Table 3.

Enriched gene sets^a by recent alcohol consumption^b in ER+ tumors in the NHS and the NHSII

Pathway-defined gene set	Number of enriched genes	NES	FDR
Upregulated
REACTOME_NONSENSE_MEDIATED_DECAY_ENHANCED_BY_THE_EXON_JUNCTION_COMPLEX	106	2.56	<0.0001
REACTOME_INFLUENZA_LIFE_CYCLE	134	2.49	<0.0001
REACTOME_METABOLISM_OF_RNA	248	2.14	0.001
REACTOME_NEP_NS2_INTERACTS_WITH_THE_CELLULAR_EXPORT_MACHINERY	26	1.99	0.007
REACTOME_TRANSPORT_OF_MATURE_MRNA_DERIVED_FROM_AN_INTRONLESS_TRANSCRIPT	31	1.98	0.008
REACTOME_TRANSPORT_OF_RIBONUCLEOPROTEINS_INTO_THE_HOST_NUCLEUS	26	1.97	0.008
REACTOME_ANTIVIRAL_MECHANISM_BY_IFN_STIMULATED_GENES	61	1.93	0.014
POSITIVE_REGULATION_OF_TRANSCRIPTION_FROM_RNA_POLYMERASE_II_PROMOTER	61	1.93	0.015
REACTOME_INTERACTIONS_OF_VPR_WITH_HOST_CELLULAR_PROTEINS	31	1.90	0.018
MRNA_PROCESSING_GO_0006397	67	1.89	0.019
REACTOME_SYNTHESIS_OF_GLYCOSYLPHOSPHATIDYLINOSITOL_GPI	17	1.89	0.019
MEIOTIC_CELL_CYCLE	24	1.89	0.020
REACTOME_TRANSPORT_OF_MATURE_TRANSCRIPT_TO_CYTOPLASM	51	1.86	0.025
RNA_PROCESSING	159	1.85	0.027
REACTOME_PROCESSING_OF_CAPPED_INTRON_CONTAINING_PRE_MRNA	132	1.83	0.028
REACTOME_METABOLISM_OF_NON_CODING_RNA	45	1.83	0.029
REACTOME_DOUBLE_STRAND_BREAK_REPAIR	18	1.84	0.030
PROTEIN_RNA_COMPLEX_ASSEMBLY	60	1.84	0.030
REACTOME_REGULATION_OF_GLUCOKINASE_BY_GLUCOKINASE_REGULATORY_PROTEIN	26	1.78	0.048
Downregulated
REACTOME_LIPID_DIGESTION_MOBILIZATION_AND_TRANSPORT	38	−2.12	0.017
REACTOME_SMOOTH_MUSCLE_CONTRACTION	21	−2.13	0.024
REACTOME_MUSCLE_CONTRACTION	40	−2.06	0.025
KEGG_PPAR_SIGNALING_PATHWAY	58	−2.03	0.025

ER estrogen receptor, NHS Nurses’ Health Study, NES normalized enrichment score, FDR false discovery rate

^aOnly gene sets replicated in The Cancer Genome Atlas (TCGA) dataset and FDR <0.05 are shown

^bEnriched gene sets for comparison of recent alcohol consumption 10+ vs. 0 g/day