Difference between revisions of "BIN-FUNC-Annotation"

From "A B C"
Jump to navigation Jump to search
m
m
 
(8 intermediate revisions by the same user not shown)
Line 1: Line 1:
−
<div id="BIO">
+
<div id="ABC">
−
  <div class="b1">
+
<div style="padding:5px; border:1px solid #000000; background-color:#97bed5; font-size:300%; font-weight:400; color: #000000; width:100%;">
 
Function Annotation
 
Function Annotation
−
  </div>
+
<div style="padding:5px; margin-top:20px; margin-bottom:10px; background-color:#97bed5; font-size:30%; font-weight:200; color: #000000; ">
−
 
+
(Collect function annotation strategies; DAVID and GSEA)
−
  {{Vspace}}
+
</div>
−
 
 
−
<div class="keywords">
 
−
<b>Keywords:</b>&nbsp;
 
−
Collect function annotation strategies; DAVID and GSEA
 
 
</div>
 
</div>
  
−
{{Vspace}}
+
{{Smallvspace}}
−
 
 
−
 
 
−
__TOC__
 
−
 
 
−
{{Vspace}}
 
−
 
 
−
 
 
−
{{DEV}}
 
−
 
 
−
{{Vspace}}
 
  
  
 +
<div style="padding:5px; border:1px solid #000000; background-color:#97bed533; font-size:85%;">
 +
<div style="font-size:118%;">
 +
<b>Abstract:</b><br />
 +
<section begin=abstract />
 +
Milestone unit for functional annotation.
 +
<section end=abstract />
 
</div>
 
</div>
−
<div id="ABC-unit-framework">
+
<!-- ============================  -->
−
== Abstract ==
+
<hr>
−
<section begin=abstract />
+
<table>
−
<!-- included from "../components/BIN-FUNC-Annotation.components.wtxt", section: "abstract" -->
+
<tr>
 +
<td style="padding:10px;">
 +
<b>Objectives:</b><br />
 
...
 
...
−
<section end=abstract />
+
</td>
−
 
+
<td style="padding:10px;">
−
{{Vspace}}
+
<b>Outcomes:</b><br />
−
 
 
−
 
 
−
== This unit ... ==
 
−
=== Prerequisites ===
 
−
<!-- included from "../components/BIN-FUNC-Annotation.components.wtxt", section: "prerequisites" -->
 
−
<!-- included from "ABC-unit_components.wtxt", section: "notes-prerequisites" -->
 
−
You need to complete the following units before beginning this one:
 
−
*[[BIN-FUNC-Domain_annotation]]
 
−
*[[BIN-FUNC-Semantic_similarity]]
 
−
*[[BIN-PPI-Analysis]]
 
−
*[[BIN-PPI-Databases]]
 
−
*[[BIN-SEQA-Comparison]]
 
−
*[[BIN-SEQA-Composition]]
 
−
*[[BIN-SEQA-Cooperation]]
 
−
*[[RPR-GEO2R]]
 
−
*[[RPR-Scripting_data_downloads]]
 
−
 
 
−
{{Vspace}}
 
−
 
 
−
 
 
−
=== Objectives ===
 
−
<!-- included from "../components/BIN-FUNC-Annotation.components.wtxt", section: "objectives" -->
 
 
...
 
...
 +
</td>
 +
</tr>
 +
</table>
 +
<!-- ============================  -->
 +
<hr>
 +
<b>Deliverables:</b><br />
 +
<section begin=deliverables />
 +
<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>
 +
<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>
 +
<li><b>Insights</b>: If you find something particularly noteworthy about this unit, make a note in your [[ABC-Insights|'''insights!''' page]].</li>
 +
<section end=deliverables />
 +
<!-- ============================  -->
 +
<hr>
 +
<section begin=prerequisites />
 +
<b>Prerequisites:</b><br />
 +
This unit builds on material covered in the following prerequisite units:<br />
 +
*[[BIN-FUNC-Domain_annotation|BIN-FUNC-Domain_annotation (Domain Annotation)]]
 +
*[[BIN-FUNC-Semantic_similarity|BIN-FUNC-Semantic_similarity (Measuring "Semantic Similarity" in Ontologies)]]
 +
*[[BIN-PPI-Analysis|BIN-PPI-Analysis (PPI Analysis)]]
 +
*[[BIN-SEQA-Comparison|BIN-SEQA-Comparison (Sequence Analysis: Comparison)]]
 +
*[[BIN-SEQA-Composition|BIN-SEQA-Composition (Analysis of Sequence Composition)]]
 +
*[[BIN-SEQA-Collaboration|BIN-SEQA-Collaboration (Analysis of Collaborating Sequences)]]
 +
*[[RPR-GEO2R|RPR-GEO2R (GEO2R)]]
 +
<section end=prerequisites />
 +
<!-- ============================  -->
 +
</div>
  
−
{{Vspace}}
+
{{Smallvspace}}
  
  
−
=== Outcomes ===
 
−
<!-- included from "../components/BIN-FUNC-Annotation.components.wtxt", section: "outcomes" -->
 
−
...
 
