Abnormal Expressions of DNA Glycosylase Genes NEIL1, NEIL2, and NEIL3 Are Associated with Somatic Mutation Loads in Human Cancer
Table 1
Associations between elevated NEIL3 expression levels and increased numbers of somatic mutations in human cancers.
Organ
TCGA ID
Number of cases
Mann-Whitney test
Spearman rank correlation
Grouped by NEIL3 expression level (<2.5/≥2.5 or <10/≥10)
P (“increase” or “decrease” in mutation number)
Rho
Median mutation number per sample
Number of cases
Urinary bladder
BLCA
129
122/236
8/121
0.0341 (increase)
0.1593
0.0714
Breast
BRCA
977
30/45
62/915
<0.0001 (increase)
0.3006
<0.0001
Colon
COAD
209
127/146.5
83/126
0.0942
0.1121
0.1061
Head and neck
HNSC
489
151/167.5
203/286
0.0477 (increase)
0.0019
0.9673
Kidney
KICH
66
81.5/92
28/38
0.3705
0.2637
0.0324
Kidney
KIRC
212
387/86.5
12/200
0.0770
0.1179
0.0867
Kidney
KIRP
168
92/87.5
20/148
0.7409
0.0117
0.8800
Lung
LUAD
483
106/321
43/440
<0.0001 (increase)
0.3287
<0.0001
Lung
LUSC
179
196.5/316
8/171
0.0133 (increase)
0.2112
0.0045
Prostate
PRAD
258
50/60.5
76/182
0.0012 (increase)
0.3030
<0.0001
Rectum
READ
81
113.5/123
32/49
0.2707
0.2900
0.0086
Stomach
STAD
224
92/187
76/148
<0.0001 (increase)
0.5105
<0.0001
Thyroid gland
THCA
404
9/10
220/184
0.1612
0.0690
0.1664
A value 2.5-fold the median NEIL3 expression value in noncancerous tissue samples of each organ was used as the cut-off value to dichotomize the cancer cases. In the LUSC cases, a value 10-fold the median NEIL3 expression value in noncancerous lung tissue samples was used. Higher numbers of median somatic mutation per sample are shown in bold face. A Mann-Whitney U test was used to perform the statistical analysis. If the P value was less than 0.05, indicating a significant change, a significant “increase” or “decrease” in the number of somatic mutations per sample was shown. If significant (less than 0.05), the value was shown in bold face.
