Table 3.

Genes identified in TWASs in novel loci in association with breast cancer risk

Locia	Gene	Gene type	Z score	p	R2b
Overall
1p11.2	NBPF8	Pseudogene	7.05	1.76 × 10−12	0.23
1p11.2	PFN1P2	Pseudogene	9.22	2.87 × 10−20	0.22
3p21.31	RNF123	Protein coding	4.63	3.62 × 10−6	0.26
5p15.31	NSUN2	Protein coding	−4.89	1.01 × 10−6	0.37
10q26.13	EEF1AKMT2	Protein coding	−4.70	2.63 × 10−6	0.34
15q15.1	SRP14-DT	LincRNA	−4.80	1.55 × 10−6	0.29
15q15.3	STRCP1	Pseudogene	−4.66	3.18 × 10−6	0.12
17p12	MAP2K4	Protein coding	4.99	6.06 × 10−7	0.02
19q13.12	ZNF793-AS1	Antisense RNA	−4.94	7.64 × 10−7	0.10
20q11.22	CPNE1	Protein coding	−4.68	2.88 × 10−6	0.38
20q13.33c	RGS19	Protein coding	4.64	3.47 × 10−6	0.07
ER-positive
6p22.1	H4C12	Protein coding	5.01	5.54 × 10−7	0.07
11q13.2	RHOD	Protein coding	4.78	1.73 × 10−6	0.19
5q13.2c	GUSBP14	Pseudogene	5.08	3.73 × 10−7	0.08

^aUnless otherwise specified, results are based on TWAS analyses using cross-ancestry GWAS data.

^bPrediction performance derived using GTEx data.

^cGenes identified from association analysis using European-ancestry GWAS data.