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Table 3 DNA methylation data of biopsies, macrodissected samples and laser microdissected (LCM) colon epithelial cells

From: DNA hypermethylation and decreased mRNA expression of MAL, PRIMA1, PTGDR and SFRP1 in colorectal adenoma and cancer

  Normal Adenoma CRC P-value (N vs. Ad) P-value (N vs. CRC) P-value (Ad vs. CRC)
Mean DNA methylation % ± SD Mean DNA methylation % ± SD Mean DNA methylation % ± SD
Biopsy samples
ALDH1A3_assay 1 4.33 ± 2.23 3.59 ± 1.92 5.74 ± 6.26 0.31 0.36 0.21
BCL2_assay 1 3.22 ± 1.12 3.50 ± 2.21 9.74 ± 13.41 0.63 p < 0.05 0.09
BCL2_assay 2 0.91 ± 0.72 0.42 ± 0.41 0.73 ± 0.59 p < 0.05 0.44 0.11
CDX1_assay 1 21.96 ± 9.38 19.41 ± 8.76 16.01 ± 9.83 0.42 0.08 0.32
COL1A2 assay 2 22.67 ± 5.62 37.37 ± 14.36 39.52 ± 18.02 p < 0.01 p < 0.01 0.72
COL1A2_assay 1 8.65 ± 3.63 9.77 ± 6.13 15.31 ± 12.57 0.51 p < 0.05 0.14
CYP27B1_assay 1 10.71 ± 3.14 8.53 ± 4.19 11.37 ± 6.76 0.09 0.71 0.18
CYP27B1_assay 2 4.03 ± 4.16 2.71 ± 1.69 6.45 ± 10.56 0.26 0.36 0.19
CYP27B1_assay 4 45.12 ± 2.66 44.50 ± 2.08 46.70 ± 8.04 0.46 0.42 0.31
ENTPD5_assay 1 2.17 ± 0.62 1.78 ± 0.91 2.93 ± 3.32 0.15 0.35 0.20
FADS1_assay 1 0.75 ± 0.44 0.46 ± 0.23 6.98 ± 10.82 p < 0.05 p < 0.05 p < 0.05
MAL_assay 1 16.46 ± 16.12 38.87 ± 26.52 50.42 ± 26.99 p < 0.01 p < 0.01 0.25
PRIMA1_assay 1 7.25 ± 3.15 9.88 ± 10.60 28.91 ± 22.65 0.30 p < 0.01 p < 0.01
PRIMA1_assay 2 3.99 ± 1.32 6.49 ± 5.60 22.29 ± 20.14 0.06 p < 0.01 p < 0.01
PRIMA1_assay 3 37.96 ± 13.57 48.13 ± 20.69 56.43 ± 21.17 0.11 p < 0.01 0.30
PRIMA1_assay 4 8.30 ± 7.95 17.78 ± 13.26 26.82 ± 25.00 p < 0.05 p < 0.01 0.23
PTGDR assay 1 5.79 ± 1.84 4.09 ± 1.85 11.12 ± 9.36 p < 0.05 p < 0.05 p < 0.01
PTGDR assay 2 11.71 ± 3.51 8.01 ± 4.50 15.58 ± 6.48 p < 0.05 p < 0.05 p < 0.01
PTGDR_assay 3 6.47 ± 9.27 3.61 ± 4.63 10.47 ± 9.51 0.28 0.22 p < 0.05
PTGS2_assay 1 8.82 ± 3.47 12.15 ± 15.01 10.80 ± 13.16 0.34 0.52 0.80
PTGS2_assay 2 4.33 ± 9.01 5.83 ± 10.49 5.64 ± 8.48 0.65 0.67 0.96
SFRP1_assay 1 39.60 ± 18.46 60.82 ± 20.41 54.49 ± 18.47 p < 0.01 p < 0.05 0.38
SFRP2_assay 1 14.84 ± 4.38 38.52 ± 20.06 44.44 ± 20.05 p < 0.01 p < 0.01 0.43
SFRP2_assay 2 20.14 ± 4.48 39.33 ± 17.77 48.04 ± 16.20 p < 0.01 p < 0.01 0.17
SOCS3_assay 1 4.96 ± 1.52 7.57 ± 6.18 12.16 ± 12.01 0.08 p < 0.05 0.20
SOCS3_assay 2 18.24 ± 7.68 49.27 ± 20.49 49.43 ± 18.81 p < 0.01 p < 0.01 0.98
SOCS3_assay 3 8.82 ± 16.20 21.75 ± 21.72 25.79 ± 22.22 0.05 p < 0.05 0.62
SULF1_assay 1 5.32 ± 2.16 6.80 ± 11.30 9.60 ± 8.91 0.57 p < 0.05 0.46
SULF1_assay 2 4.60 ± 4.02 7.98 ± 10.78 11.28 ± 14.82 0.21 0.06 0.49
SULT1A1_assay 1 5.51 ± 4.35 3.25 ± 1.99 7.58 ± 9.46 0.07 0.39 0.09
SULT1A1_assay 2 42.68 ± 5.54 44.86 ± 9.49 48.80 ± 10.07 0.40 p < 0.05 0.28
SULT1A1_assay 3 3.11 ± 2.94 2.14 ± 1.66 6.34 ± 6.55 0.26 0.06 p < 0.05
THBS2_assay 1 18.17 ± 5.03 26.47 ± 13.79 28.36 ± 16.92 p < 0.05 p < 0.05 0.74
THBS2_assay 2 91.32 ± 2.37 85.64 ± 6.49 83.73 ± 6.83 p < 0.01 p < 0.01 0.44
