Open AccessGenome-wide DNA methylation and RNA expression differences correlate with invasiveness in melanoma cell lines
Author(s) -
Jyoti Motwani,
Euan J. Rodger,
Peter A. Stockwell,
Bruce C. Baguley,
Erin C. Macaulay,
Michael R. Eccles
Publication year - 2021
Publication title -
epigenomics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.265
H-Index - 60
eISSN - 1750-1911
pISSN - 1750-192X
DOI - 10.2217/epi-2020-0440
Subject(s) - biology , dna methylation , transcriptome , gene , bisulfite sequencing , methylation , genetics , illumina methylation assay , genome , phenotype , epigenetics , rna seq , differentially methylated regions , gene expression profiling , dna sequencing , computational biology , microbiology and biotechnology , gene expression
Aims & objectives: The aim of this study was to investigate the role of DNA methylation in invasiveness in melanoma cells. Materials & methods: The authors carried out genome-wide transcriptome (RNA sequencing) and reduced representation bisulfite sequencing methylome profiling between noninvasive (n = 4) and invasive melanoma cell lines (n = 5). Results: The integration of differentially expressed genes and differentially methylated fragments (DMFs) identified 12 DMFs (two in AVPI1, one in HMG20B, two in BCL3, one in NTSR1, one in SYNJ2, one in ROBO2 and four in HORMAD2) that overlapped with either differentially expressed genes (eight DMFs and six genes) or cis-targets of lncRNAs (five DMFs associated with cis-targets and four differentially expressed lncRNAs). Conclusions: DNA methylation changes are associated with a number of transcriptional differences observed in noninvasive and invasive phenotypes in melanoma.