Arking:JCAOligoTutorialHome: Difference between revisions

From OpenWetWare
Jump to navigationJump to search
(Undo revision 230334 by JCAnderson (Talk))
(38 intermediate revisions by the same user not shown)
Line 1: Line 1:
__NOTOC__
__NOTOC__
<html><head>
<script type="text/javascript">
  var _gaq = _gaq || [];
  _gaq.push(['_setAccount', 'UA-19472149-5']);
  _gaq.push(['_trackPageview']);
  (function() {
    var ga = document.createElement('script'); ga.type = 'text/javascript'; ga.async = true;
    ga.src = ('https:' == document.location.protocol ? 'https://ssl' : 'http://www') + '.google-analytics.com/ga.js';
    var s = document.getElementsByTagName('script')[0]; s.parentNode.insertBefore(ga, s);
  })();
</script>
</head></html>
{| class="wikitable" border="0" cellpadding="5" cellspacing="1" style="text-align:center"
{| class="wikitable" border="0" cellpadding="5" cellspacing="1" style="text-align:center"
!width="25%" align="left" valign="top" style="background:#2171B8; color:white"|
!width="25%" align="left" valign="top" style="background:#2171B8; color:white"|
<span style='font-size:18.0pt'>
<span style='font-size:18.0pt'>
Basic Cloning and Biobrick Assembly Tutorial<br>
Synthetic Biology Tutorial<br>
</span>
</span>
|-
|-
Line 10: Line 26:
<ul>
<ul>
<li>[[User:JCAnderson| Home]]</li>
<li>[[User:JCAnderson| Home]]</li>
<li>[[Arking:BerkelyiGEm | iGEM]]</li>
<li>[[Arking:BerkelyiGEm | Teaching]]</li>
<li >[[Arking:JCAProtocols|Protocols]]</li>
<li >[[Arking:JCAProtocols|Protocols]]</li>
<li id="current">[[Arking:JCAOligoTutorialHome | Tutorials]]</li>
<li id="current">[[Arking:JCAOligoTutorialHome | Tutorials]]</li>
Line 17: Line 33:
<br>
<br>
<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==
==The Basics==
'''Think the "Central Dogma" involves a kennel of chihuahuas?  You need to start here with 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'>
<span style='font-size:18.0pt'>
[http://andersonlab.qb3.berkeley.edu/Tutorials/Bare_Bones_Biochemistry.htm Bare bones biochemistry]
[[Media:Bare_Bones_Biochemistry.pdf]]
</span>
</span>
<br>
<br>
<br>
<br>
<span style='font-size:18.0pt'>
<span style='font-size:18.0pt'>
[[Anderson:JCATutorialIntro20 | Basic molecular biology]]
[http://andersonlab.qb3.berkeley.edu/Tutorials/Basic_Molecular_Biology.pdf Basic Molecular Biology]
</span>
</span>
<br>
<br>
Line 65: Line 85:
<br>
<br>


==Experimental Design==
==Technical Design==
<span style='font-size:18.0pt'>
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutorial1 | Basic Oligo Design]]
[[Arking:JCAOligoTutorial1b | Basic Oligo Design]]
[[Arking:JCAOligoTutorial1 | (old)]]
</span>
</span>
<br>
<br>
<br>
<br>
<span style='font-size:18.0pt'>
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutorial2 | Special Case: Single Internal Restriction Sites]]
[[Arking:JCAOligoTutorial2b | Special Case: Single Internal Restriction Sites]]
[[Arking:JCAOligoTutorial2 | (old)]]
</span>
<br>
<br>
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutoria21 | Construction of short parts]]
</span>
</span>
<br>
<br>
Line 92: Line 119:
<br>
<br>


==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>
<br>
<br>
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutoria23 | The "what did they make" game]]
</span>
<br>
<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]]
</span>
<br>
<br>
==Introduction to Structural Biology and Part Engineering==
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutoria24 | DeepView Basics]]
</span>
</span>
<br>
<br>
<br>
<br>
<span style='font-size:18.0pt'>
<span style='font-size:18.0pt'>
[[Arking:JCAOligoTutorial4 | DBBS Composite Part Assembly]]
[[Arking:JCAOligoTutoria25 | Tour of Structural Biology]]
</span>
</span>
<br>
<br>
<br>
<br>
==Things you should know==
==Things you should know==
<span style='font-size:18.0pt'>
<span style='font-size:18.0pt'>
Line 119: Line 171:
<br>
<br>
<br>
<br>
<span style='font-size:18.0pt'>
 
 
----
[[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

<html><head> <script type="text/javascript"> 

 var _gaq = _gaq || [];
 _gaq.push(['_setAccount', 'UA-19472149-5']);
 _gaq.push(['_trackPageview']);

 (function() {
   var ga = document.createElement('script'); ga.type = 'text/javascript'; ga.async = true;
   ga.src = ('https:' == document.location.protocol ? 'https://ssl' : 'http://www') + '.google-analytics.com/ga.js';
   var s = document.getElementsByTagName('script')[0]; s.parentNode.insertBefore(ga, s);
 })();

</script> </head></html>

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

. . .

Retrieved from "https://openwetware.org/mediawiki/index.php?title=Arking:JCAOligoTutorialHome&oldid=766463"