Figure 7
From: Transcriptome-wide high-throughput mapping of protein–RNA occupancy profiles using POP-seq
Comparative analysis of POP-seq peaks with lncRNA expression. (A) Violin plot showing the number of POP-seq peaks (normalized per unit length of the lncRNA) binned in low and high expression group of lncRNAs in K562 cells. The difference in normalized peak counts between the two groups was statistically tested using Wilcoxon test. (B) Kaplan–Meier plot showing the association of lncRNA RP11 − 301G19.1 expression with the survival of AML patients (in days). An inset showing the expression of RP11 − 301G19.1 in whole blood (GTEx) cohort and AML patients (from TCGA) where the difference between the two groups was statistically tested using Wilcoxon test. (C) Genomic tracks showing the distribution of POP-seq variant peaks in RP11 − 301G19.1 along with the eCLIP profile of highly expressed RBPs in K562 cells. (D) Genomic tracks showing the distribution of POP-seq peaks in MALAT1 along with the eCLIP profile of HNRNPA1 and PTBP1 in K562 cells. Total RNA-seq data (from K562 cells) is included in the track as a background control (Y-axis adjusted to POP-seq coverage scale).