  
−
{{Vspace}}
+
{{Smallvspace}}
  
  
−
=== Deliverables ===
+
__TOC__
−
<!-- included from "../components/BIN-FUNC-Annotation.components.wtxt", section: "deliverables" -->
 
−
<!-- included from "ABC-unit_components.wtxt", section: "deliverables-time_management" -->
 
−
*<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 "ABC-unit_components.wtxt", section: "deliverables-journal" -->
 
−
*<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 "ABC-unit_components.wtxt", section: "deliverables-insights" -->
 
−
*<b>Insights</b>: If you find something particularly noteworthy about this unit, make a note in your [[ABC-Insights|'''insights!''' page]].
 
  
 
{{Vspace}}
 
{{Vspace}}
Line 80: Line 68:
  
 
=== Evaluation ===
 
=== Evaluation ===
−
<!-- included from "../components/BIN-FUNC-Annotation.components.wtxt", section: "evaluation" -->
 
−
<!-- included from "ABC-unit_components.wtxt", section: "eval-none" -->
 
 
<b>Evaluation: NA</b><br />
 
<b>Evaluation: NA</b><br />
−
:This unit is not evaluated for course marks.
+
<div style="margin-left: 2rem;">This unit is not evaluated for course marks.</div>
−
 
 
−
{{Vspace}}
 
−
 
 
−
 
 
−
</div>
 
−
<div id="BIO">
 
 
== Contents ==
 
== Contents ==
−
<!-- included from "../components/BIN-FUNC-Annotation.components.wtxt", section: "contents" -->
 
  
−
{{Task|1=
+
<!-- {{Task|1=
−
*Read the introductory notes on {{ABC-PDF|BIN-FUNC-Annotation| annotating gene sequences with function information}}.
+
*Read the introductory notes on {{ABC-PDF|BIN-FUNC-Annotation| annotating gene sequences with function information}}. When you are done, you are redy to proceed to the [[ABC-INT-Genome_annotation|Genome Annotation]] integrator unit.
−
}}
+
}} -->
  
 +
Once you have completed all of the prerequisites, you are ready to proceed to the [[ABC-INT-Genome_annotation|Genome Annotation]] integrator unit.
  
  
−
{{Vspace}}
 
−
 
−
 
−
== Further reading, links and resources ==
 
−
<!-- {{#pmid: 19957275}} -->
 
−
<!-- {{WWW|WWW_GMOD}} -->
 
−
<!-- <div class="reference-box">[http://www.ncbi.nlm.nih.gov]</div> -->
 
  
 
{{Vspace}}
 
{{Vspace}}
  
−
 
−
== Notes ==
 
−
<!-- included from "../components/BIN-FUNC-Annotation.components.wtxt", section: "notes" -->
 
−
<!-- included from "ABC-unit_components.wtxt", section: "notes" -->
 
−
<references />
 
−
 
−
{{Vspace}}
 
−
 
−
 
−
</div>
 
−
<div id="ABC-unit-framework">
 
−
== Self-evaluation ==
 
−
<!-- included from "../components/BIN-FUNC-Annotation.components.wtxt", section: "self-evaluation" -->
 
−
<!--
 
−
=== Question 1===
 
−
 
−
Question ...
 
−
 
−
<div class="toccolours mw-collapsible mw-collapsed" style="width:800px">
 
−
Answer ...
 
−
<div class="mw-collapsible-content">
 
−
Answer ...
 
−
 
−
</div>
 
−
  </div>
 
−
 
−
  {{Vspace}}
 
−
 
−
-->
 
−
 
−
{{Vspace}}
 
−
 
−
 
−
 
−
{{Vspace}}
 
−
 
−
 
−
<!-- included from "ABC-unit_components.wtxt", section: "ABC-unit_ask" -->
 
−
 
−
----
 
−
 
−
{{Vspace}}
 
−
 
−
<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.
 
−
 
−
----
 
−
 
−
{{Vspace}}
 
  
 
<div class="about">
 
<div class="about">
Line 166: Line 91:
 
:2017-08-05
 
:2017-08-05
 
<b>Modified:</b><br />
 
<b>Modified:</b><br />
−
:2017-08-05
+
:2020-12-05
 
<b>Version:</b><br />
 
<b>Version:</b><br />
−
:0.1
+
:0.3
 
<b>Version history:</b><br />
 
<b>Version history:</b><br />
 +
*0.3 Removed link to retired function annotation notes.
 +
*0.2 2020 Maintenance
 
*0.1 First stub
 
*0.1 First stub
 
</div>
 
</div>
−
[[Category:ABC-units]]
 
−
<!-- included from "ABC-unit_components.wtxt", section: "ABC-unit_footer" -->
 
  
 
{{CC-BY}}
 
{{CC-BY}}
  
 +
[[Category:ABC-units]]
 +
{{MILESTONE}}
 +
{{LIVE}}
 
</div>
 
</div>
 
<!-- [END] -->
 
<!-- [END] -->

Latest revision as of 05:00, 5 December 2020

Function Annotation

(Collect function annotation strategies; DAVID and GSEA)


 


Abstract:

Milestone unit for functional annotation.

Objectives:
...

Outcomes:
...

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


     



     



     


    Evaluation

    Evaluation: NA

    This unit is not evaluated for course marks.

    Contents

    Once you have completed all of the prerequisites, you are ready to proceed to the Genome Annotation integrator unit.



     


    About ...
     
    Author:

    Boris Steipe <boris.steipe@utoronto.ca>

    Created:

    2017-08-05

    Modified:

    2020-12-05

    Version:

    0.3

    Version history:

    • 0.3 Removed link to retired function annotation notes.
    • 0.2 2020 Maintenance
    • 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-FUNC-Annotation&oldid=11920"