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Table 5 Comparisons of TopHat-Fusion and deFuse for SKBR3 and MCF7 cell lines

From: TopHat-Fusion: an algorithm for discovery of novel fusion transcripts

    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
  1. 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.