Arking:JCAOligoTutorialHome: Difference between revisions

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{| class="wikitable" border="0" cellpadding="5" cellspacing="1" style="text-align:center"
!width="25%" align="left" valign="top" style="background:#2171B8; color:white"|
<span style='font-size:18.0pt'>
Synthetic Biology Tutorial<br>
</span>
|-
|}
<div class="tabs-blue">
<ul>
<li>[[User:JCAnderson| Home]]</li>
<li>[[Arking:BerkelyiGEm | Teaching]]</li>
<li >[[Arking:JCAProtocols|Protocols]]</li>
<li id="current">[[Arking:JCAOligoTutorialHome | Tutorials]]</li>
</ul>
</div>
<br>
<br>
==Lectures==
If you'd like a more advanced series of topics, you might check out my video lectures:
http://www.youtube.com/channel/UCSVDJJWZ77tOzwl4L9nyg2w/videos?view=1&sort=da&flow=list
==The Basics==
'''Think the "Central Dogma" involves a kennel of chihuahuas?  You need to start here with the basics.'''
<span style='font-size:18.0pt'>
[[Media:Bare_Bones_Biochemistry.pdf]]
</span>
<br>
<br>
<span style='font-size:18.0pt'>
[http://andersonlab.qb3.berkeley.edu/Tutorials/Basic_Molecular_Biology.pdf Basic Molecular Biology]
</span>
<br>
<br>
<span style='font-size:18.0pt'>
[[JCAOligoTutorialDNA | Practical DNA]]
</span>
<br>
<br>
<span style='font-size:18.0pt'>
[[JCAOligoTutorialPCR| What is PCR?]]
</span>
<br>
<br>
==Introduction to Biobricks and Basic Cloning==
==Introduction to Biobricks and Basic Cloning==
'''This tutorial is best used in conjunction with the sequence editor ApE.  Read the section about ApE for a description of how to install it.'''
'''This tutorial is best used in conjunction with the sequence editor ApE.  Read the section about ApE for a description of how to install it.'''
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<br>
<br>


==Experimental Design==
==Technical Design==
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutorial1b | Basic Oligo Design]]
[[Arking:JCAOligoTutorial1 | (old)]]
</span>
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<span style='font-size:18.0pt'>
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutorial1 | Basic Oligo Design]]
[[Arking:JCAOligoTutorial2b | Special Case: Single Internal Restriction Sites]]
[[Arking:JCAOligoTutorial2 | (old)]]
</span>
</span>
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<br>
<span style='font-size:18.0pt'>
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutorial2 | Special Case: Single Internal Restriction Sites]]
[[Arking:JCAOligoTutoria21 | Construction of short parts]]
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</span>
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<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutorial5 | Design of composite parts]]
[[Arking:JCAOligoTutorial5 | Design of composite parts]]
</span>
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<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutorial9 | Keeping track of construction files]]
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==Experimental Implementation==
 
==Advanced Technical Design==
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutoria20 | Working with Translational Fusions]]
</span>
<br>
<br>
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutoria22 | Circularly Permuted Proteins]]
</span>
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<br>
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutoria23 | The "what did they make" game]]
</span>
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<br>
 
==Implementation==
<span style='font-size:18.0pt'>
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutorial3 | Implementing the Basic Construction File]]
[[Arking:JCAOligoTutorial3 | Implementing the Basic Construction File]]
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==Introduction to Structural Biology and Part Engineering==
<span style='font-size:18.0pt'>
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutorial4 | DBBS Composite Part Assembly]]
[[Arking:JCAOligoTutoria24 | DeepView Basics]]
</span>
</span>
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<br>
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<span style='font-size:18.0pt'>
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutorial7 | Common Pitfalls]]
[[Arking:JCAOligoTutoria25 | Tour of Structural Biology]]
[[Arking:JCAOligoTutorial8 | Common Pitfalls]]
</span>
[[Arking:JCAOligoTutorial9 | Common Pitfalls]]
<br>
[[Arking:JCAOligoTutoria20 | Common Pitfalls]]
<br>
 
==Things you should know==
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutorial7 | Common Pitfalls and Tips]]
</span>
<br>
<br>
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutorial8 | Origins of replication]]
</span>
</span>
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<br>
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<span style='font-size:18.0pt'>
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutorial19 | The Critical Path]]
</span>
<br>
<br>
----
[[Retired Sections]]<br>
[[Arking:JCAOligoTutorialToBeAdded | To Be Added]]
[[Arking:JCAOligoTutorialToBeAdded | To Be Added]]
</span><br>
{{Template:JCA_Arkin_tutorialfooter}}<br>
<br>
 
{{Template:JCA_Arkin_tutorialfooter}}
[[Arking:JCAOligoTutoria26 | . ]]
[[Arking:JCAOligoTutoria27 | . ]]
[[Arking:JCAOligoTutoria28 | . ]]

Revision as of 21:32, 26 January 2014

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Synthetic Biology Tutorial



Lectures

If you'd like a more advanced series of topics, you might check out my video lectures: http://www.youtube.com/channel/UCSVDJJWZ77tOzwl4L9nyg2w/videos?view=1&sort=da&flow=list

The Basics

Think the "Central Dogma" involves a kennel of chihuahuas? You need to start here with the basics.

Media:Bare_Bones_Biochemistry.pdf

Basic Molecular Biology

Practical DNA

What is PCR?

Introduction to Biobricks and Basic Cloning

This tutorial is best used in conjunction with the sequence editor ApE. Read the section about ApE for a description of how to install it.

Installing ApE

Overview of Cloning

Introduction to Biobricks

Introduction to Refactoring

Technical Design

Basic Oligo Design (old)

Special Case: Single Internal Restriction Sites (old)

Construction of short parts

Design of composite parts

Keeping track of construction files

Sequencing Analysis

Advanced Technical Design

Working with Translational Fusions

Circularly Permuted Proteins

The "what did they make" game

Implementation

Implementing the Basic Construction File

Introduction to Structural Biology and Part Engineering

DeepView Basics

Tour of Structural Biology

Things you should know

Common Pitfalls and Tips

Origins of replication

The Critical Path


Retired Sections
To Be Added

If you have any comments or want to report a potential error in the tutorial, please email me (Chris Anderson) at JCAnderson2167-at-gmail.com

. . .

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