20.109(F12): Assignments

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<div style="padding: 10px; width: 640px; border: 5px solid #009966;">
<div style="padding: 10px; width: 640px; border: 5px solid #009966;">
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==Layout of the class==
+
==Attendance==
 +
Lab attendance is mandatory and there are no make-up labs. A family crisis or severe illness requiring attention from the infirmary and prohibiting you from all your coursework are acceptable reasons for missing lab and every effort will be made to accommodate you in these exceptional circumstances.
 +
==Assignments==
You will perform three series of experiments (called “modules”) over the course of the semester. The modules differ in length and in the ways you will be assessed. For each module, you also have the opportunity to choose a concentration area for your assessments, namely
You will perform three series of experiments (called “modules”) over the course of the semester. The modules differ in length and in the ways you will be assessed. For each module, you also have the opportunity to choose a concentration area for your assessments, namely
-
*an oral communication concentration (shown in red)  
+
*<font color = red>an oral communication concentration (shown in red)</font color>
-
*a written communication concentration (shown in blue)
+
*<font color = blue>a written communication concentration (shown in blue)</font color>
-
*an open-lab concentration (shown in green)
+
-
You and your lab partner will have to choose a concentration for each module. A description of each is shown below.
+
-
The experiments and your assignments are:  
+
You will be working as pairs throughout the semester, but you will '''<font color = purple> submit several of your assignments and presentations as individuals</font color>'''. Relevant guidelines on academic integrity from MIT policies and procedures are [http://web.mit.edu/academicintegrity/collaboration/index.html here] and [http://web.mit.edu/policies/10/10.2.html here.] Please ask one of the teaching faculty if any question arises about what constitutes collaboration, plagiarism, etc.
{| border="1"
{| border="1"
|-
|-
| '''Module'''
| '''Module'''
-
| '''Oral communication'''
+
| '''<font color = red>Oral communication concentration</font color>'''
-
| '''Written communication'''
+
| '''<font color = blue>Written communication concentration</font color>'''
-
| '''Open-lab communication'''
+
|--
-
| '''Due date'''
+
| colspan="3" |
-
| '''% of Final Grade (total)'''
+
|--
 +
| colspan="3" |
 +
|--
 +
|''' 1'''
 +
|colspan="2" | '''<center>totals 20% of final grade </center>'''
 +
|--
 +
|
 +
|<font color = red>Lab certifications </font color>(10%)
 +
|<font color = blue>Lab certifications </font color>(10%)
|-
|-
-
| 1
 
-
|
 
|  
|  
 +
|<font color = red>Online cloning lab and defense </font color>(5%)
 +
|<font color = blue>M1 ppt summary and notes </font color>(10%)
 +
|-
|  
|  
 +
|<font color = red>FACS data analysis and defense </font color>(5%)
|
|
-
| 10%
+
|--
 +
| colspan="3" |
 +
|--
 +
| colspan="3" |
 +
|--
 +
| '''2'''
 +
| colspan="2" | '''<center>totals 35% of final grade </center>'''
 +
|--
 +
|
 +
|<font color = red>Slides for Journal Club Presentation </font color>(10%)
 +
|<font color = blue>Slides for Journal Club Presentation </font color>(10%)
|-
|-
-
|2
 
-
|
 
|  
|  
-
|
+
|<font color = red>Journal Club Presentation </font color>(10%)
-
|
+
|<font color = blue>Full Research Article </font color>(25%)
-
| 35
+
|-
|-
-
| 3
 
-
|
 
|  
|  
 +
|<font color = red>Results and Discussion</font color> (15%)
|
|
 +
|--
 +
| colspan="3" |
 +
|--
 +
| colspan="3" |
 +
|--
 +
|''' 3'''
 +
|colspan="2" | '''<center>totals 25% of final grade </center>'''
 +
|--
|
|
-
| 20
+
| <font color = red>Written Research Pre-Proposal </font color>(10%)
-
|}
+
| <font color = blue>Written Research Pre-Proposal </font color>(10%)
-
| also in 1
+
-
+
-
|
+
-
| 10
+
|-
|-
-
| overall
 
