Skip to main content

Table 4 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

Positive regulation of protein targeting to mitochondrion (GO:1903955)

3.00

1.03 × 10–3

4.57 × 10–2

Regulation of protein targeting to mitochondrion (GO:1903214)

2.80

3.50 × 10–4

1.87 × 10–2

Mitotic metaphase plate congression (GO:0007080)

2.60

5.84 × 10–4

2.87 × 10–2

Embryonic digit morphogenesis (GO:0042733)

2.51

4.70 × 10–4

2.40 × 10–2

Metaphase plate congression (GO:0051310)

2.47

5.38 × 10–4

2.67 × 10–2

Positive regulation of establishment of protein localization to mitochondrion (GO:1903749)

2.40

9.12 × 10–4

4.19 × 10–2

Mitotic G1 DNA damage checkpoint signaling (GO:0031571)

2.35

4.65 × 10–4

2.38 × 10–2

Regulation of establishment of protein localization to mitochondrion (GO:1903747)

2.30

3.61 × 10–4

1.91 × 10–2

Intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)

2.30

6.77 × 10–4

3.24 × 10–2

Mitotic G1/S transition checkpoint signaling (GO:0044819)

2.30

5.24 × 10–4

2.62 × 10–2

Protein N-linked glycosylation (GO:0006487)

2.30

6.84 × 10–4

3.25 × 10–2

Mitotic sister chromatid segregation (GO:0000070)

2.20

4.52 × 10–5

3.31 × 10–3

Intrinsic apoptotic signaling pathway (GO:0097193)

2.11

1.65 × 10–5

1.43 × 10–3

Negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)

2.05

3.93 × 10–4

2.05 × 10–2

G1/S transition of mitotic cell cycle (GO:0000082)

2.05

6.21 × 10–4

3.00 × 10–2

Mitotic cell cycle checkpoint signaling (GO:0007093)

2.03

2.85 × 10–5

2.26 × 10–3

Mitotic DNA damage checkpoint signaling (GO:0044773)

2.02

3.85 × 10–4

2.02 × 10–2

Cell cycle G1/S phase transition (GO:0044843)

2.01

9.98 × 10–4

4.47 × 10–2

Mitotic DNA integrity checkpoint signaling (GO:0044774)

2.01

3.16 × 10–4

1.73 × 10–2

  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 S7b