Skip to main content

Table 3 Enriched gene setsa by recent alcohol consumptionb in ER+ tumors in the NHS and the NHSII

From: Alcohol consumption and breast tumor gene expression

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
  1. ER estrogen receptor, NHS Nurses’ Health Study, NES normalized enrichment score, FDR false discovery rate
  2. aOnly gene sets replicated in The Cancer Genome Atlas (TCGA) dataset and FDR <0.05 are shown
  3. bEnriched gene sets for comparison of recent alcohol consumption 10+ vs. 0 g/day