title: Identification and functional annotation of lncRNA genes with hypermethylation in colorectal cancer.
abstract: Colorectal cancer (CRC) is one of the leading causes of mortality worldwide. DNA methylation is an important epigenetic modification for CRC. Although currently a number of studies about DNA methylation of protein coding genes have been carried out, only a few are about the methylation of genes encoding the long noncoding RNAs (lncRNAs). In this study, we identified 761 lncRNA genes with DNA hypermethylation in CRC using a free MethylCap-seq dataset. Integration of lncRNA expression and methylation datasets showed that the expression of lncRNAs is negatively correlated with DNA methylation (p<0.01). Co-methylation network was also constructed to annotate the functions of unknown lncRNAs. Our results showed that a total of 364 lncRNAs were annotated with at least one GO biological process term. The current data-mining work is likely to provide informative clues for biological researchers to further understand the role of lncRNAs in the development of CRC.
authors.affiliation: Department of Prevention Medicine, School of Medicine, Ningbo University, Ningbo, Zhejiang, 315211, China.
authors.forename: Qi
authors.initials: Q
authors.lastname: Liao
authors.affiliation: Gastrointestinal Surgery Center, The First Affiliated Hospital, Sun Yat-Sen University, Guangzhou, Guangdong 510080, China.
authors.forename: Weiling
authors.initials: W
authors.lastname: He
authors.affiliation: Department of Prevention Medicine, School of Medicine, Ningbo University, Ningbo, Zhejiang, 315211, China.
authors.forename: Jianfa
authors.initials: J
authors.lastname: Liu
authors.affiliation: Yinzhou Branch of Ningbo Public Security Bureau, Ningbo, Zhejiang 315100, China.
authors.forename: Yi
authors.initials: Y
authors.lastname: Cen
authors.affiliation: Department of Prevention Medicine, School of Medicine, Ningbo University, Ningbo, Zhejiang, 315211, China.
authors.forename: Liang
authors.initials: L
authors.lastname: Luo
authors.affiliation: Department of Prevention Medicine, School of Medicine, Ningbo University, Ningbo, Zhejiang, 315211, China.
authors.forename: Chengliang
authors.initials: C
authors.lastname: Yu
authors.affiliation: Department of Prevention Medicine, School of Medicine, Ningbo University, Ningbo, Zhejiang, 315211, China.
authors.forename: Yang
authors.initials: Y
authors.lastname: Li
authors.affiliation: Department of Prevention Medicine, School of Medicine, Ningbo University, Ningbo, Zhejiang, 315211, China.
authors.forename: Sitong
authors.initials: S
authors.lastname: Chen
authors.affiliation: Zhejiang Provincial Key Laboratory of Pathophysiology, School of Medicine, Ningbo University, Ningbo, Zhejiang 315211, China. Electronic address: duanshiwei@nbu.edu.cn.
authors.forename: Shiwei
authors.initials: S
authors.lastname: Duan
mesh_terms: D015179:Colorectal Neoplasms / