https://xmlpipedb.lmucs.io/biodb/fall2015/index.php?action=history&feed=atom&title=Bklein7_Week_8 Bklein7 Week 8 - Revision history 2026-06-07T00:45:57Z Revision history for this page on the wiki MediaWiki 1.25.1 https://xmlpipedb.lmucs.io/biodb/fall2015/index.php?title=Bklein7_Week_8&diff=3358&oldid=prev Bklein7: minor grammatical edit 2015-10-27T01:18:57Z <p>minor grammatical edit</p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;'> <td colspan='2' style="background-color: white; color:black; text-align: center;">← Older revision</td> <td colspan='2' style="background-color: white; color:black; text-align: center;">Revision as of 01:18, 27 October 2015</td> </tr><tr><td colspan="2" class="diff-lineno" id="L303" >Line 303:</td> <td colspan="2" class="diff-lineno">Line 303:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Conclusion==</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Conclusion==</div></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>This week, I conducted an analysis of the raw data generated by a real DNA microarray experiment. This process started with statistically analyzing the raw data to yield normalized log fold change values for the different genes and calculate their statistical significance. Subsequently, this data was reformatted and imported into the program GenMAPP, which used the results of this statistical analysis to create a global gene expression profile for the microarray data. By identifying the most significant gene ontology terms in this expression profile, insights about the expression changes in the experimental microarray group were gleaned. These expression changes were applied to the experimental context of the experiment performed by Merrell et al. In doing so, conclusions were drawn about why pathogenic &#039;&#039;V. cholerae&#039;&#039; exhibit these expression changes, which I argued was because these pathogenic bacteria <del class="diffchange diffchange-inline">need a </del>higher resistance to the stresses present in the human gastrointestinal tract to survive.</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>This week, I conducted an analysis of the raw data generated by a real DNA microarray experiment. This process started with statistically analyzing the raw data to yield normalized log fold change values for the different genes and calculate their statistical significance. Subsequently, this data was reformatted and imported into the program GenMAPP, which used the results of this statistical analysis to create a global gene expression profile for the microarray data. By identifying the most significant gene ontology terms in this expression profile, insights about the expression changes in the experimental microarray group were gleaned. These expression changes were applied to the experimental context of the experiment performed by Merrell et al. In doing so, conclusions were drawn about why pathogenic &#039;&#039;V. cholerae&#039;&#039; exhibit these expression changes, which I argued was because these pathogenic bacteria <ins class="diffchange diffchange-inline">require </ins>higher resistance to the stresses present in the human gastrointestinal tract to survive.</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Links==</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Links==</div></td></tr> </table> Bklein7 https://xmlpipedb.lmucs.io/biodb/fall2015/index.php?title=Bklein7_Week_8&diff=3357&oldid=prev Bklein7: added conclusion 2015-10-27T01:17:59Z <p>added conclusion</p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;'> <td colspan='2' style="background-color: white; color:black; text-align: center;">← Older revision</td> <td colspan='2' style="background-color: white; color:black; text-align: center;">Revision as of 01:17, 27 October 2015</td> </tr><tr><td colspan="2" class="diff-lineno" id="L303" >Line 303:</td> <td colspan="2" class="diff-lineno">Line 303:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Conclusion==</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Conclusion==</div></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>This week</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>This week<ins class="diffchange diffchange-inline">, I conducted an analysis of the raw data generated by a real DNA microarray experiment. This process started with statistically analyzing the raw data to yield normalized log fold change values for the different genes and calculate their statistical significance. Subsequently, this data was reformatted and imported into the program GenMAPP, which used the results of this statistical analysis to create a global gene expression profile for the microarray data. By identifying the most significant gene ontology terms in this expression profile, insights about the expression changes in the experimental microarray group were gleaned. These expression changes were applied to the experimental context of the experiment performed by Merrell et al. In doing so, conclusions were drawn about why pathogenic &#039;&#039;V. cholerae&#039;&#039; exhibit these expression changes, which I argued was because these pathogenic bacteria need a higher resistance to the stresses present in the human gastrointestinal tract to survive.</ins></div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Links==</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Links==</div></td></tr> </table> Bklein7     
* '''Interpret your results.  Look up the definitions for any GO terms that are unfamiliar to you.  The "official" definitions for GO terms can be found at [http://www.geneontology.org http://www.geneontology.org].  You can use one of the online biological dictionaries as a supplement, if needed.  Write a paragraph relating the results of this GO analysis to the experiment performed (comparing laboratory-grown and patient-derived ''Vibrio cholerae''.  You need to give a biological interpretation of what do each of these GO terms in your filtered list have to to with the pathogenecity of the bacterium?  You may consult with your partner on this, but your explanation on your individual journal page needs to be in your own words.  This is where the real "brain power" comes in with interpreting DNA microarray data.  Even experienced scientists struggle with this part.  Use your creativity as a scientist to stretch your brain in this question.'''
 
* '''Interpret your results.  Look up the definitions for any GO terms that are unfamiliar to you.  The "official" definitions for GO terms can be found at [http://www.geneontology.org http://www.geneontology.org].  You can use one of the online biological dictionaries as a supplement, if needed.  Write a paragraph relating the results of this GO analysis to the experiment performed (comparing laboratory-grown and patient-derived ''Vibrio cholerae''.  You need to give a biological interpretation of what do each of these GO terms in your filtered list have to to with the pathogenecity of the bacterium?  You may consult with your partner on this, but your explanation on your individual journal page needs to be in your own words.  This is where the real "brain power" comes in with interpreting DNA microarray data.  Even experienced scientists struggle with this part.  Use your creativity as a scientist to stretch your brain in this question.'''
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