Kevin Matthew McKay Week 9: Difference between revisions
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[[User:Kevin Matthew McKay|Kevin McKay]] | [[User:Kevin Matthew McKay|Kevin McKay]] | ||
[[Category:BIOL398-03/S13]] | [[Category:BIOL398-03/S13]] | ||
==Pval== | |||
*t15 | *t15 | ||
**1474 genes have p value < 0.05 | **1474 genes have p value < 0.05 | ||
Line 27: | Line 29: | ||
**9 genes have p < 0.001 | **9 genes have p < 0.001 | ||
**1 gene have p < 0.0001 | **1 gene have p < 0.0001 | ||
==After Bonferi Correction== | |||
*t15-t90 0 genes have p < 0.05 | |||
*t120 1 gene has p < 0.05 | |||
==more 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? | |||
**613 | |||
*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? | |||
**861 | |||
*Keeping the "Pval" filter at p < 0.05, How many have an average log fold change of >0.25 and p < 0.05? | |||
**600 | |||
*How many have an average log fold change of < -0.25 and p < 0.05? (These are more realistic values for the fold change cut-offs because it represents about a 20% fold change which is about the level of detection of this technology.) | |||
**815 | |||
==NSR1== | |||
*avg | |||
**t15:2.04 | |||
**t30:2.21 | |||
**t60:2.43 | |||
**t90:-1.59 | |||
**t120:-.056 | |||
*pval | |||
**t15:.0174 | |||
**t30:.0320 | |||
**t60:.0020 | |||
**t90:.0102 | |||
**t120:.2257 | |||
==more questions 2== | |||
*Smallest pval is 0.0000454949980265369 for gene YJR100C | |||
*Gene function is unknown, maybe the function of this gene has something to do with adaptation or acclimation to cold |
Latest revision as of 12:06, 2 April 2013
Pval
- t15
- 1474 genes have p value < 0.05
- 345 genes have p < 0.01
- 30 genes have p < 0.001
- 4 genes have p < 0.0001
- t30
- 946 genes have p value < 0.05
- 266 genes have p < 0.01
- 34 genes have p < 0.001
- 6 genes have p < 0.0001
- t60
- 1006 genes have p value < 0.05
- 274 genes have p < 0.01
- 35 genes have p < 0.001
- 0 genes have p < 0.0001
- t90
- 732 genes have p value < 0.05
- 190 genes have p < 0.01
- 12 genes have p < 0.001
- 1 gene have p < 0.0001
- t120
- 397 genes have p value < 0.05
- 89 genes have p < 0.01
- 9 genes have p < 0.001
- 1 gene have p < 0.0001
After Bonferi Correction
- t15-t90 0 genes have p < 0.05
- t120 1 gene has p < 0.05
more 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?
- 613
- 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?
- 861
- Keeping the "Pval" filter at p < 0.05, How many have an average log fold change of >0.25 and p < 0.05?
- 600
- How many have an average log fold change of < -0.25 and p < 0.05? (These are more realistic values for the fold change cut-offs because it represents about a 20% fold change which is about the level of detection of this technology.)
- 815
NSR1
- avg
- t15:2.04
- t30:2.21
- t60:2.43
- t90:-1.59
- t120:-.056
- pval
- t15:.0174
- t30:.0320
- t60:.0020
- t90:.0102
- t120:.2257
more questions 2
- Smallest pval is 0.0000454949980265369 for gene YJR100C
- Gene function is unknown, maybe the function of this gene has something to do with adaptation or acclimation to cold