Table 3 |
|||||
|
Nineteen candidate fusions reported by TopHat-Fusion in the prostate cell line |
|||||
|
Fusion genes (left-right) |
Chromosomes (left-right) |
5' position |
3' position |
Spanning reads |
Spanning pairs |
|
|
|||||
|
ZDHHC7-ABCB9 |
16-12 |
85023908 |
123444867 |
13 |
69 |
|
TMPRSS2-ERG |
21-21 |
42879875 |
39817542 |
7 |
285 |
|
HJURP-EIF4E2 |
2-2 |
234749254 |
233421125 |
3 |
9 |
|
VWA2-PRKCH |
10-14 |
116008521 |
61909826 |
1 |
10 |
|
RGS3-PRKAR1B |
9-7 |
116299195 |
699055 |
3 |
11 |
|
SPOCK1-TBC1D9B |
5-5 |
136397966 |
179305324 |
9 |
31 |
|
LRP4-FBXL20 |
11-17 |
46911864 |
37557613 |
5 |
9 |
|
INPP4A-HJURP |
2-2 |
99193605 |
234746297 |
6 |
12 |
|
C16orf70-C16orf48 |
16-16 |
67144140 |
67700168 |
2 |
19 |
|
NDUFV2-ENSG00000188699 |
18-19 |
9102729 |
53727808 |
1 |
35 |
|
NEAT1-ENSG00000229344 |
11-1 |
65190281 |
568419 |
1 |
17 |
|
ENSG00000011405-TEAD1 |
11-11 |
17229396 |
12883794 |
7 |
9 |
|
USP10-ZDHHC7 |
16-16 |
84733713 |
85024243 |
1 |
22 |
|
LMAN2-AP3S1 |
5-5 |
176778452 |
115202366 |
15 |
2 |
|
WDR45L-ENSG00000224737 |
17-17 |
80579516 |
30439195 |
1 |
33 |
|
RC3H2-RGS3 |
9-9 |
125622198 |
116299072 |
3 |
11 |
|
CTNNA1-ENSG00000249026 |
5-5 |
138145895 |
114727795 |
1 |
12 |
|
IMMTP1-IMMT |
21-2 |
46097128 |
86389185 |
1 |
50 |
|
ENSG00000214009-PCNA |
X-20 |
45918367 |
5098168 |
1 |
24 |
|
|
|||||
|
Nineteen candidate fusions found by TopHat-Fusion in the VCaP prostate cell line, with previously reported fusions [11] indicated in boldface. Fusion genes are sorted according to the scoring scheme described in Materials and methods. |
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|
Kim and Salzberg Genome Biology 2011 12:R72 doi:10.1186/gb-2011-12-8-r72 |
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