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Table 3 Top enriched gene ontology annotations on CpG probes with beta regression coefficient values > 200 in association with ionizing radiations using conditional logistic regression EWAS on the methionine dependency phenotype

From: Ionizing radiations induce shared epigenomic signatures unraveling adaptive mechanisms of cancerous cell lines with or without methionine dependency

GO biological process complete CLR-EWAS for the methionine dependency phenotype (MeWo-LC1 vs. MeWo)
FE* P-value FDR, P-value
Centrosome duplication (GO:0051298) 3.16 1.05 × 10–4 7.80 × 10–3
Centrosome cycle (GO:0007098) 2.20 2.11 × 10–4 1.41 × 10–2
Peripheral nervous system development (GO:0007422) 2.17 4.85 × 10–4 2.83 × 10–2
Microtubule organizing center organization (GO:0031023) 2.16 1.22 × 10–4 8.91 × 10–3
response to UV (GO:0,009,411) 2.05 1.53 × 10–5 1.47 × 10–3
Response to ionizing radiation (GO:0010212) 1.94 1.00 × 10–4 7.49 × 10–3
  1. CLR: conditional logistic regression; FE: fold enrichment; DFR: false discovery rate
  2. * Top significantly enriched GO annotations were defined using a Q–Q plot ranking of fold enrichment values. The full list of significantly enriched gene ontology annotations is reported in Additional file 13: Table S7a