Individual Journal Week 9

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Contents

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.

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