Table 3.
Bias | Main result figures | Pre-bisulfite | Post-bisulfite | ||
---|---|---|---|---|---|
GC-biasing | AT-biasing (KAPA) | Amplification-free | With amplification | ||
Degradation bias (C depletion) | Figs. 1a and 2a, c | +++ | +++ | + | + |
PCR (polymerase) bias | Figs. 2a–c and 5f | +++ | + | + | +++ |
Modified C bias | Figs. 1d and 3d | ++ | ++ | + | ++ |
Conversion artefacts | Fig. 4 | ++ | + | + | + |
Global 5mC overestimation | Fig. 2d | +++ | ++ | + | ++ |
For simplicity, pre-BS methods have been divided into GC-biasing (Heat, Alkaline and Am-BS) and AT-biasing (KAPA), and post-BS methods into amplification-free (PBAT) and with amplification (ampPBAT and EpiGnome). A plus sign indicates low bias, two plus signs medium bias and three high bias