Figure 2

Volcano plot of corrected probe-by-breed effect. The volcano plot provides a visualization of significant changes in probe-by-breed expression values between the two swine populations. Using Storey's q-value procedures to correct for multiple testing, 4,635 probes were identified at an estimated false discovery rate of 5%. The points in green are expressed SFPs that have been confirmed by sequencing. The points in red are probes identified as false positives by sequencing. The horizontal red line is a q < 0.05 significance threshold with 4,635 (~1.8%) that are above the threshold. The x-axis shows the log₂ estimate of Meishan minus occidental probe-by-breed effect. Vertical red lines represent 2-fold expression differences.