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Decoding the LncRNA transcriptome of esophageal cancer: identification of clinically relevant LncRNAs
Seema Khadirnaikar1, Sathiya Pandi Narayanan2, Sudhanshu Kumar Shukla1
1Department of Biosciences & Bioengineering, Indian Institute of Technology Dharwad, Dharwad, Karnataka-580011, India.
Aim:
LncRNAs may act as promising biomarkers in esophageal cancer (EC). Here, we illustrate the LncRNA profile and their clinical relevance in EC.
Patients & Methods:
In this study, we utilized the Cancer Genome Atlas RNA-sequencing and clinical data from 186 patients and 13 normal samples. Various statistical and gene set enrichment analysis (GSEA) were performed to identify the biomarkers.
Results:
In a differential expression analysis, we identified a total of 127 LncRNAs with more differentially expressed in EC compared with normal and showed their function using guilt-by-association analysis. We generated a LncRNAs prognostic signature for EC. Using Cox regression analysis, we showed the prognostic ability of LncRNAs' prognostic signature in training and test-cohort (p-value < 0.01).
Conclusion:
In summary, we explored the LncRNA expression profile and their clinical utility in EC patients.
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