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Figure 3 | BMC Bioinformatics

Figure 3

From: Alternative splicing detection workflow needs a careful combination of sample prep and bioinformatics analysis

Figure 3

Transcripts coverage and FPKM in low input LSP. A) The number of the LSP specific transcripts increases linearly with the increment of the transcripts in common with ts100 LSP, which depends on total RNA input. B) Coverage for transcripts detected only by low input LSP (yellow boxes) is much lower than the coverage of transcripts in common with ts100 (green boxes). The increment on total RNA input does not improve the coverage for transcripts in common with ts100 (green boxes). Coverage in ts100 LSP has higher coverage than the one obtained by low input LSP. C) Unless for 0.5 ng in low input LSP (yellow), the FPKM of all conditions show a similar distribution. D) The counts of the exons associated with the transcripts in B/C indicate a very low exon counts distribution for the nu05, nu2 and nu100 specific-exons (yellow boxes) and a lower number of exon counts associated to transcripts in common with ts100 in nu05, nu2 and nu100 (green boxes) with respect to ts100 exon counts (violet boxes). FPKM and coverage were calculated at transcript level using Cufflink (2.2.0)

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