|
|
-
| [[20.109(F11):Blogging and summary thoughts| "Blog & Summary"]]
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| <font color = red>Oral Presentation of Research Proposal</font color> (15%)
-
| 5
+
| <font color = blue>Written Research Proposal </font color>(15%)
 +
|--
 +
| colspan="3" |
 +
|--
 +
| colspan="3" |
 +
|--
|}
|}
 +
===Some important notes===
 +
#You and your lab partner must choose the same concentration area for each module.
 +
#We encourage but do not require that you try a different concentration for Modules 2 and 3.
 +
#You are locked into your decisions for the term by the end M1D3.
 +
#'''Late work is penalized 1/3 of a letter grade each day late.'''
 +
#Only work turned in on time is guaranteed timely or extensive feedback.
 +
==[[20.109(F12): Module 1 celebrations of learning| Mod 1 assignments]]==
 +
==[[20.109(F12): Module 2 celebrations of learning| Mod 2 assignments]]==
 +
==[[20.109(F12): Module 3 celebrations of learning| Mod 3 assignments]]==
 +
==All term, independent of concentration==
 +
===<center>5% Pre-lab Quiz Questions</center>===
 +
Most lab days will start with a 3 question quiz about the content on the wiki for that day and ideas that have been covered in lecture during the module. These quizzes are NOT MEANT TO BE SUPER HARD! They are intended to keep everyone familiar with the relevant material for lab that day.<br>
 +
You will be assigned a day to write three questions in advance of lab, submit these questions and your answer key to the TA 24 hours in advance of lab. Your grade for lab quizzes will be the grade you receive on the quizzes you take, and the grade the TA assigns to the questions you write.
-
You will be working as pairs throughout the semester, but you will <font color = red> submit individual lab reports and give individual oral presentations</font color>. Relevant guidelines from MIT policies and procedures are [http://web.mit.edu/academicintegrity/collaboration/index.html here] and [http://web.mit.edu/policies/10/10.2.html here.] Please ask one of the teaching faculty if any question arises about what constitutes collaboration, plagiarism, etc.
+
===<center>[[20.109(F12):Guidelines for maintaining your lab notebook| 10% Lab Notebooks]]</center>===
-
 
+
These will be reviewed by the TA once each module. You will be graded on a check minus (=75%), check (=85%), check plus (=95%) scale. The requirements for your notebooks are described [[20.109(F12):Guidelines for maintaining your lab notebook| here.]]
-
In addition to the assignments listed above there will be
+
The yellow sheets of your lab notebooks must be turned in to the TA after lab on
-
*'''Daily Lab Quizzes''' (5% of final grade)
+
**'''M1D3:''' 9.18.12 (T/R lab) or 9.19.12 (W/F lab)
-
**These are intended to refresh your memory about the experiment you are performing. They will not be hard and should take no more than 5 minutes at the beginning of lab.
+
**'''M2D3:''' 10.18.12 (T/R lab) or 10.19.12 (W/F lab)  
-
*'''Homework Assignments''' (10% of final grade)
+
**'''M3D4:''' 11.29.12 (T/R lab) or 11.30.12 (W/F lab) <br>
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**These will vary considerably in content and points associated with each assignment. You may be asked to perform a calculation, draw a conclusion, and/or make a figure using the data you have collected. The homeworks can be found in the "for next time" section of each lab day. <font color = red> You can work with your lab partner, friends and teaching assistants on these assignments but you will hand in individual assignments. </font color>
+
They will be returned at the start of your next lab period. <br>
-
*'''Laboratory Notebooks''' (5% of final grade)
+
===<center>[[20.109(F12): Reflections| 5% Reflections]]</center>===
-
**You will record your data on the white pages of a bound notebook. The yellow, duplicate pages will be collected and evaluated by the teaching assistants. Guidelines for notebook keeping are [[20.109(F11):Guidelines for maintaining your lab notebook| here.]]  
+
'''Once each module''' you should post '''on the order of 250-300 words''' that capture your thinking as it relates to 20.109. '''At the end of the term''', you should collect your posts into one document, re-read them all and then provide your summary reflections for the term. '''The summary can be posted to our Stellar site or the blog, whichever you prefer.''' The link to our class blog is [http://20109blog.21classes.com/ here,] and even more details and guidance about this assignment can be found [[20.109(F12): Reflections| here.]]  
-
 
