Open AccessMulti-omics analysis based on integrated genomics, epigenomics and transcriptomics in pancreatic cancer
Author(s) -
Lingming Kong,
Peng Liu,
Mingjun Zheng,
Busheng Xue,
Keke Liang,
Xiaodong Tan
Publication year - 2020
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-2019-0374
Subject(s) - epigenomics , pancreatic cancer , biology , dna methylation , omics , genomics , copy number variation , transcriptome , computational biology , bioinformatics , genome , cancer , gene , genetics , gene expression
Aim: Integrated analysis of genomics, epigenomics, transcriptomics and clinical information contributes to identify specific molecular subgroups and find novel biomarkers for pancreatic cancer. Materials & methods: The DNA copy number variation, the simple nucleotide variation, methylation and mRNA data of pancreatic cancer patients were obtained from The Cancer Genome Atlas. Four molecular subgroups (iC1, iC2, iC3 and iC4) of pancreatic cancer were identified by integrating analysis. Results: The iC1 subgroup harbors better prognosis, higher immune score, lesser DNA copy number variation mutations and better genomic stability compared with iC2, iC3 and iC4 subgroups. Three new genes ( GRAP2, ICAM3 and A2ML1) correlated with prognosis were identified. Conclusion: Integrated multi-omics analysis provides fresh insight into molecular classification of pancreatic cancer, which may help discover new prognostic biomarkers and reveal the underlying mechanism of pancreatic cancer.