Expression of the Long Non-Coding RNA HOTAIR Correlates with Disease Progression in Bladder Cancer and Is Contained in Bladder Cancer Patient Urinary Exosomes

...-protein coding RNA 1 (HYMA1), Long intergenic non-protein coding RNA 477 (LINC00477), LOC 100506688, Orthodenticle homeobox 2 antisense RNA 1 (OTX2-AS1) Materials and Methods Patients and Volunteers This study was approved by the Research Subjects Review Board at the University of Rochester Medical Center (RSRB approval number IRB#46706). Chemotherapy nave patients undergoing cystectomy for HG disease (final cystectomy pathology pT2-pT4) were enrolled in this study. Written informed consent was

... transcriptional signature of tumors suggesting that lncRNA in UEs may serve as biomarkers for UBC. UBC patient urinary exosomes contain elevated levels of novel lncRNAs In order to identify additional and novel lncRNA in UEs, we RNA-sequenced UEs from 8 patients with HGMI disease (pT2-pT4 final cystectomy pathology) and 3 HVs. 20 million 125bp pair-ended reads were obtained for each sample. We identified four lncRNAs (HYMA1, LINC00477, LOC100506688, and OTX2-AS1), two of which are novel (LINC00477, LOC100506688). We used qRT-PCR to confirm the RNA-seq data in the original 8 patients plus two additional patients UEs (n = 10 UBC patients UEs) compared to the original 3 HVs UEs and additional 4 HVs UEs (n = 7 HVs UEs). Fig 7 demonstrates that UEs from patient with HGMI (pT2-pT4) disease are enriched in lncRNA HYMA1, LINC00477, LOC100506688 and OTX2-AS1. These data further support the idea that UEs from UBC patients contain lncRNA and may ultimately serve a role in biomarker discovery. 10.1371/journal.pone.0147236.g007 Fig 7 lncRNAs HYMA1, LINC00477, LOC100506688 and OTX2-AS1 are enriched in UEs of UBC patients with HGMI disease (pT2-pT4). Confirmatory qRT-PCR of the novel lncRNAs (normalized to 18s) identified by RNA-sequencing in n = 8 UEs from patients with HGMI (pT2-pT4) UBC and UEs from n = 7 HVs. Students t-test *p<0.05, **p<0.01, ***p<0.001. Discussion There is growing interest in the roles that lncRNAs play in tumor initiation and progression. lncRNA have been implicated in tumor

... quantification sensitivity, combined with the ability to identify insertion and deletions, as well as alternatively spliced and polyadenlyated RNA isoforms. Thus RNA-seq of UEs may allow detection of critical cancer-specific transcripts missed by previous microarray studies of UE content [ 82 84 ]. Here we identified four additional lncRNAs: HYMAI, LINC00477, LOC100506688 and OTX2-AS1 in UEs from UBC patients ( Fig 7 ). These lncRNAs were confirmed by qRT-PCR in the original 8 patients and 3 HVs plus an

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Gene: LINC00477 - long intergenic non-protein coding RNA 477 - (NCBI)

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