|
Tissue
|
TMEFF2
|
GPX7
|
MAL
|
ARHGEF7
|
TWIST1
|
|---|
|
Ca
|
No
|
Ca
|
No
|
Ca
|
No
|
Ca
|
No
|
Ca
|
No
|
|---|
|
Number of samples
|
30
|
23
|
30
|
23
|
30
|
23
|
30
|
23
|
30
|
23
|
|
%M per sample
|
|
Minimum
|
0
|
0
|
0
|
0
|
9
|
0
|
0
|
0
|
6
|
1
|
|
25th percentile
|
40
|
0
|
1
|
0
|
21
|
1
|
0
|
0
|
14
|
3
|
|
Median
|
59
|
1
|
33
|
0
|
33
|
2
|
8
|
0
|
18
|
4
|
|
75th percentile
|
75
|
3
|
53
|
0
|
49
|
3
|
33
|
0
|
28
|
6
|
|
Maximum
|
94
|
11
|
72
|
2
|
71
|
7
|
75
|
2
|
50
|
11
|
|
P value (Ca. vs. No.)
|
< 0.0001
|
< 0.0001
|
< 0.0001
|
< 0.0001
|
< 0.0001
|
|
Tissue
|
AKR1B1
|
HIN1
|
GAS7C
|
TM6SF1
|
ZNF671
|
|---|
|
Ca
|
No
|
Ca
|
No
|
Ca
|
No
|
Ca
|
No
|
Ca
|
No
|
|---|
|
Number of samples
|
30
|
23
|
30
|
23
|
30
|
23
|
30
|
23
|
30
|
23
|
|
%M per sample
|
|
Minimum
|
0
|
0
|
0
|
0
|
0
|
0
|
0
|
1
|
0
|
2
|
|
25th percentile
|
1
|
0
|
0
|
0
|
6
|
0
|
35
|
5
|
25
|
7
|
|
Median
|
16
|
0
|
5
|
0
|
9
|
1
|
47
|
10
|
39
|
13
|
|
75th percentile
|
21
|
0
|
18
|
0
|
12
|
2
|
58
|
15
|
49
|
16
|
|
Maximum
|
52
|
1
|
61
|
0
|
36
|
4
|
70
|
40
|
72
|
20
|
|
P value (Ca. vs. No.)
|
< 0.0001
|
< 0.0001
|
< 0.0001
|
< 0.0001
|
< 0.0001
|
|
Tissue
|
COL6A2
|
APC
|
HIST1H3C
|
|---|
|
Ca
|
No
|
Ca
|
No
|
Ca
|
No
|
|---|
|
Number of samples
|
30
|
23
|
30
|
23
|
30
|
23
|
|
%M
|
|
Minimum
|
0
|
1
|
0
|
0
|
0
|
0
|
|
25th percentile
|
12
|
4
|
0
|
1
|
0
|
0
|
|
Median
|
34
|
8
|
0
|
2
|
1
|
1
|
|
75th percentile
|
52
|
10
|
58
|
2
|
55
|
3
|
|
Maximum
|
66
|
23
|
92
|
7
|
78
|
8
|
|
P value (Ca. vs.
No.)
|
< 0.0001
|
0.2662
|
0.3959
|
- Ca, Carcinoma; No, adjacent normal tissue; P value for Mann–Whitney test
- Methylation levels of 13 individual markers in colon carcinoma lesions – Descriptive Statistics. Fresh frozen tissues in the Training set were assayed for DNA methylation by QM-MSP. Non-parametric analyses of carcinoma (Ca) and adjacent normal (No) tissues indicated the percentiles of methylation and extent of differential methylation (Mann-Whitney P-value) between tissue types. TM6SF1, ZNF671, COL6A2 showed the highest background in adjacent normal colon tissues as observed at the 75th percentile. The other genes were ranked by percent methylation (%M) at the 75th percentile among carcinoma samples: TMEFF2 > GPX7 > MAL > ARHGEF7 > TWIST1 > AKR1B1 > HIN1 > GAS7. Additional file 1: Fig. S1 and Additional file 2: Table S1 show the box whiskers plots and performance analyses for these data
