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Table 2 Methylation levels in breast cancer subtypes

From: DNA methylation epigenotypes in breast cancer molecular subtypes

Gene Methylation level (mean ± SD) (positive ratea)
  Basal like Luminal B ERBB2+ Luminal A Pvalueb
CD40 24.3 ± 12.3 (21.7) 30.8 ± 11.9 (36.2) 30.8 ± 11.9 (33.4) 27.4 ± 7.9 (23.9) <0.001
DBC1 12.8 ± 9.2 (15.9) 19.9 ± 10.3 (34.1) 17.8 ± 8.2 (42.7) 14.0 ± 7.3 (19.5) <0.001
FGF2 7.4 ± 7.2 (11.1) 23.1 ± 11.2 (63.8) 32.2 ± 13.9 (67.5) 15.0 ± 13.4 (30.8) <0.001
HOXA9 21.1 ± 12.0 (61.8) 22.5 ± 9.4 (64.7) 28.4 ± 10.3 (83.8) 20.3 ± 8.0 (78.1) NS
HS3ST2 10.3 ± 11.9 (31.0) 23.9 ± 12.9 (75.0) 26.8 ± 12.3 (79.8) 17.5 ± 13.2 (40.4) <0.001
JAK 3 28.0 ± 15.3 (53.5) 36.8 ± 15.2 (87.5) 33.3 ± 13.7 (74.1) 28.8 ± 10.3 (83.0) <0.001
Let-7a 33.9 ± 11.3 (19.1) 55.1 ± 10.9 (72.9) 48.8 ± 15.7 (65.7) 53.5 ± 8.4 (80.0) <0.001
LINE-1 63.8 ± 3.2 (30.2) 63.1 ± 6.2 (40.4) 63.8 ± 7.8 (40.2) 62.8 ± 4.7 (30.4) NS
Mir-10a 15.5 ± 4.2 (36.4) 25.2 ± 5.8 (70.8) 23.1 ± 10.1 (77.4) 20.8 ± 11.3 (63.2) <0.001
Mir-93 a 55.6 ± 7.3 (23.9) 60.6 ± 6.5 (57.8) 61.2 ± 8.9 (62.1) 61.3 ± 6.5 (47.5) <0.001
NPY 14.9 ± 4.9 (35.6) 38.9 ± 14.6 (95.8) 34.5 ± 14.5 (80.9) 27.4 ± 14.8 (78.6) <0.001
PRKCDBP 7.6 ± 6.1 (4.3) 13.2 ± 10.0 (12.5) 15.6 ± 10.1 (22.3) 10.6 ± 8.4 (15.0) <0.001
RASSF1 20.4 ± 11.9 (35.7) 33.9 ± 12.9 (79.2) 35.6 ± 10.8 (74.5) 23.5 ± 5.9 (73.9) <0.001
SOX 1 19.8 ± 10.7 (75.0) 24.5 ± 11.2 (81.3) 21.5 ± 10.1 (78.6) 20.7 ± 10.1 (53.3) <0.001
SOX17 19.1 ± 15.6 (59.1) 22.4 ± 14.2 (70.8) 23.2 ± 14.7 (62.4) 14.1 ± 7.2 (32.4) <0.001
SPARC 35.3 ± 10.7 (48.9) 33.7 ± 10.2 (60.4) 34.5 ± 12.2 (67.3) 31.1 ± 11.0 (68.1) NS
TAL1 38.8 ± 12.5 (59.1) 33.9 ± 11.3 (56.5) 37.7 ± 11.6 (60.4) 27.4 ± 7.9 (52.3) NS
TNFRS10D 12.5 ± 12.6 (27.8) 18.9 ± 8.8 (60.9) 23.5 ± 11.3 (65.7) 19.6 ± 9.2 (60.0) <0.001
VAMP8 8.8 ± 3.8 (93.1) 12.4 ± 4.4 (72.1) 11.4 ± 3.9 (77.2) 11.9 ± 4.1 (79.2) <0.001
  1. aPositive rate using the sample mean plus 2 times the SD of the pooled normal samples (and minimum 10% methylation) as a cut-off point. bP value computed by using the ANOVA or Kruskal-Wallis tests, as appropriate.