Hivanson Week 9

Methods/Results

Strain name: ∆CIN5 strain

Filename: HI_BIOL367_S24_microarray-data_dCIN5.xcls

Number of replicates per strain: 4

Timepoints: 15 minutes, 30 minutes, 60 minutes, 90 minutes, 120 minutes

Statistical Analysis Part 1: ANOVA

How many genes have p < 0.05? and what is the percentage (out of 6189)?

2290 genes; 37.0%

How many genes have p < 0.01? and what is the percentage (out of 6189)?

1380 genes; 22.3%

How many genes have p < 0.001? and what is the percentage (out of 6189)?

691 genes; 11.2%

How many genes have p < 0.0001? and what is the percentage (out of 6189)?

358 genes; 5.8%

How many genes are p < 0.05 for the Bonferroni-corrected p value? and what is the percentage (out of 6189)?

151 genes; 2.4%

How many genes are p < 0.05 for the Benjamini and Hochberg-corrected p value? and what is the percentage (out of 6189)?

1453 genes; 23.5%

Find NSR1 in your dataset. What is its unadjusted, Bonferroni-corrected, and B-H-corrected p values? What is its average Log fold change at each of the timepoints in the experiment?

Unadjusted p value: 6.37625E-08

Bonferroni-corrected p value: 0.000394626

B-H-corrected p value: 2.19237E-05

average Log fold change @ 15 minutes: 4.070025

average Log fold change @ 30 minutes: 3.611475

average Log fold change @ 60 minutes: 4.2985

average Log fold change @ 90 minutes: -2.900925

average Log fold change @ 120 minutes: -0.9315

NSR1 shows increased expression from time 15 minutes through 60 minutes. At 90 minutes, NSR1 expression decreases, and at 120 minutes, the expression of NSR1 remains decreased.

What is IMD3's unadjusted, Bonferroni-corrected, and B-H-corrected p values? What is IMD3's average Log fold change at each of the timepoints in the experiment?

Unadjusted p value: 0.111670609

Bonferroni-corrected p value: 1

B-H-corrected p value: 0.232000469

average Log fold change @ 15 minutes: 1.638433333

average Log fold change @ 30 minutes: -0.100766667

average Log fold change @ 60 minutes: 1.659233333

average Log fold change @ 90 minutes: -0.608333333

average Log fold change @ 120 minutes: -0.168133333

Data & Files

Excel microarray data

p value table slide for ∆CIN5

References

• Hivanson
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