Difference between revisions of "BIN-EXPR-Analysis"

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<div style="padding:5px; border:1px solid #000000; background-color:#b3dbce; font-size:300%; font-weight:400; color: #000000; width:100%;">
 
Expression Analysis
 
Expression Analysis
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<div style="padding:5px; margin-top:20px; margin-bottom:10px; background-color:#b3dbce; font-size:30%; font-weight:200; color: #000000; ">
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(Analysing expression measurements; Microarray: spots to levels; NGS: Reads to counts)
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  {{Vspace}}
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</div>
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<div class="keywords">
 
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<b>Keywords:</b>&nbsp;
 
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Analysing expression measurements; Microarray: spots to levels; NGS: Reads to counts
 
 
</div>
 
</div>
  
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{{Smallvspace}}
  
  
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__TOC__
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<div style="font-size:118%;">
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<b>Abstract:</b><br />
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{{LIVE}}
 
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</div>
 
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<div id="ABC-unit-framework">
 
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== Abstract ==
 
 
<section begin=abstract />
 
<section begin=abstract />
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<!-- included from "./components/BIN-EXPR-Analysis.components.txt", section: "abstract" -->
 
 
This unit introduces microarray and RNAseq methods to estimate mRNA expression levels in the cell.
 
This unit introduces microarray and RNAseq methods to estimate mRNA expression levels in the cell.
 
<section end=abstract />
 
<section end=abstract />
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</div>
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{{Vspace}}
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<!-- ============================  -->
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<hr>
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<table>
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== This unit ... ==
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<tr>
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=== Prerequisites ===
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<td style="padding:10px;">
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<!-- included from "./components/BIN-EXPR-Analysis.components.txt", section: "prerequisites" -->
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<b>Objectives:</b><br />
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This unit will ...
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* ... introduce microarray and RNAseq methods to estimate mRNA expression levels in the cell.
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</td>
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<td style="padding:10px;">
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<b>Outcomes:</b><br />
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After working through this unit you ...
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* ... are familar with key methods and terminology in the field.
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</td>
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</tr>
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</table>
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<!-- ============================ -->
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<hr>
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<b>Deliverables:</b><br />
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<section begin=deliverables />
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<!-- included from "./data/ABC-unit_components.txt", section: "deliverables-time_management" -->
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*<b>Time management</b>: Before you begin, estimate how long it will take you to complete this unit. Then, record in your course journal: the number of hours you estimated, the number of hours you worked on the unit, and the amount of time that passed between start and completion of this unit.
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<!-- included from "./data/ABC-unit_components.txt", section: "deliverables-journal" -->
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*<b>Journal</b>: Document your progress in your [[FND-Journal|Course Journal]]. Some tasks may ask you to include specific items in your journal. Don't overlook these.
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<!-- included from "./data/ABC-unit_components.txt", section: "deliverables-insights" -->
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*<b>Insights</b>: If you find something particularly noteworthy about this unit, make a note in your [[ABC-Insights|'''insights!''' page]].
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<section end=deliverables />
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<!-- ============================  -->
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<hr>
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<section begin=prerequisites />
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<b>Prerequisites:</b><br />
 
<!-- included from "./data/ABC-unit_components.txt", section: "notes-external_prerequisites" -->
 
<!-- included from "./data/ABC-unit_components.txt", section: "notes-external_prerequisites" -->
 
You need the following preparation before beginning this unit. If you are not familiar with this material from courses you took previously, you need to prepare yourself from other information sources:
 
You need the following preparation before beginning this unit. If you are not familiar with this material from courses you took previously, you need to prepare yourself from other information sources:
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*<b>The Central Dogma</b>: Regulation of transcription and translation; protein biosynthesis and degradation; quality control.
 
*<b>The Central Dogma</b>: Regulation of transcription and translation; protein biosynthesis and degradation; quality control.
 
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<!-- included from "./data/ABC-unit_components.txt", section: "notes-prerequisites" -->
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You need to complete the following units before beginning this one:
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This unit builds on material covered in the following prerequisite units:
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<section end=prerequisites />
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<!-- ============================  -->
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</div>
  
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{{Vspace}}
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{{Smallvspace}}
  
  
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=== Objectives ===
 
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<!-- included from "./components/BIN-EXPR-Analysis.components.txt", section: "objectives" -->
 
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This unit will ...
 