THBS2_assay 3 89.68 ± 1.80 87.51 ± 3.55 83.02 ± 6.69 p < 0.05 p < 0.01 p < 0.05
THBS2_assay 4 22.32 ± 10.74 27.97 ± 13.58 25.47 ± 15.20 0.18 0.48 0.64
TIMP1_assay 1 19.54 ± 14.39 16.65 ± 14.45 13.96 ± 10.07 0.56 0.21 0.56
LCM – colon epithelial cells
ALDH1A3_assay 1 8.30 ± 3.96 4.02 ± 2.56 3.60 ± 3.49 0.08 0.08 0.83
BCL2_assay 1 3.14 ± 1.18 3.30 ± 1.19 4.26 ± 2.58 0.84 0.40 0.47
BCL2_assay 2 4.53 ± 7.59 0.32 ± 0.35 0.33 ± 0.47 0.24 0.30 0.99
CDX1_assay 1 11.26 ± 19.16 1.64 ± 1.16 2.43 ± 2.43 0.29 0.40 0.54
COL1A2 assay 2 19.18 ± 6.95 61.72 ± 18.25 53.46 ± 18.52 p < 0.01 p < 0.01 0.50
COL1A2_assay 1 6.46 ± 3.34 14.06 ± 6.37 22.84 ± 7.00 p < 0.05 p < 0.01 0.07
CYP27B1_assay 1 10.20 ± 12.19 3.28 ± 0.94 7.88 ± 7.06 0.24 0.75 0.19
CYP27B1_assay 2 7.14 ± 8.88 0.50 ± 0.31 6.38 ± 8.64 0.13 0.90 0.17
CYP27B1_assay 4 43.56 ± 2.13 44.90 ± 3.89 45.90 ± 5.26 0.52 0.38 0.74
ENTPD5_assay 1 1.68 ± 0.56 1.74 ± 0.11 1.88 ± 0.60 0.80 0.62 0.62
FADS1_assay 1 12.76 ± 17.16 4.70 ± 7.95 2.94 ± 5.80 0.37 0.26 0.70
MAL_assay 1 11.76 ± 10.80 61.16 ± 40.61 84.68 ± 11.92 p < 0.05 p < 0.01 0.25
PRIMA1_assay 1 4.00 ± 0.85 32.56 ± 31.71 26.42 ± 33.03 0.08 0.17 0.77
PRIMA1_assay 2 2.34 ± 1.13 29.82 ± 22.74 29.45 ± 35.82 p < 0.05 0.13 0.99
PRIMA1_assay 3 21.70 ± 25.92 73.64 ± 28.56 93.55 ± 3.06 p < 0.05 p < 0.01 0.21
PRIMA1_assay 4 0.62 ± 0.73 43.61 ± 29.53 59.91 ± 31.31 p < 0.05 p < 0.01 0.42
PTGDR assay 1 2.95 ± 0.80 3.16 ± 2.52 28.94 ± 10.72 0.87 p < 0.01 p < 0.01
PTGDR assay 2 6.40 ± 3.82 3.56 ± 1.26 23.81 ± 10.40 0.15 p < 0.01 p < 0.01
PTGDR_assay 3 1.63 ± 3.23 1.14 ± 1.45 25.72 ± 20.81 0.77 p < 0.05 p < 0.05
PTGS2_assay 1 5.80 ± 6.58 2.33 ± 0.33 3.05 ± 1.00 0.27 0.44 0.17
PTGS2_assay 2 9.66 ± 8.80 0.83 ± 0.80 18.19 ± 36.43 0.06 0.62 0.32
SFRP1_assay 1 19.03 ± 25.20 78.72 ± 23.36 91.08 ± 5.91 p < 0.01 p < 0.01 0.28
SFRP2_assay 1 12.53 ± 5.01 55.95 ± 31.32 90.78 ± 1.56 p < 0.05 p < 0.01 0.06
SFRP2_assay 2 16.34 ± 9.82 68.90 ± 27.80 85.16 ± 2.56 p < 0.01 p < 0.01 0.29
SOCS3_assay 1 3.86 ± 0.84 6.57 ± 5.39 25.07 ± 14.20 0.30 p < 0.05 p < 0.05
SOCS3_assay 2 14.28 ± 8.30 68.61 ± 35.98 90.36 ± 8.66 p < 0.05 p < 0.01 0.28
SOCS3_assay 3 2.59 ± 2.72 55.24 ± 43.52 85.04 ± 12.02 p < 0.05 p < 0.01 0.23
SULF1_assay 1 4.62 ± 4.06 7.52 ± 8.25 16.12 ± 17.25 0.50 0.18 0.34
SULF1_assay 2 4.75 ± 4.58 8.35 ± 12.00 8.46 ± 4.78 0.59 0.31 0.99
SULT1A1_assay 1 2.54 ± 1.05 4.63 ± 3.81 4.02 ± 2.15 0.27 0.20 0.76
SULT1A1_assay 2 45.35 ± 7.51 38.07 ± 4.36 56.53 ± 26.33 0.10 0.39 0.16
SULT1A1_assay 3 13.90 ± 16.07 7.69 ± 8.11 7.87 ± 12.23 0.47 0.57 0.98
THBS2_assay 1 13.64 ± 6.67 45.55 ± 25.89 49.61 ± 8.64 p < 0.05 p < 0.01 0.75
THBS2_assay 2 90.83 ± 2.02 84.92 ± 8.28 83.33 ± 10.87 0.16 0.17 0.80
THBS2_assay 3 90.16 ± 2.37 87.54 ± 3.22 78.65 ± 8.85 0.18 p < 0.05 0.07
THBS2_assay 4 24.84 ± 18.37 42.88 ± 8.47 42.48 ± 18.50 0.11 0.33 0.97
TIMP1_assay 1 32.62 ± 21.75 15.35 ± 20.90 5.35 ± 2.27 0.24 p < 0.05 0.32