Table 5 |
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|
Comparisons of TopHat-Fusion and deFuse for SKBR3 and MCF7 cell lines |
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|
TopHat-Fusion |
deFuse |
|||||
|
Sample ID |
Fusion genes (left-right) |
Chromosomes (left-right) |
Spanning reads |
Spanning pairs |
Spanning reads |
Spanning pairs |
|
|
||||||
|
SKBR3 |
TATDN1-GSDMB |
8-17 |
311 |
555 |
322 |
95 |
|
SKBR3 |
RARA-PKIA |
17-8 |
1 |
5 |
1 |
4 |
|
SKBR3 |
ANKHD1-PCDH1 |
5-5 |
4 |
15 |
5 |
11 |
|
SKBR3 |
CCDC85C-SETD3 |
14-14 |
5 |
6 |
6 |
3 |
|
SKBR3 |
SUMF1-LRRFIP2 |
3-3 |
3 |
12 |
5 |
12 |
|
SKBR3 |
WDR67-ZNF704 |
8-8 |
3 |
3 |
3 |
2 |
|
SKBR3 |
CYTH1-EIF3H |
17-8 |
18 |
37 |
16 |
27 |
|
MCF7 |
BCAS4-BCAS3 |
20-17 |
105 |
284 |
106 |
105 |
|
MCF7 |
ARFGEF2-SULF2 |
20-20 |
17 |
20 |
17 |
12 |
|
MCF7 |
RPS6KB1-TMEM49 |
17-17 |
4 |
3 |
6 |
2 |
|
|
||||||
|
Comparisons of the number of spanning reads and mate pairs reported by TopHat-Fusion and deFuse for ten previously reported fusion transcripts in the SKBR3 and MCF7 sample data. |
||||||
|
Kim and Salzberg Genome Biology 2011 12:R72 doi:10.1186/gb-2011-12-8-r72 |
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