The Landscape of Long Non-Coding RNA Dysregulation and Clinical Relevance in Muscle Invasive Bladder Urothelial Carcinoma

Shen, Haotian; Wong, Lindsay M.; Li, Wei Tse; Chu, Megan; High, Rachel A.; Chang, Eric Y.; Wang-Rodriguez, Jessica; Ongkeko, Weg M.

doi:10.3390/cancers11121919

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The Landscape of Long Non-Coding RNA Dysregulation and Clinical Relevance in Muscle Invasive Bladder Urothelial Carcinoma

^1,†,

^1,†,

^1,†,

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^2,3,

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Jessica Wang-Rodriguez

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Weg M. Ongkeko

^1,*

Department of Otolaryngology-Head and Neck Surgery, University of California San Diego, La Jolla, CA 92093, USA

Department of Radiology, University of California San Diego, La Jolla, CA 92093, USA

Radiology Service, VA San Diego Healthcare System San Diego, La Jolla, CA 92161, USA

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Department of Pathology, University of California San Diego, La Jolla, CA 92093, USA

⁵

Pathology Service, VA San Diego Healthcare System, San Diego, CA 92161, USA

Author to whom correspondence should be addressed.

^†

These authors contributed equally to this work.

Cancers 2019, 11(12), 1919; https://doi.org/10.3390/cancers11121919

Received: 28 October 2019 / Revised: 18 November 2019 / Accepted: 22 November 2019 / Published: 2 December 2019

(This article belongs to the Special Issue Non-Coding RNAs as Emerging Regulators of Signalling Pathways and Novel Therapeutic Targets in Human Cancers)

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Abstract

Bladder cancer is one of the most common cancers in the United States, but few advancements in treatment options have occurred in the past few decades. This study aims to identify the most clinically relevant long non-coding RNAs (lncRNAs) to serve as potential biomarkers and treatment targets for muscle invasive bladder cancer (MIBC). Using RNA-sequencing data from 406 patients in The Cancer Genome Atlas (TCGA) database, we identified differentially expressed lncRNAs in MIBC vs. normal tissues. We then associated lncRNA expression with patient survival, clinical variables, oncogenic signatures, cancer- and immune-associated pathways, and genomic alterations. We identified a panel of 20 key lncRNAs that were most implicated in MIBC prognosis after differential expression analysis and prognostic correlations. Almost all lncRNAs we identified are correlated significantly with oncogenic processes. In conclusion, we discovered previously undescribed lncRNAs strongly implicated in the MIBC disease course that may be leveraged for diagnostic and treatment purposes in the future. Functional analysis of these lncRNAs may also reveal distinct mechanisms of bladder cancer carcinogenesis. View Full-Text

Keywords: lncRNAs; lncRNA-protein interaction; bladder carcinoma; TCGA

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MDPI and ACS Style

Shen, H.; Wong, L.M.; Li, W.T.; Chu, M.; High, R.A.; Chang, E.Y.; Wang-Rodriguez, J.; Ongkeko, W.M. The Landscape of Long Non-Coding RNA Dysregulation and Clinical Relevance in Muscle Invasive Bladder Urothelial Carcinoma. Cancers 2019, 11, 1919. https://doi.org/10.3390/cancers11121919

AMA Style

Shen H, Wong LM, Li WT, Chu M, High RA, Chang EY, Wang-Rodriguez J, Ongkeko WM. The Landscape of Long Non-Coding RNA Dysregulation and Clinical Relevance in Muscle Invasive Bladder Urothelial Carcinoma. Cancers. 2019; 11(12):1919. https://doi.org/10.3390/cancers11121919

Chicago/Turabian Style

Shen, Haotian, Lindsay M. Wong, Wei T. Li, Megan Chu, Rachel A. High, Eric Y. Chang, Jessica Wang-Rodriguez, and Weg M. Ongkeko. 2019. "The Landscape of Long Non-Coding RNA Dysregulation and Clinical Relevance in Muscle Invasive Bladder Urothelial Carcinoma" Cancers 11, no. 12: 1919. https://doi.org/10.3390/cancers11121919

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The Landscape of Long Non-Coding RNA Dysregulation and Clinical Relevance in Muscle Invasive Bladder Urothelial Carcinoma

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