+
*'''Blog post for Module 1:''' Not later than Friday Oct 5th at midnight
-
<font color= red><b>Late work will be penalized 1/3 of a letter grade for each day late and will not be accepted after a week.</b></font color>
+
** possible topics
-
 
+
***your impressions of the "virtual" lab work vs the "real" lab work
-
==Lab Attendance==
+
***your decision to focus on oral vs written communication assignments
-
 
+
*'''Blog post for Module 2:''' Not later than Wednesday Nov 7th at midnight
-
Lab attendance is mandatory and there are no make-up labs. A family crisis or severe illness requiring attention from the infirmary and prohibiting you from all your coursework are acceptable reasons for missing lab and every effort will be made to accommodate you in these exceptional circumstances.
+
** possible topics
 +
***major take-away lessons from your oral presentation feedback (on slides or videotape)
 +
***challenging/satisfying aspects of writing up your own data
 +
***realizations from both reading journal articles and writing articles (results/discussion or entire article)
 +
*'''Blog post for Module 3:''' Not later than Wed Dec 5th at midnight
 +
** possible topics
 +
***pathway to identifying your own research topics
 +
***challenges and benefits of working in groups vs individually
 +
***oral- vs written- communication concentrations: your learning, ongoing challenges, discovered strengths
 +
*'''Final Summary:''' Not later than Tuesday Dec 11th at 11AM
==Direct links to major assignments and guidelines==
==Direct links to major assignments and guidelines==
-
[[20.109(F11):DNA engineering lab practical| Module 1 lab practical]]<br>
+
*[[20.109(F12): Lab certifications| Lab certifications]]
-
[[20.109(F11):DNA engineering powerpoint summary| Module 1 powerpoint summary]]<br>
+
*[[20.109(F12): Online cloning lab and defense| Online cloning lab and defense]]
-
[[20.109(F11): System engineering research article| Module 2: Research article guidelines]]<br>
+
*[[20.109(F12): FACS data analysis and defense| FACS data analysis and defense]]
-
[[20.109(F11): Mod 3 Day 6 Oral presentations| Module 3: Research proposal guidelines]]<br>
+
*[[20.109(F12): M1 ppt summary and notes| M1 ppt summary and notes]]
-
[[20.109(F11):Blogging and summary thoughts| "Blog & Summary"]]<br>
+
*[[20.109(F12): Slides for Journal Club Presentation| Slides for Journal Club Presentation]]
 +
*[[20.109(F12):Guidelines for oral presentations| Journal Club Presentation]], for general guidelines.
 +
*[[20.109(F12): System engineering research article| Results and Discussion sections]]
 +
*[[20.109(F12): System engineering research article| Full research article]]
 +
*[[20.109%28F12%29:_Written_research_pre-proposal | Written Research Pre-Proposal]], using this [[20.109(F12): Pre-proposal template| template.]]
 +
*[[20.109%28F12%29:_Oral_presentation_of_research_proposal | Oral Presentation of Research Proposal ]]
 +
*[[20.109%28F12%29:_Written_research_proposal | Written Research Proposal]]
 +
*[[20.109(F12): Reflections| Blog and Summary/Reflections]]
-
[[20.109(F11):Guidelines for writing up your research| General guidelines for writing up your research]] <br>
+
[[20.109(F12):Guidelines for writing up your research| General guidelines for writing up your research]] <br>
-
[[20.109(F11):Guidelines for oral presentations| General guidelines for giving scientific talks]]
+
[[20.109(F12):Guidelines for oral presentations| General guidelines for giving scientific talks]]

Current revision

20.109(F12): Laboratory Fundamentals of Biological Engineering

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Contents

Attendance

Lab attendance is mandatory and there are no make-up labs. A family crisis or severe illness requiring attention from the infirmary and prohibiting you from all your coursework are acceptable reasons for missing lab and every effort will be made to accommodate you in these exceptional circumstances.

