Table 3.

Results of Gene Set Enrichment Analysis on CT–PDTO Vs PDTO Gene Expression Signatures

Tumor organoid line (chemotolerant vs ctrl)	Hallmark	NES	NOM P value
PDTO1	HALLMARK_ANGIOGENESIS	1.583	.032
	HALLMARK_COAGULATION	1.524	.035
	HALLMARK_COMPLEMENT	1.357	.055
	HALLMARK_INTERFERON_ALPHA_RESPONSE	1.406	.056
PDTO2	HALLMARK_MYC_TARGETS_V1	2.178	.000
	HALLMARK_E2F_TARGETS	1.924	.000
	HALLMARK_MYC_TARGETS_V2	1.886	.000
	HALLMARK_INTERFERON_ALPHA_RESPONSE	1.447	.028
	HALLMARK_G2M_CHECKPOINT	1.238	.059
PDTO5	HALLMARK_E2F_TARGETS	2.103	.000
	HALLMARK_G2M_CHECKPOINT	1.856	.000
	HALLMARK_MYC_TARGETS_V1	1.697	.000
	HALLMARK_MYC_TARGETS_V2	1.481	.037

NOTE. The gene sets that are enriched after acquisition of chemotolerance are shown.

NES, normalized enrichment score; NOM P value, nominal P value.