pdf| Prelab T/R]]<br>[[Media:Fa16_M3D1_161116_marked.pdf| Prelab W/F]] |
− | + | | [[20.109(F16):Homework#Wrapping_up_M2| Homework due]] <br> | |
− | + | ||
|-- | |-- | ||
| 3 | | 3 | ||
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| R/F Nov 17/18 | | R/F Nov 17/18 | ||
| [http://be.mit.edu/directory/angela-belcher AB] | | [http://be.mit.edu/directory/angela-belcher AB] | ||
− | | [[20.109(F16):Purify active materials (Day2)| Purify active materials]] | + | | [[20.109(F16):Purify active materials (Day2)| Purify active materials]]<br>[[Media:Fa16_M3D2_LMM.pdf| Prelab T/R]]<br>[[Media:Fa16_M3D2_161118_marked.pdf| Prelab W/F]] |
− | | [[20.109(F16):Homework#Due_M3D2| Homework due]] | + | | [[20.109(F16):Homework#Due_M3D2| Homework due]]<br>[[20.109(F16): Research article| Research article due]] Sun, Nov 20 at 5 pm <br>[http://be20109f16.blogspot.com/ Blog post due] Mon, Nov 21 at 5pm |
− | | | + | |
|-- | |-- | ||
| | | | ||
| | | | ||
| T/W Nov 22/23 | | T/W Nov 22/23 | ||
− | | | + | | |
− | | <font color = #FF0000> | + | | <font color = #FF0000>Lecture, but no laboratory</font color> |
| | | | ||
− | |||
|-- | |-- | ||
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| | | | ||
| <font color = 999999>Thanksgiving holiday</font color> | | <font color = 999999>Thanksgiving holiday</font color> | ||
− | | | + | | |
|-- | |-- | ||
| 3 | | 3 | ||
Line 205: | Line 187: | ||
| T/W Nov 29/30 | | T/W Nov 29/30 | ||
| [http://be.mit.edu/directory/angela-belcher AB] | | [http://be.mit.edu/directory/angela-belcher AB] | ||
− | | [[20.109(F16):Cathode construction (Day3)| Cathode construction]] | + | | [[20.109(F16):Cathode construction (Day3)| Cathode construction]]<br>[[Media:Fa16_M3D3_LMM_1.pdf| Prelab T/R]]<br>[[Media:Fa16_M3D3_161130_marked.pdf| Prelab W/F]] |
| <font color=#04B45F>'''Lab quiz'''</font color><br>[[20.109(F16):Homework#Due_M3D3| Homework due]] | | <font color=#04B45F>'''Lab quiz'''</font color><br>[[20.109(F16):Homework#Due_M3D3| Homework due]] | ||
− | |||
|-- | |-- | ||
| 3 | | 3 | ||
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| R/F Dec 1/2 | | R/F Dec 1/2 | ||
| [http://be.mit.edu/directory/angela-belcher AB] | | [http://be.mit.edu/directory/angela-belcher AB] | ||
− | | [[20.109(F16):TEM (Day4)| TEM]] | + | | [[20.109(F16):TEM (Day4)| TEM]]<br>[[Media:Fa16_M3D4_LMM_1.pdf| Prelab T/R]]<br>[[Media:Fa16_M3D4_161202_marked.pdf| Prelab W/F]] |
| [[20.109(F16):Homework#Due_M3D4| Homework due]] | | [[20.109(F16):Homework#Due_M3D4| Homework due]] | ||
− | |||
|-- | |-- | ||
| 3 | | 3 | ||
Line 221: | Line 201: | ||
| T/W Dec 6/7 | | T/W Dec 6/7 | ||
| [http://be.mit.edu/directory/angela-belcher AB] | | [http://be.mit.edu/directory/angela-belcher AB] | ||
− | | [[20.109(F16):Battery assembly and testing (Day5)| Battery assembly and testing]] | + | | [[20.109(F16):Battery assembly and testing (Day5)| Battery assembly and testing]]<br>[[Media:Fa16_M3D5_LMM.pdf| Prelab T/R]]<br>[[Media:Fa16_M3D5_161207_marked.pdf| Prelab W/F]] |
− | | <font color=#04B45F>'''Lab quiz'''</font color><br>[[20.109(F16):Homework#Due (after) M3D5| Homework due]] | + | | <font color=#04B45F>'''Lab quiz'''</font color><br>[[20.109(F16):Homework#Due (after) M3D5| Homework due]]<br>[http://be20109f16.blogspot.com/ Blog post due] Wed, Dec 7 at 10pm |
− | + | ||
|-- | |-- | ||
| 3 | | 3 | ||
Line 231: | Line 210: | ||
| [[20.109(F16):Research proposal presentation| Research proposal presentations]] | | [[20.109(F16):Research proposal presentation| Research proposal presentations]] | ||
| [[20.109(F16):Research proposal presentation| Research proposal presentation slides due]] Thu/Fri, Dec 8/9 at 1 pm | | [[20.109(F16):Research proposal presentation| Research proposal presentation slides due]] Thu/Fri, Dec 8/9 at 1 pm | ||
− | |||
|-- | |-- | ||
| colspan="7" | | | colspan="7" | | ||
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| | | | ||
| <font color = #00BFFF>'''Feedback and celebratory lunch'''</font color> | | <font color = #00BFFF>'''Feedback and celebratory lunch'''</font color> | ||
− | | [[20.109(F16): Biomaterials engineering mini-report | Biomaterials engineering mini-report due]] Mon, Dec 12 at 10 pm | + | | [[20.109(F16): Biomaterials engineering mini-report | Biomaterials engineering mini-report due]] Mon, Dec 12 at 10 pm <br>[http://be20109f16.blogspot.com/ Blog post due] Wed, Dec 14 at 10pm |
− | + | ||
|} | |} | ||
</div> | </div> |
Latest revision as of 18:39, 19 December 2016
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)