Table 5 |
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|
Putative UTR regulatory elements affected by cancer-associated UTR-SNPs. |
||||||
|
UTR-SNPs Ref (n = 20,304) |
UTR-SNPs Var (n = 20,304) |
CANCER Ref (n = 358) |
CANCER Var (n = 358) |
CANCER Ref (permutation pool, n = 92) |
CANCER Var (permutation pool, n = 92) |
|
|
|
||||||
|
Total IRES |
5766 |
5802 |
92 |
94 |
20 |
20 |
|
Gained |
625 |
11 |
3 |
|||
|
Lost |
589 |
9 |
3 |
|||
|
Total 15-LOX-DICE |
1788 |
1744 |
37 |
36 |
8 |
8 |
|
Gained |
90 |
2 |
||||
|
Lost |
134 |
3 |
||||
|
Total TOP |
491 |
490 |
11 |
10 |
5 |
5 |
|
Gained |
1 |
|||||
|
Lost |
2 |
1 |
||||
|
Total K-Box |
287 |
287 |
3 |
3 |
0 |
0 |
|
Gained |
16 |
|||||
|
Lost |
16 |
|||||
|
Total GY-Box |
174 |
168 |
5 |
5 |
0 |
0 |
|
Gained |
9 |
|||||
|
Lost |
15 |
|||||
|
Total Brd-Box |
111 |
116 |
2 |
1 |
1 |
0 |
|
Gained |
13 |
|||||
|
Lost |
8 |
1 |
1 |
|||
|
Total ADH-DRE |
44 |
50 |
1 |
1 |
1 |
1 |
|
Gained |
6 |
|||||
|
Lost |
0 |
|||||
|
Total CPE |
26 |
30 |
1 |
1 |
0 |
0 |
|
Gained |
12 |
|||||
|
Lost |
1 |
|||||
|
Total SECIS-2 |
12 |
10 |
1 |
0 |
1 |
0 |
|
Gained |
1 |
|||||
|
Lost |
3 |
1 |
1 |
|||
|
|
||||||
|
The results identify cis-regulatory elements located in the immediate vicinity of or at the UTR-SNP sites. UTR regulatory elements can be 'gained' or 'lost' when reference allele sequences are modified by cancer-associated SNPs. |
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|
Aouacheria et al. BMC Genomics 2007 8:2 doi:10.1186/1471-2164-8-2 |
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