Table 4.
Enriched gene setsa by recent alcohol consumptionb in ER- tumors in the NHS and the NHSII
| Pathway-defined gene set | Number of enriched genes | NES | FDR |
|---|---|---|---|
| Upregulated | |||
| REACTOME_TRANSLATION | 144 | 2.31 | 0.0002 |
| REACTOME_CYTOKINE_SIGNALING_IN_IMMUNE_SYSTEM | 218 | 2.32 | 0.0003 |
| KEGG_UBIQUITIN_MEDIATED_PROTEOLYSIS | 124 | 2.38 | 0.001 |
| REACTOME_METABOLISM_OF_MRNA | 206 | 2.25 | 0.001 |
| PROTEIN_RNA_COMPLEX_ASSEMBLY | 60 | 2.25 | 0.001 |
| REACTOME_INTERFERON_SIGNALING | 129 | 2.21 | 0.001 |
| REACTOME_METABOLISM_OF_RNA | 248 | 2.18 | 0.001 |
| REACTOME_SRP_DEPENDENT_COTRANSLATIONAL_PROTEIN_TARGETING_TO_MEMBRANE | 108 | 2.17 | 0.001 |
| REACTOME_INFLUENZA_LIFE_CYCLE | 134 | 2.13 | 0.002 |
| KEGG_SPLICEOSOME | 122 | 2.10 | 0.002 |
| KEGG_RIBOSOME | 84 | 2.08 | 0.003 |
| BIOCARTA_CDC42RAC_PATHWAY | 15 | 2.08 | 0.003 |
| REACTOME_3_UTR_MEDIATED_TRANSLATIONAL_REGULATION | 104 | 2.07 | 0.003 |
| REACTOME_NONSENSE_MEDIATED_DECAY_ENHANCED_BY_THE_EXON_JUNCTION_COMPLEX | 106 | 2.05 | 0.003 |
| REACTOME_PEPTIDE_CHAIN_ELONGATION | 85 | 2.03 | 0.004 |
| REACTOME_ANTIVIRAL_MECHANISM_BY_IFN_STIMULATED_GENES | 61 | 2.01 | 0.005 |
| RIBONUCLEOPROTEIN_COMPLEX_BIOGENESIS_AND_ASSEMBLY | 79 | 1.97 | 0.006 |
| REACTOME_PROCESSING_OF_CAPPED_INTRON_CONTAINING_PRE_MRNA | 132 | 1.97 | 0.006 |
| REACTOME_INFLUENZA_VIRAL_RNA_TRANSCRIPTION_AND_REPLICATION | 101 | 1.94 | 0.008 |
| REACTOME_MRNA_PROCESSING | 151 | 1.92 | 0.009 |
| RNA_PROCESSING | 159 | 1.88 | 0.013 |
| BIOCARTA_G1_PATHWAY | 25 | 1.84 | 0.017 |
| RNA_SPLICING | 87 | 1.82 | 0.020 |
| REACTOME_MRNA_SPLICING | 104 | 1.80 | 0.023 |
| REACTOME_CELL_CYCLE | 328 | 1.79 | 0.024 |
| REACTOME_CELL_CYCLE_CHECKPOINTS | 97 | 1.78 | 0.026 |
| CELLULAR_COMPONENT_ASSEMBLY | 272 | 1.75 | 0.030 |
| REGULATION_OF_TRANSCRIPTION_FROM_RNA_POLYMERASE_II_PROMOTER | 271 | 1.75 | 0.030 |
| MRNA_METABOLIC_PROCESS | 78 | 1.74 | 0.031 |
| REACTOME_HIV_INFECTION | 183 | 1.74 | 0.031 |
| RANSCRIPTION_FROM_RNA_POLYMERASE_II_PROMOTER | 427 | 1.73 | 0.032 |
| REACTOME_SIGNALING_BY_BMP | 21 | 1.72 | 0.032 |
| REACTOME_TRANSCRIPTIONAL_ACTIVITY_OF_SMAD2_SMAD3_SMAD4_HETEROTRIMER | 33 | 1.72 | 0.033 |
| REACTOME_ACTIVATION_OF_THE_MRNA_UPON_BINDING_OF_THE_CAP_BINDING_COMPLEX_AND_EIFS_AND_SUBSEQUENT_BINDING_TO_43S | 56 | 1.71 | 0.034 |
| REACTOME_SIGNALING_BY_TGF_BETA_RECEPTOR_COMPLEX | 56 | 1.70 | 0.037 |
| REACTOME_CELL_CYCLE_MITOTIC | 255 | 1.70 | 0.037 |
| NUCLEAR_EXPORT | 31 | 1.68 | 0.041 |
| REACTOME_DOWNREGULATION_OF_SMAD2_3_SMAD4_TRANSCRIPTIONAL_ACTIVITY | 18 | 1.68 | 0.041 |
| POSITIVE_REGULATION_OF_NUCLEOBASENUCLEOSIDENUCLEOTIDE_AND_NUCLEIC_ACID_METABOLIC_PROCESS | 143 | 1.68 | 0.042 |
| KEGG_RNA_DEGRADATION | 55 | 1.67 | 0.042 |
| KEGG_ADHERENS_JUNCTION | 70 | 1.67 | 0.043 |
| G1_S_TRANSITION_OF_MITOTIC_CELL_CYCLE | 25 | 1.67 | 0.045 |
| REACTOME_TRANSPORT_OF_MATURE_TRANSCRIPT_TO_CYTOPLASM | 51 | 1.66 | 0.045 |
| POSITIVE_REGULATION_OF_TRANSCRIPTION | 134 | 1.65 | 0.048 |
| Downregulated | |||
| None | |||
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