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. 2013 Mar;20(3):167–187. doi: 10.1089/cmb.2012.0230

FIG. 12.

FIG. 12.

One real gene example for which MultiSplice inferred the expressed transcript while RSEM and Cufflinks failed to do so. The left figure shows the coverage plot of Gene PODXL in all eight breast-cancer cell-line samples. The between-group square root of JSD is 0.290611 by MultiSplice, 0.195271 by Cufflinks, and 0.094207 by RSEM. The exon-skipping event on the seventh (chr7: 131194995-131195090) are differentially expressed between two cell lines. The coverage plot indicates the first isoform is not expressed in SUM-102. The right part shows pie charts of estimated relative expression of the annotated two isoforms for three methods in all eight samples. Except MultiSplice, both Cufflinks and RSEM assign positive expression to the first isoform in SUM-102.