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Table 2 Differential methylation detection and terminology

From: pwrEWAS: a user-friendly tool for comprehensive power estimation for epigenome wide association studies (EWAS)

 

Differentially Methylated

Truly Differentially Methylated

Detected

Not Detected

Δk = 0

No

No

False Positive (FP)

True Negative (TN)

|Δk| < 0.01

Yes

No

Neutral Positive (NP)

Neutral Negative (NN)

|Δk| ≥ 0.01

Yes

Yes

True Positive (TP)

False Negative (FN)

  1. Each CpG can fall into one of six following categories: False Positive (FP; detected CpG with no simulated difference in mean methylation); Neutral Positive (NP; detected CpG with negotiable simulated difference in mean methylation); True Positive (TP; detected CpG with meaningful simulated difference in mean methylation); True Negative (TN; not detected CpG with no simulated difference in mean methylation); Neutral Negative (NN; not detected CpG with negotiable simulated difference in mean methylation); False Negative (FN; not detected CpG with meaningful simulated difference in mean methylation)
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BMC Bioinformatics

ISSN: 1471-2105

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