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Fig. 3 | BMC Genomics

Fig. 3

From: Cross-site comparison of ribosomal depletion kits for Illumina RNAseq library construction

Fig. 3

Protein Coding Gene Detection in rRNA Depleted Libraries: a) Non-mtRNA reads were mapped to the ENSENBL annotation and grouped by transcript type. Fraction of reads associated with transcript types > 1% shown. Data sets ordered by site then intact/degraded status within each kit top to bottom. b) Number of genes detected at >1RPKM (dark blue) and > 0.1RPKM (light blue) shown for each replicate. Genes ordered the same as in A but left to right. c) Changes in RNA detection compared to Illumina RiboZero. Hierarchical clustering genes with fold changes > 2 and Benjamini corrected p-values < 0.001 are shown (union of all comparisons). d) Count of genes with fold changes > 2 and Benjamini corrected p-values < 0.001 are shown for each kit as compared to Illumina RiboZero. Increased detection shown in red, decreased detection shown in green. e) Distribution of read lengths for transcripts detected at higher (red) or lower (green) rate relative to RiboZero. f) Distribution of GC% for transcripts detected at higher (red) or lower (green) rate relative to RiboZero

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