IGEM:MIT/2006/Introduction

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This page contains links to introductory information for the MIT iGEM team.
This page contains links to introductory information for the MIT iGEM team.
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==Lab safety==
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==Design==
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'''All people working in a biological research lab must undergo safety training.'''
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===System Design considerations===
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*Feasible system scale (numbers of parts, plasmids, chassis types)
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*Design tools - models, network diagrams
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*Moving from system->devices->parts->DNA specification
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*Likelihood of success - protein engineering, cloning, new biological techniques and new science etc.
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To complete your online safety training, visit the [[Endy:Safety_Training | '''Endy lab safety training guide''']].  (Even if you have worked in a lab before, you should visit this page and verify that your training is up to date.)
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===Abstraction hierarchy & standardization===
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This should be done before your first day in lab.
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Heather will be giving the lab-specific training <font color=red>- Day 1, Week 1</font>
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==Wiki==
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'''How-to on wiki's'''
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*[[OpenWetWare:Getting started | Getting started with wiki editing]] <font color=red>- Day 1, Week 1</font>
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*Populate the official iGEM wiki
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-
 
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==Abstraction hierarchy & standardization==
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*Parts - zinc fingers?
*Parts - zinc fingers?
*Devices - receiver?, inverter?
*Devices - receiver?, inverter?
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*PoPS and composability
*PoPS and composability
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==Registry==
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==Build==
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*Obtain accounts <font color=red>- Day 1, Week 1</font>
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===BioBricks assembly===
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*Making a part (both basic and subpart) <font color=red>- Day 1, Week 1</font>
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*BLAST
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*Sequence alignments
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==BioBricks assembly==
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*[[BioBricks]] <font color=red>- Day 1, Week 1</font>
*[[BioBricks]] <font color=red>- Day 1, Week 1</font>
*Standard assembly <font color=blue>- Day 2, Week 1</font>
*Standard assembly <font color=blue>- Day 2, Week 1</font>
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*Direct synthesis
*Direct synthesis
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==Part and device characterization==
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===Registry===
 +
*Obtain accounts <font color=red>- Day 1, Week 1</font>
 +
*Making a part (both basic and subpart) <font color=red>- Day 1, Week 1</font>
 +
*BLAST
 +
*Sequence alignments
 +
 
 +
==Test==
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===Part and device characterization===
*Plate reader characterization (i.e. Receiver)
*Plate reader characterization (i.e. Receiver)
*Flow cytometry (i.e. Screening plasmid)
*Flow cytometry (i.e. Screening plasmid)
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*RT-PCR and Westerns
*RT-PCR and Westerns
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==Searching and reading the literature==
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==Necessary skills==
 +
===Lab notebooks & documentation===
 +
'''How-to on wiki's'''<br>
 +
*[[OpenWetWare:Getting started | Getting started with wiki editing]] <font color=red>- Day 1, Week 1</font>
 +
*Populate the official iGEM wiki
 +
 
 +
===Searching and reading the literature===
*[[Searching the literature]] <font color=green>- Day 3, Week 1</font>
*[[Searching the literature]] <font color=green>- Day 3, Week 1</font>
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==Lab techniques==
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===Lab safety certification===
 +
To complete your online safety training, visit the [[Endy:Safety_Training | '''Endy lab safety training guide''']].  (Even if you have worked in a lab before, you should visit this page and verify that your training is up to date.)  This should be done before your first day in lab.
 +
 
 +
Heather will be giving the lab-specific training <font color=red>- Day 1, Week 1</font>
==Links==
==Links==
'''General introduction to ideas in Synthetic Biology'''
'''General introduction to ideas in Synthetic Biology'''
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#[[Adventures | Adventures in synthetic biology comic]] --> Learn about PoPS
#[[Adventures | Adventures in synthetic biology comic]] --> Learn about PoPS
#[http://openwetware.org/images/0/0d/Nature04342.pdf Foundations for engineering biology] --> rant by Drew Endy
#[http://openwetware.org/images/0/0d/Nature04342.pdf Foundations for engineering biology] --> rant by Drew Endy
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#Find descriptions of [http://parts2.mit.edu/wiki/index.php/Igem_2005 2005 projects]
#Find descriptions of [http://parts2.mit.edu/wiki/index.php/Igem_2005 2005 projects]
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==Week 1==
 
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Goals -
 
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*Do one assembly stage
 
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*Make a biobrick
 
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*Necessary software - VectorNTI, Registry, Wiki
 
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*Literature searching
 
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*Lab notebook & documentation
 
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===Day 1===
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==Schedules==
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====Dry Lab====
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*[[IGEM:MIT/2006/Introduction/Week 1]]
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*Safety training
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*Lab tour
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*Registry accounts
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====Wet Lab====
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*Pick a gene and design primers
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**Introduces parts
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*Start overnights
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**Introduces sterile technique, culturing,
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===Day 2===
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====Dry Lab====
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*BioBricks Construction
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====Wet Lab====
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*Prep & Digest
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Revision as of 19:21, 25 May 2006

This page contains links to introductory information for the MIT iGEM team.

Contents

Design

System Design considerations

  • Feasible system scale (numbers of parts, plasmids, chassis types)
  • Design tools - models, network diagrams
  • Moving from system->devices->parts->DNA specification
  • Likelihood of success - protein engineering, cloning, new biological techniques and new science etc.

Abstraction hierarchy & standardization

  • Parts - zinc fingers?
  • Devices - receiver?, inverter?
  • Systems - bacterial photography?
  • PoPS and composability

Build

BioBricks assembly

  • BioBricks - Day 1, Week 1
  • Standard assembly - Day 2, Week 1
  • 3A assembly
  • In frame assembly
  • Direct synthesis

Registry

  • Obtain accounts - Day 1, Week 1
  • Making a part (both basic and subpart) - Day 1, Week 1
  • BLAST
  • Sequence alignments

Test

Part and device characterization

  • Plate reader characterization (i.e. Receiver)
  • Flow cytometry (i.e. Screening plasmid)
  • Microscopy
  • RT-PCR and Westerns

Necessary skills

Lab notebooks & documentation

How-to on wiki's

Searching and reading the literature

Lab safety certification

To complete your online safety training, visit the Endy lab safety training guide. (Even if you have worked in a lab before, you should visit this page and verify that your training is up to date.) This should be done before your first day in lab.

Heather will be giving the lab-specific training - Day 1, Week 1

Links

General introduction to ideas in Synthetic Biology

  1. Adventures in synthetic biology comic --> Learn about PoPS
  2. Foundations for engineering biology --> rant by Drew Endy
  3. MIT iGEM 2004 presentation (.ppt,pdf)
  4. UT Austin and UCSF 2004 project (coliroids)
  5. Find descriptions of 2005 projects


Schedules

Personal tools