Difference between revisions of "Week 7"
From LMU BioDB 2013
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'''This journal entry is due on Friday, October 11, at midnight PDT.''' ''(Thursday night/Friday morning)'' | '''This journal entry is due on Friday, October 11, at midnight PDT.''' ''(Thursday night/Friday morning)'' | ||
| − | = | + | {{Individual Journal Instructions|week=7}} |
| − | + | {{Shared Journal Instructions|week=7}} | |
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| + | ==== Reflection ==== | ||
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| + | * How do you think biotechnology like whole genome sequencing and microarrays will affect your future? | ||
| + | ** How will it affect your career? | ||
| + | ** How will it affect your personal life? | ||
| + | ** What pitfalls can you forsee and how would you suggest avoiding them? | ||
| + | * Please feel free to respond or comment on your classmates' reflections. | ||
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| + | <!-- | ||
| + | == Overview of Microarray Data Analysis == | ||
This is a list of steps required to analyze DNA microarray data. | This is a list of steps required to analyze DNA microarray data. | ||
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# Perform Gene Ontology term enrichment analysis (we will use MAPPFinder for this) | # Perform Gene Ontology term enrichment analysis (we will use MAPPFinder for this) | ||
# Map onto biological pathways (we will use GenMAPP for this) | # Map onto biological pathways (we will use GenMAPP for this) | ||
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| + | ==== Analysis of ''Vibrio cholerae'' Microarray Data ==== | ||
* For the next section of the course, you will be introduced to the process we will use for the final projects in the course in a series of in-class and journal assignments where we will first analyze microarray data from ''Vibrio cholerae'', and then learn how to create a Gene Database for this organism. | * For the next section of the course, you will be introduced to the process we will use for the final projects in the course in a series of in-class and journal assignments where we will first analyze microarray data from ''Vibrio cholerae'', and then learn how to create a Gene Database for this organism. | ||
* The detailed instructions for the microarray data analysis we will carry out can be found on the [[BIOL398-01/S10:Sample_Microarray_Analysis_Vibrio_cholerae | Sample Microarray Analysis for ''Vibrio cholerae'' page]]. | * The detailed instructions for the microarray data analysis we will carry out can be found on the [[BIOL398-01/S10:Sample_Microarray_Analysis_Vibrio_cholerae | Sample Microarray Analysis for ''Vibrio cholerae'' page]]. | ||
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=== Background Readings === | === Background Readings === | ||
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//[http://www.nature.com/nature/journal/v406/n6795/full/406477A0.html Heidelberg et al. (2000) link to full text] | //[http://www.nature.com/nature/journal/v406/n6795/full/406477A0.html Heidelberg et al. (2000) link to full text] | ||
#Paper4 pmid=12050664 | #Paper4 pmid=12050664 | ||
| − | //[http://www.nature.com/nature/journal/v417/n6889/full/nature00778.html Merrell et al. (2002) link to full text], [[Media:Merrell_Compiled_Raw_Data_Vibrio.xls | dataset]] (on this wiki)<!--start at between-chip normalization | + | //[http://www.nature.com/nature/journal/v417/n6889/full/nature00778.html Merrell et al. (2002) link to full text], [[Media:Merrell_Compiled_Raw_Data_Vibrio.xls | dataset]] (on this wiki)<!--start at between-chip normalization |
</biblio> | </biblio> | ||
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* To be determined | * To be determined | ||
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Revision as of 19:52, 19 September 2013
Under Construction
The content in this page has not been finalized and is still subject to change. Use the current information at your own risk.
This journal entry is due on Friday, October 11, at midnight PDT. (Thursday night/Friday morning)
Individual Journal Assignment
- Store this journal entry as "username Week 7" (i.e., this is the text to place between the square brackets when you link to this page).
- Link from your user page to this Assignment page.
- Link to your journal entry from your user page.
- Link back from your journal entry to your user page.
- Don't forget to add the "Journal Entry" category to the end of your wiki page.
- Note: you can easily fulfill all of these links by adding them to your template and then using your template on your journal entry.
- Store your journal entry in the shared Class Journal Week 7 page. If this page does not exist yet, go ahead and create it (congratulations on getting in first :) )
- Link to your journal entry from your user page.
- Link back from the journal entry to your user page.
- NOTE: you can easily fulfill the links part of these instructions by adding them to your template and using the template on your user page.
- Sign your portion of the journal with the standard wiki signature shortcut (
~~~~). - Add the "Journal Entry" and "Shared" categories to the end of the wiki page (if someone has not already done so).
Reflection
- How do you think biotechnology like whole genome sequencing and microarrays will affect your future?
- How will it affect your career?
- How will it affect your personal life?
- What pitfalls can you forsee and how would you suggest avoiding them?
- Please feel free to respond or comment on your classmates' reflections.
