Table 3. Differential expression analysis results for the 15 PAX8 pathway genes within 1 Mb of a P<10⁻⁵ risk SNPa.

	IGROV1 cells			HeyA8 cells
Gene	P-value	FDR	Fold change	P-value	FDR	Fold change
TNF	2.4E−05	0.004	2.55	6.5E−03	0.097	1.12
BNC2	6.1E−04	0.024	1.16	3.8E−03	0.068	1.16
HOXB7	7.6E−04	0.028	1.22	7.3E−02	0.374	1.06
NCL	1.8E−03	0.047	1.22	1.3E−04	0.009	1.21
SP6	2.0E−02	0.189	1.23	7.1E−01	0.912	1.02
HOXB5	2.2E−02	0.200	1.18	4.6E−01	0.796	1.09
HOXB8	2.5E−02	0.212	1.26	3.6E−01	0.731	1.03
ATP5G1	5.4E−02	0.325	1.12	3.4E−01	0.719	1.07
WNT4	8.1E−02	0.398	1.10	1.3E−01	0.499	1.02
HOXD8	9.0E−02	0.417	1.13	7.7E−01	0.931	1.01
OSBPL7	2.6E−01	0.658	1.05	2.7E−04	0.014	1.26
HOXB4	5.3E−01	0.842	1.02	1.4E−01	0.510	1.10
SLC5A5	5.3E−01	0.839	1.02	4.2E−01	0.772	1.01
HOXD12	7.1E−01	0.917	1.01	4.3E−01	0.781	1.02
TERT	9.6E−01	0.989	1.00	5.8E−03	0.090	1.16

Abbreviations: FDR=false discovery rate; Mb=megabase; SNP=single-nucleotide polymorphism.

^aList sorted by IGROV1 P-value.