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Characterization of long noncoding RNA and messenger RNA signatures in melanoma tumorigenesis and metastasis
- Source :
- PLoS ONE, PLoS ONE, Vol 12, Iss 2, p e0172498 (2017)
- Publication Year :
- 2016
-
Abstract
- The incidence of melanoma, the most aggressive and life-threatening form of skin cancer, has significantly risen over recent decades. Therefore, it is essential to identify the mechanisms that underlie melanoma tumorigenesis and metastasis and to explore novel and effective melanoma treatment strategies. Accumulating evidence s uggests that aberrantly expressed long noncoding RNAs (lncRNAs) have vital functions in multiple cancers. However, lncRNA functions in melanoma tumorigenesis and metastasis remain unclear. In this study, we investigated lncRNA and messenger RNA (mRNA) expression profiles in primary melanomas, metastatic melanomas and normal skin samples from the Gene Expression Omnibus database. We used GSE15605 as the training set (n = 74) and GSE7553 as the validation set (n = 58). In three comparisons (primary melanoma versus normal skin, metastatic melanoma versus normal skin, and metastatic melanoma versus primary melanoma), 178, 295 and 48 lncRNAs and 847, 1758, and 295 mRNAs were aberrantly expressed, respectively. We performed Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway analyses to examine the differentially expressed mRNAs, and potential core lncRNAs were predicted by lncRNA-mRNA co-expression networks. Based on our results, 15 lncRNAs and 144 mRNAs were significantly associated with melanoma tumorigenesis and metastasis. A subsequent analysis suggested a critical role for a five-lncRNA signature during melanoma tumorigenesis and metastasis. Low expression of U47924.27 was significantly associated with decreased survival of patients with melanoma. To the best of our knowledge, this study is the first to explore the expression patterns of lncRNAs and mRNAs during melanoma tumorigenesis and metastasis by re-annotating microarray data from the Gene Expression Omnibus (GEO) microarray dataset. These findings reveal potential roles for lncRNAs during melanoma tumorigenesis and metastasis and provide a rich candidate reservoir for future studies.
- Subjects :
- 0301 basic medicine
Melanomas
Skin Neoplasms
Microarrays
Carcinogenesis
Gene Expression
lcsh:Medicine
Bioinformatics
Biochemistry
Metastasis
Database and Informatics Methods
Basic Cancer Research
Databases, Genetic
Medicine and Health Sciences
Neoplasm Metastasis
lcsh:Science
Melanoma
Skin
Regulation of gene expression
Multidisciplinary
Messenger RNA
Genomics
Genomic Databases
Prognosis
Long non-coding RNA
Nucleic acids
Gene Expression Regulation, Neoplastic
Survival Rate
Bioassays and Physiological Analysis
Cell Transformation, Neoplastic
Oncology
RNA, Long Noncoding
Research Article
Biology
Research and Analysis Methods
03 medical and health sciences
medicine
Genetics
Humans
RNA, Messenger
Non-coding RNA
neoplasms
Biology and life sciences
Microarray analysis techniques
Gene Expression Profiling
lcsh:R
Cancers and Neoplasms
Computational Biology
Correction
medicine.disease
Genome Analysis
Gene expression profiling
030104 developmental biology
Biological Databases
Cutaneous melanoma
Cancer research
Long non-coding RNAs
RNA
lcsh:Q
Skin cancer
Subjects
Details
- ISSN :
- 19326203
- Volume :
- 12
- Issue :
- 2
- Database :
- OpenAIRE
- Journal :
- PloS one
- Accession number :
- edsair.doi.dedup.....2ca20d366211130309c8ac1295c8cad7