TSABL: Trait Specific Annotation Based Locus predictor

BMC Genomics

Table 1 All Traits Results Summary

Trait	Positive SNPs	Total Positive Loci	Positive Training Loci	Positive Holdout Loci	Training AUC	Model Holdout AUC	CADD Holdout AUC	GWAVA Holdout AUC	DeepSEA Holdout AUC	Number Selected Features
platelets	955	699	464	231	0.80	0.80	0.52	0.57	0.56	17
autoimmune	724	484	318	162	0.79	0.77	0.51	0.57	0.51	37
WBC	2222	1762	1091	544	0.77	0.76	0.51	0.52	0.51	26
lipids	1439	810	526	275	0.73	0.74	0.53	0.52	0.50	15
RBC	2430	1810	1132	564	0.76	0.74	0.50	0.52	0.52	31
ECG	444	303	202	101	0.71	0.70	0.53	0.58	0.53	4
S_BD	624	422	273	144	0.98	0.67	0.48	0.49	0.45	519
WHRadjBMI	506	419	275	141	0.72	0.67	0.54	0.56	0.56	5
birthweight	346	294	195	97	0.83	0.66	0.48	0.59	0.53	75
CAD	740	535	346	183	0.67	0.66	0.52	0.54	0.53	7
BMD	3046	2140	1394	697	0.68	0.65	0.53	0.52	0.52	42
BC	419	328	218	109	0.78	0.64	0.53	0.47	0.54	53
height	3715	3392	1699	839	0.66	0.64	0.51	0.50	0.52	24
BMI	2220	1676	1032	516	0.70	0.63	0.50	0.51	0.51	53
T2D	849	587	388	194	0.68	0.62	0.51	0.53	0.54	18
BP	2595	1842	1215	616	0.63	0.60	0.50	0.51	0.51	10
menarche	817	593	393	197	0.75	0.57	0.52	0.44	0.49	59

ISSN: 1471-2164