Individual Journal Week 9: Difference between revisions
(→t120) |
(→t15) |
||
Line 50: | Line 50: | ||
==t15== | ==t15== | ||
Average fold change: 1.57 | *Average fold change: 1.57 | ||
p value: 0.0042 | *p value: 0.0042 | ||
==t30== | ==t30== | ||
Average fold change: 2.06 | Average fold change: 2.06 |
Revision as of 18:18, 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. 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? Involved some way in metabolism response to external temperature change.