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* ... introduce microarray and RNAseq methods to estimate mRNA expression levels in the cell.
 
  
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{{Vspace}}
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{{Smallvspace}}
  
  
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=== Outcomes ===
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__TOC__
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<!-- included from "./components/BIN-EXPR-Analysis.components.txt", section: "outcomes" -->
 
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After working through this unit you ...
 
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* ... are familar with key methods and terminology in the field.
 
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{{Vspace}}
 
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=== Deliverables ===
 
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<!-- included from "./components/BIN-EXPR-Analysis.components.txt", section: "deliverables" -->
 
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<!-- included from "./data/ABC-unit_components.txt", section: "deliverables-time_management" -->
 
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*<b>Time management</b>: Before you begin, estimate how long it will take you to complete this unit. Then, record in your course journal: the number of hours you estimated, the number of hours you worked on the unit, and the amount of time that passed between start and completion of this unit.
 
−
<!-- included from "./data/ABC-unit_components.txt", section: "deliverables-journal" -->
 
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*<b>Journal</b>: Document your progress in your [[FND-Journal|Course Journal]]. Some tasks may ask you to include specific items in your journal. Don't overlook these.
 
−
<!-- included from "./data/ABC-unit_components.txt", section: "deliverables-insights" -->
 
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*<b>Insights</b>: If you find something particularly noteworthy about this unit, make a note in your [[ABC-Insights|'''insights!''' page]].
 
  
 
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<div id="BIO">
 
 
== Contents ==
 
== Contents ==
 
<!-- included from "./components/BIN-EXPR-Analysis.components.txt", section: "contents" -->
 
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== Further reading, links and resources ==
 
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<!-- {{#pmid: 19957275}} -->
 
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<!-- {{WWW|WWW_GMOD}} -->
 
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<div class="reference-box">[https://genome.ucsc.edu/FAQ/FAQformat.html Common file format FAQ at UCSC]</div>
 
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== Notes ==
 
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<!-- included from "./components/BIN-EXPR-Analysis.components.txt", section: "notes" -->
 
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<references />
 
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== Self-evaluation ==
 
== Self-evaluation ==
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=== Question 1===
 
=== Question 1===
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== Notes ==
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<!-- included from "./data/ABC-unit_components.txt", section: "notes" -->
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<references />
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== Further reading, links and resources ==
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<!-- {{#pmid: 19957275}} -->
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<!-- {{WWW|WWW_GMOD}} -->
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<div class="reference-box">[https://genome.ucsc.edu/FAQ/FAQformat.html Common file format FAQ at UCSC]</div>
  
 
{{Vspace}}
 
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Revision as of 19:31, 26 January 2018

Expression Analysis

(Analysing expression measurements; Microarray: spots to levels; NGS: Reads to counts)


 


Abstract:

This unit introduces microarray and RNAseq methods to estimate mRNA expression levels in the cell.

Objectives:
This unit will ...

  • ... introduce microarray and RNAseq methods to estimate mRNA expression levels in the cell.

Outcomes:
After working through this unit you ...

  • ... are familar with key methods and terminology in the field.

Deliverables:

  • Time management: Before you begin, estimate how long it will take you to complete this unit. Then, record in your course journal: the number of hours you estimated, the number of hours you worked on the unit, and the amount of time that passed between start and completion of this unit.
  • Journal: Document your progress in your Course Journal. Some tasks may ask you to include specific items in your journal. Don't overlook these.
  • Insights: If you find something particularly noteworthy about this unit, make a note in your insights! page.

Prerequisites:
You need the following preparation before beginning this unit. If you are not familiar with this material from courses you took previously, you need to prepare yourself from other information sources:

  • The Central Dogma: Regulation of transcription and translation; protein biosynthesis and degradation; quality control.

This unit builds on material covered in the following prerequisite units:


 



 



 


Contents

Task:

Self-evaluation

Notes

Further reading, links and resources

Common file format FAQ at UCSC


 



 

If in doubt, ask! If anything about this learning unit is not clear to you, do not proceed blindly but ask for clarification. Post your question on the course mailing list: others are likely to have similar problems. Or send an email to your instructor.


 

About ...
 
Author:

Boris Steipe <boris.steipe@utoronto.ca>

Created:

2017-08-05

Modified:

2017-11-10

Version:

1.0
0.1

Version history:

  • 1.0 First live version
  • 0.1 First stub

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