Individual Journal Week 9: Difference between revisions
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Which gene has the smallest p value in your dataset (at any timepoint)? | Which gene has the smallest p value in your dataset (at any timepoint)? | ||
*YPR15SC | *YPR15SC | ||
*Protein involved in regulation of mitochondrial expression of subunits 6 (Atp6p) and 8 (Atp8p) of the Fo-F1 ATP synthase; functions with Nca3p. http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=YPR155C | *Protein involved in regulation of mitochondrial expression of subunits 6 (Atp6p) and 8 (Atp8p) of the Fo-F1 ATP synthase; functions with Nca3p. [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=YPR155C] | ||
Why do you think the cell is changing this gene's expression upon cold shock? | Why do you think the cell is changing this gene's expression upon cold shock? | ||
Involved some way in metabolism response to external temperature change. | Involved some way in metabolism response to external temperature change. | ||
Latest revision as of 18:19, 2 April 2013
Sanity Check
t15
- p<0.05: 802
- p<0.01: 202
- p<0.001: 24
- p<0.0001: 2
t30
- p<0.05: 1213
- p<0.01: 415
- p<0.001: 69
- p<0.0001: 8
t60
- p<0.05: 885
- p<0.01: 232
- p<0.001: 28
- p<0.0001: 6
t90
- p<0.05: 672
- p<0.01: 162
- p<0.001: 14
- p<0.0001: 0
t120
- p<0.05: 288
- p<0.01: 36
- p<0.001: 5
- p<0.0001: 2
Bonferroni Correction
- t15: none
- t30: 1
- t60: none
- t90: none
- t120: none
Pval and AvgLogFC Questions
Keeping the "Pval" filter at p < 0.05, filter the "AvgLogFC" column to show all genes with an average log fold change greater than zero. How many meet these two criteria?
- t15: 449
Keeping the "Pval" filter at p < 0.05, filter the "AvgLogFC" column to show all genes with an average log fold change less than zero. How many meet these two criteria?
- t15: 353
Keeping the "Pval" filter at p < 0.05, How many have an average log fold change of > 0.25 and p < 0.05?
- t15: 471
How many have an average log fold change of < -0.25 and p < 0.05?
- t15: 331
NSR1
t15
- Average fold change: 1.57
- p value: 0.0042
t30
- Average fold change: 2.06
- p value: 0.0019
t60
- Average fold change: 1.72
- p value: 0.0507
t90
- Average fold change: -0.66
- p value: 0.1821
t120
- Average fold change: -0.14
- p value: 0.5056
Questions
Which gene has the smallest p value in your dataset (at any timepoint)?
- YPR15SC
- Protein involved in regulation of mitochondrial expression of subunits 6 (Atp6p) and 8 (Atp8p) of the Fo-F1 ATP synthase; functions with Nca3p. [1]
Why do you think the cell is changing this gene's expression upon cold shock? Involved some way in metabolism response to external temperature change.
