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="padding:5px; border:1px solid #000000; background-color:#b3dbce33; font-size:85%;">
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<div style="font-size:118%;">
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<b>Abstract:</b><br />
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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.wtxt", section: "abstract" -->
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This unit introduces microarray and RNAseq methods to estimate mRNA expression levels in the cell.
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...
 
 
<section end=abstract />
 
<section end=abstract />
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<!-- ============================  -->
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<hr>
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<table>
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== This unit ... ==
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=== Prerequisites ===
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<td style="padding:10px;">
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<!-- included from "../components/BIN-EXPR-Analysis.components.wtxt", section: "prerequisites" -->
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<b>Objectives:</b><br />
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<!-- included from "ABC-unit_components.wtxt", section: "notes-external_prerequisites" -->
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This unit will ...
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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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* ... introduce microarray and RNAseq methods to estimate mRNA expression levels in the cell.
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<!-- included from "FND-prerequisites.wtxt", section: "central_dogma" -->
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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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<li><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.</li>
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<li><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.</li>
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<li><b>Insights</b>: If you find something particularly noteworthy about this unit, make a note in your [[ABC-Insights|'''insights!''' page]].</li>
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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 />
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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:<br />
 
*<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 "ABC-unit_components.wtxt", section: "notes-prerequisites" -->
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This unit builds on material covered in the following prerequisite units:<br />
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You need to complete the following units before beginning this one:
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<section end=prerequisites />
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*[[FND-EXPR-Measurements]]
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<!-- ============================  -->
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=== Objectives ===
 
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...
 
  
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=== Outcomes ===
 
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<!-- included from "../components/BIN-EXPR-Analysis.components.wtxt", section: "outcomes" -->
 
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...
 
  
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__TOC__
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=== Deliverables ===
 
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<!-- included from "../components/BIN-EXPR-Analysis.components.wtxt", section: "deliverables" -->
 
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<!-- included from "ABC-unit_components.wtxt", 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 "ABC-unit_components.wtxt", 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 "ABC-unit_components.wtxt", 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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=== Evaluation ===
 
=== Evaluation ===
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<!-- included from "../components/BIN-EXPR-Analysis.components.wtxt", section: "evaluation" -->
 
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<b>Evaluation: NA</b><br />
 
<b>Evaluation: NA</b><br />
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:This unit is not evaluated for course marks.
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<div style="margin-left: 2rem;">This unit is not evaluated for course marks.</div>
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== Contents ==
 
== Contents ==
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<!-- included from "../components/BIN-EXPR-Analysis.components.wtxt", section: "contents" -->
 
  
 
{{Task|1=
 
{{Task|1=
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*Read the introductory notes on {{ABC-PDF|BIN-EXPR-Analysis|the analysis of gene expression measurements}}.
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*Read the introductory notes on {{ABC-PDF|BIN-EXPR-Analysis| measuring and analysing gene expression levels}}.
 
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== Further reading, links and resources ==
 
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<!-- {{#pmid: 19957275}} -->
 
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<!-- <div class="reference-box">[http://www.ncbi.nlm.nih.gov]</div> -->
 
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== Notes ==
 
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<references />
 
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== Self-evaluation ==
 
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=== Question 1===
 
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Question ...
 
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Answer ...
 
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<b>If in doubt, ask!</b> 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.
 
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<div class="about">
 
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:2017-08-05
 
:2017-08-05
 
<b>Modified:</b><br />
 
<b>Modified:</b><br />
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:2017-08-05
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:2020-09-24
 
<b>Version:</b><br />
 
<b>Version:</b><br />
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:0.1
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:1.1
 
<b>Version history:</b><br />
 
<b>Version history:</b><br />
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*1.1 2020 Maintenance
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*1.0 First live version
 
*0.1 First stub
 
*0.1 First stub
 
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Latest revision as of 08:51, 24 September 2020

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:


     



     



     


    Evaluation

    Evaluation: NA

    This unit is not evaluated for course marks.

    Contents

    Task:


     


    About ...
     
    Author:

    Boris Steipe <boris.steipe@utoronto.ca>

    Created:

    2017-08-05

    Modified:

    2020-09-24

    Version:

    1.1

    Version history:

    • 1.1 2020 Maintenance
    • 1.0 First live version
    • 0.1 First stub

    CreativeCommonsBy.png This copyrighted material is licensed under a Creative Commons Attribution 4.0 International License. Follow the link to learn more.

    Retrieved from "http://steipe.biochemistry.utoronto.ca/abc/index.php?title=BIN-EXPR-Analysis&oldid=11626"