State of art fusion-finder algorithms are suitable to detect transcription-induced chimeras in normal tissues?

BMC Bioinformatics

Table 2 False chimera detection

Tool	Lib50_1	lib50_2	Lib75_1	Lib100_1
FusionHunter	0	0	0	0
FusionMap	342	359	1521	2225
FusionFinder	3517	5417	750	666
deFuse	-*	1532	2380	2976
MapSplice	30022	18540	-*	-
TopHat-fusion	60839	60854	122885	112779

*The analysis did not produce the results due to a software error occurring in the handling of an intermediate file.
Number of chimeras detected in datasets free of fusion events (negative datasets). Analysis is performed using different read lengths for the same negative dataset (lib100_1, lib75_1, lib50_1). In case of the 50 nts paired-end reads negative dataset reads were also analyzed considering two different sets of experimental quality scores (lib50_1, lib50_2).

ISSN: 1471-2105