Comparing CaMac against Ca(control) across timepoints T1, T6, T9

13 January 2016

Genewise expression level

Spreadsheet, voom plot

1683 with fdr<=0.01

2593 with fdr<=0.05



Raw data format: Sample_E1_Ca1; Sample_E1_Ca6; Sample_E1_Ca9; Sample_E1_CaMac1; Sample_E1_CaMac6; Sample_E1_CaMac9; Sample_E3_Ca1; Sample_E3_Ca6; Sample_E3_Ca9; Sample_E3_CaMac1; Sample_E3_CaMac6; Sample_E3_CaMac9
5783 of 6214 features kept after filtering
(required at least one sample with 10 reads)
df = 10.833734
sd = 0.907704
noise combined p-value = 0.014346
noise fit score = 0.464556 bits

Design matrix

[----------------------] test coefficients
      0       0       0       1       0       0       0  Sample_E1_Ca1
      0       0       0       1       1       0       0  Sample_E1_Ca6
      0       0       0       1       0       1       0  Sample_E1_Ca9
      1       0       0       1       0       0       0  Sample_E1_CaMac1
      0       1       0       1       1       0       0  Sample_E1_CaMac6
      0       0       1       1       0       1       0  Sample_E1_CaMac9
      0       0       0       1       0       0       1  Sample_E3_Ca1
      0       0       0       1       1       0       1  Sample_E3_Ca6
      0       0       0       1       0       1       1  Sample_E3_Ca9
      1       0       0       1       0       0       1  Sample_E3_CaMac1
      0       1       0       1       1       0       1  Sample_E3_CaMac6
      0       0       1       1       0       1       1  Sample_E3_CaMac9