Table 2

Summary of candidate gene fusions identified by paired end RNA-Seq

Sample

PEFS >0

PEFS >= 5

PEFS >= 5 plus junction spanning reads


SUM149PT

1

1

1

SUM1315O2

20

2

0

HCC3153

8

1

1

T92

13

0

0

T50

1090

2

1

T160

437

4

1

HCC2337

14

2

0

MCF10A

10

0

0


In order to prioritize gene fusion candidates with the most read support, we selected candidates with a minimum PEFS of 5 for further investigation. A total of 12 gene fusion candidates with a PEFS >= 5 were identified based on discordantly aligned paired reads. Of these, four candidates (33%) were further found to have supporting reads spanning the exon-exon fusion junction.

Ha et al. BMC Medical Genomics 2011 4:75   doi:10.1186/1755-8794-4-75

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