Table 2

Top 15 hypermethylated genes identified using the MIRA-based microarray
Gene Changed probes Average ratioa Positionb Gene description Phenotype MIM Accession No.c
PITX2 27 3.19 I and D Paired-like homeodomain 2 180500, 137600, 604229, 180550
PAX6 20 2.34 P and I Paired box 6 106210, 604219, 120430, 120200, 136520, 206700, 148190, 165550, 604229
NR2F2 17 3.22 P, I and D Nuclear receptor subfamily 2, group F, member 2
MNX1 15 2.50 P, I and D Motor neuron and pancreas homeobox 1 176450
TLX3 15 3.69 P and D T-cell leukemia homeobox 3
PAX9 15 2.33 P and I Paired box 9 604625
SALL1 15 2.27 P, I and D Sal-like 1 (Drosophila) 107480
MAD1L1 14 3.18 I MAD1 mitotic arrest deficient-like 1 (yeast) 176807
TBX3 14 4.50 P, I and D T-box 3 181450
HLX 14 2.01 P, I and D H2.0-like homeobox
PDX1 13 2.88 P, I and D Pancreatic and duodenal homeobox 1 606392, 260370, 125853
TFAP2C 13 4.78 P Transcription factor AP-2 gamma
SIX1 12 3.13 P, I and D SIX homeobox 1 608389, 605192
SIM1 12 2.98 P and I Single-minded homolog 1 (Drosophila) 601665
OTX2 12 3.39 P and D Orthodenticle homeobox 2 610125, 613986

Several probes for each gene are present on the microarray. aThe average ratio of the probe density of the positive probe in placental tissue to that in the maternal peripheral blood calculated using the SAM software. bThe letters in this column refer to different regions of the gene: P, promoter; I, inside; D, downstream. cThe phenotype MIM Accession Number is from the OMIM database (http://www.ncbi.nlm.nih.gov/omim webcite).

Yin et al.

Yin et al. BMC Medical Genomics 2012 5:26   doi:10.1186/1755-8794-5-26

Open Data