Methylation·DMP / TE / clocks

§ METHYLATION · DMP analysis · 937,690 EPIC v2 probes

Methylation

Differentially-methylated probes, TE/ERV family scoring, methylation-based clocks (Retro-Age, Horvath, Hannum), enrichment, and cross-cohort comparison. EPIC v2 + EPIC v1 + 450K platforms supported.

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§01Summary2 groups · 1,394 sig probes

Probes tested3,000EPIC v2 platform

Significant2006.7 % @ gw-sig

Hyper-methyl.101Δβ > +0.05

Hypo-methyl.99Δβ < −0.05

⟨Δβ⟩+0.001mean across all

§02Volcano plot|Δβ| > 0.05 · −log₁₀p > 7.3 · 3,000 probes

§03Manhattan plot24 chromosomes

§04Top hitsTop 10 by p-value

Probe	Position	Gene	Context	Δβ	p
cg13580000	chr17:7,673,221	TP53	island	+0.247	4.4e-13	Hyper
cg13580001	chr17:7,675,108	TP53	island	+0.218	1.1e-12	Hyper
cg13580002	chr17:7,676,419	TP53	shore	+0.193	3.8e-12	Hyper
cg13580003	chr17:43,044,295	BRCA1	island	+0.181	9.1e-12	Hyper
cg13580004	chr4:105,276,034	TET2	shore	-0.244	1.3e-11	Hypo
cg13580005	chr8:127,736,231	MYC	island	+0.176	2.8e-11	Hyper
cg13580006	chr9:21,968,134	CDKN2A	island	+0.221	4.8e-11	Hyper
cg13580007	chr5:112,707,498	APC	shore	+0.158	9.1e-11	Hyper
cg13580008	chr2:25,242,191	DNMT3A	island	-0.197	1.5e-10	Hypo
cg13580009	chr7:55,086,725	EGFR	shore	+0.143	2.5e-10	Hyper

§05Probe detailcg13580000

cg13580000Hyper-methyl.

GeneTP53

Positionchr17:7,673,221

Contextisland

Effect−log₁₀p = 12.36

Δβ (A − B)+0.247

Mean β · group A0.747

Mean β · group B0.500

p-value4.37e-13

q-value (BH)8.71e-11