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Table 1 TFBS enrichment analysis points to altered TFBS occupancy as a mechanism underlying some examples of tissue specific and tissue-invariant DS-DM

From: Trans effects of chromosome aneuploidies on DNA methylation patterns in human Down syndrome and mouse models

Cell type

Best match

HOMER alignment score

Percentage of DS-DM CpGs (n = 419)

Percentage of background CpGs (n = 437,650)

P value

Enriched TF peaks among HOMER motif instances in ENCODE ChipSeq data (p < 0.05 and OR ≥ 1.5)

T cell hypomethylated

RUNX

0.79

25.3

11.0

1.00E-15

RUNX

T cell hypomethylated

BATF::JUN (FOS)

0.948

21.0

7.9

1.00E-16

FOS/JUN

  1. Top ranked TFBSs from HOMER de novo motif searches, showing a strong enrichment among T-cell hypomethylated loci in DNA sequences with a high alignment to RUNX and JUN/FOS consensus motifs, validated by a finding of enrichment in RUNX and JUN/FOS binding peaks in ChIPSeq data from ENCODE. The full de novo motif search results for all DS-DM sets are in Table S14a in Additional file 2. OR odds ratio
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Genome Biology

ISSN: 1474-760X

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