Fig. 5
From: An optimized protocol for generation and analysis of Ion Proton sequencing reads for RNA-Seq
Comparison of library preparation methods among a consistency of gene expression quantification. RNaseIII (ProR) and chemical fragmentation (ProC) methods showed high consistency in gene expression quantification. b-c Genes and junctions detected. Large proportions of genes and junctions were commonly detected by all the three libraries. d-e Comparison of gene and junction expression level by ProC and ProR fragmentation method. The number of reads mapping onto gene and junction regions are plotted as dots. d 949 genes were only detected by ProC but not by ProR, while 662 genes were only detected by ProR. e 35841 junctions were only detected by ProC but not by ProR, while 32394 junctions were only detected by ProR, f coverage of a house-keeping gene beta actin (ACTB). Similar coverage patterns were observed between technical replicates, but not between library preparation protocols. g Comparison in consistency between ProC and ProR fragmentation methods by base coverage, the percentage of reads mapped to various gene sequence categories according to GENCODE v24 h Comprehensive and i Basic gene annotation