(A) Top graph depicts the number of genes with transcription read-through per ccRCC sample. The heatmap illustrates the genes with (blue) and without (grey) transcription read-through. The left …
(A) The top graph indicates the number of genes with transcription read-through on each ccRCC patient sample. Samples were split in two groups according to the number of genes with transcription …
(A) SETD2 expression levels (FPKMs) in HEK293 and ccRCC cell lines. (B) Number of genes with transcription read-through up to 4 Kb downstream the TTS. *p<0.05 by Fisher’s Exact Test after comparing …
Heatmap and metagene of RNA-seq profiles for the following SETD2 mutant ccRCC cell lines: MF (A), AB (B) and ER (C). Heatmap representation of RNA-seq profile distribution and fold change after the …
(A,B) Heatmap representation of RNA-seq profile distribution and fold change after the TTS region of genes showing transcription read-through. The left panel shows the read counts (log2 RPKMs) of …
Caki2 cells were transfected with siRNA oligos against SETD2 or the firefly luciferase (GL2) (control) 48 hr before RNA extraction. RT-qPCR was carried out with primers designed to detect …
(A) RNA FISH experiments on a SETD2-mutant ccRCC cell line (FG2) transiently expressing wt SETD2-GFP. Quasar570-labeled probes were designed against a region downstream the termination sites of MRPL2…
Heatmap (A) and metagene (B) profiles of the intergenic region and of the gene located downstream of a read-through event in one representative ccRCC TCGA sample (patient barcode TCGA-CZ-5465). …
(A) Distribution of the correlation between the read-through and the expression levels of the downstream tandem genes. Significant correlation values (Benjamini-Hochberg adjusted p<0.05) are …
(A) Circos plots showing the location of genes forming each RNA chimera detected on human ccRCC cell lines and TCGA samples. Chimeras are represented by curves inside the Circos. (B) Number of …
(A) Schematic illustration of the CTSC-RAB38 locus depicting the position of the primers used to measure the transcripts levels by RT-qPCR shown in (B) and (C) and the position of the siRNAs …
(A) Genes with transcription read-through identified in human ccRCC TCGA samples. (B) Genes involved in transcription termination and pre-mRNA processing with mutations in TCGA samples. (C) Genes with transcription read-through identified in human ccRCC cell lines. (D) Genes with transcription read-through identified in human 786-O ccRCC cells. (E) Genes with transcription read-through identified in human mesenchymal stem cells. (F) Genes with transcription read-through identified in mouse embryonic stem cells. (G) Genes with transcription read-through identified in human ccRCC TCGA samples, showing significant correlation between read-through levels and expression of downstream gene. (H). Read-Through RNA chimeras identified in human ccRCC TCGA samples and ccRCC cell lines. (I). siRNAs and Primer Sequences. (J) Sequences of RNA FISH probes.