Assignments

You will perform three series of experiments (called “modules”) over the course of the semester. The modules differ in length and in the ways you will be assessed. For each module, you also have the opportunity to choose a concentration area for your assessments, namely

  • an oral communication concentration (shown in red)
  • a written communication concentration (shown in blue)

You will be working as pairs throughout the semester, but you will submit several of your assignments and presentations as individuals. Relevant guidelines on academic integrity from MIT policies and procedures are here and here. Please ask one of the teaching faculty if any question arises about what constitutes collaboration, plagiarism, etc.

Module Oral communication concentration Written communication concentration
1
totals 20% of final grade
Lab certifications (10%) Lab certifications (10%)
Online cloning lab and defense (5%) M1 ppt summary and notes (10%)
FACS data analysis and defense (5%)
2
totals 35% of final grade
Slides for Journal Club Presentation (10%) Slides for Journal Club Presentation (10%)
Journal Club Presentation (10%) Full Research Article (25%)
Results and Discussion (15%)
3
totals 25% of final grade
Written Research Pre-Proposal (10%) Written Research Pre-Proposal (10%)
Oral Presentation of Research Proposal (15%) Written Research Proposal (15%)

Some important notes

  1. You and your lab partner must choose the same concentration area for each module.
  2. We encourage but do not require that you try a different concentration for Modules 2 and 3.
  3. You are locked into your decisions for the term by the end M1D3.
  4. Late work is penalized 1/3 of a letter grade each day late.
  5. Only work turned in on time is guaranteed timely or extensive feedback.

Mod 1 assignments

Mod 2 assignments

Mod 3 assignments

All term, independent of concentration

5% Pre-lab Quiz Questions

Most lab days will start with a 3 question quiz about the content on the wiki for that day and ideas that have been covered in lecture during the module. These quizzes are NOT MEANT TO BE SUPER HARD! They are intended to keep everyone familiar with the relevant material for lab that day.
You will be assigned a day to write three questions in advance of lab, submit these questions and your answer key to the TA 24 hours in advance of lab. Your grade for lab quizzes will be the grade you receive on the quizzes you take, and the grade the TA assigns to the questions you write.

10% Lab Notebooks

These will be reviewed by the TA once each module. You will be graded on a check minus (=75%), check (=85%), check plus (=95%) scale. The requirements for your notebooks are described here. The yellow sheets of your lab notebooks must be turned in to the TA after lab on

    • M1D3: 9.18.12 (T/R lab) or 9.19.12 (W/F lab)
    • M2D3: 10.18.12 (T/R lab) or 10.19.12 (W/F lab)
    • M3D4: 11.29.12 (T/R lab) or 11.30.12 (W/F lab)

They will be returned at the start of your next lab period.

5% Reflections

Once each module you should post on the order of 250-300 words that capture your thinking as it relates to 20.109. At the end of the term, you should collect your posts into one document, re-read them all and then provide your summary reflections for the term. The summary can be posted to our Stellar site or the blog, whichever you prefer. The link to our class blog is here, and even more details and guidance about this assignment can be found here.

  • Blog post for Module 1: Not later than Friday Oct 5th at midnight
    • possible topics
      • your impressions of the "virtual" lab work vs the "real" lab work
      • your decision to focus on oral vs written communication assignments
  • Blog post for Module 2: Not later than Wednesday Nov 7th at midnight
    • possible topics
      • major take-away lessons from your oral presentation feedback (on slides or videotape)
      • challenging/satisfying aspects of writing up your own data
      • realizations from both reading journal articles and writing articles (results/discussion or entire article)
  • Blog post for Module 3: Not later than Wed Dec 5th at midnight
    • possible topics
      • pathway to identifying your own research topics
      • challenges and benefits of working in groups vs individually
      • oral- vs written- communication concentrations: your learning, ongoing challenges, discovered strengths
  • Final Summary: Not later than Tuesday Dec 11th at 11AM

Direct links to major assignments and guidelines

General guidelines for writing up your research

General guidelines for giving scientific talks
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