Weighting sequence variants based on their annotation increases the power of genome-wide association studies in dairy cattle

Table 2 Enrichment of five annotation categories and their category-based significance thresholds

Category	Number of possible causal variants	Enrichment	Confidence interval	Category-based significance threshold
High impact	19	4.92	0.18–9.65	5.87e−9
Moderate impact	391	5.04	4.13–5.96	6.00e−9
Low impact	799	405.08	362.29–447.88	4.82e−7
Open chromatin	7227	2.49	2.33–2.65	2.96e−9
No known function	94,987	0.72	0.70–0.74	NA*

The confidence interval for each degree of enrichment is the 95% confidence interval obtained from bootstrapping resampled QTL 100 times
*Indicates that the category-based significance was not calculated for this annotation class since there was no enrichment for this category

ISSN: 1297-9686