Figure 5.

(A) 77% of ASE identifed by MISO are also annotated by FaRLine and KisSplice. 18% of MISO’s ASE are also annotated by FaRLine while only 2% of MISO’s ASE are also annotated by KisSplice. Finally, only 3% of these ASEs are only annotated by MISO. (B) Most of the events annotated by Cufflinks are identified by FaRLine. (C) GTF2I exon 13 is an example of an ASE annotated by FaRLine but not by Cufflinks. Indeed, Cufflinks only identified the isoform corresponding to the exon inclusion. (D) Most of the events annotated by Trinity are also annotated by KisSplice. But half of the ASE annotated by KisSplice are not annotated by the global assembler Trinity. (E) KisSplice annotates an ASE in the RFWD2 gene, while Trinity only identified the isoform corresponding to the exon inclusion. The events in panels C and E have been validated by RT-PCR.