Difference between revisions of "Kevin Matthew McKay Week 9"

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*t15-t90 0 genes have p < 0.05
 
*t15-t90 0 genes have p < 0.05
 
*t120 1 gene has 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?  
 
*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
 
**613
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*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.)  
 
*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
 
**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

assignment Kevin McKay

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