Table 8 PCA summary before and after batch correction with ComBat

From: Explainable AI multiomics analysis reveals shared and divergent host responses in COVID-19 and influenza

 

Pre-ComBat

Post-ComBat

Metric

PC1

PC2

PC1

PC2

Variance explained (%)

18.2%

10.5%

17.4%

9.8%

PC1 association with center (p)

1 × 10−12

–

0.45

–

PC1 association with disease (p)

0.21

–

1 × 10−4

–

PC2 association with plate (p)

–

1 × 10−3

–

0.63

PC2 association with disease (p)

–

0.35

–

0.018

  1. Shown are the percentage of variance explained by the first two principal components (PC1, PC2) and the statistical association of each PC with batch factors (center, plate) and biological phenotype (disease status), in the COMBAT cohort.
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