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Figure 3 | Genome Biology

Figure 3

From: Allelic mapping bias in RNA-sequencing is not a major confounder in eQTL studies

Figure 3

Comparison of allelic ratios with different read types. Reference allele ratio obtained from simulated reads over SNPs (A, C) and indels (B, D) comparing genome versus transcriptome-based reads (A, B) in single-end 50 bp reads mapped with the GEM mapper, and comparing single- versus paired-end reads (C, D) in genome-based 50 bp reads mapped with BWA. The dotted lines denote 5% difference of the ratio for reference/non-reference allele. The color scale from dark blue to light blue denote the density of the points.

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