Whole transcriptome analysis reveals correlation of long noncoding RNA ZEB1-AS1 with invasive profile in melanoma

Scientific Reports
Ádamo Davi Diógenes SienaWilson Araújo Silva

Abstract

Melanoma is the deadliest form of skin cancer, and little is known about the impact of deregulated expression of long noncoding RNAs (lncRNAs) in the progression of this cancer. In this study, we explored RNA-Seq data to search for lncRNAs associated with melanoma progression. We found distinct lncRNA gene expression patterns across melanocytes, primary and metastatic melanoma cells. Also, we observed upregulation of the lncRNA ZEB1-AS1 (ZEB1 antisense RNA 1) in melanoma cell lines. Data analysis from The Cancer Genome Atlas (TCGA) confirmed higher ZEB1-AS1 expression in metastatic melanoma and its association with hotspot mutations in BRAF (B-Raf proto-oncogene, serine/threonine kinase) gene and RAS family genes. In addition, a positive correlation between ZEB1-AS1 and ZEB1 (zinc finger E-box binding homeobox 1) gene expression was verified in primary and metastatic melanomas. Using gene expression signatures indicative of invasive or proliferative phenotypes, we found an association between ZEB1-AS1 upregulation and a transcriptional profile for invasiveness. Enrichment analysis of correlated genes demonstrated cancer genes and pathways associated with ZEB1-AS1. We suggest that the lncRNA ZEB1-AS1 could function by activating...Continue Reading

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Citations

Oct 23, 2019·International Journal of Molecular Medicine·Dongdong WangZhiping Li
Jan 29, 2021·International Journal of Molecular Sciences·Vincenzo De FalcoTeresa Troiani
Feb 24, 2021·The Journal of Maternal-fetal & Neonatal Medicine : the Official Journal of the European Association of Perinatal Medicine, the Federation of Asia and Oceania Perinatal Societies, the International Society of Perinatal Obstetricians·Tao LiYunhui Gong
Jun 4, 2021·Molecular Oncology·Barbara MonticoElisabetta Fratta
Oct 24, 2020·Experimental and Molecular Pathology·Amin SafaSoudeh Ghafouri-Fard

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Datasets Mentioned

BETA
GSE46818

Methods Mentioned

BETA
RNA-Seq
PCA

Software Mentioned

Gene SeT AnaLysis Toolkit (
STAR
Bioconductor
edgeR
WebGestalt )
Reactome
R
SAMMSON
FastQC
GENCODE

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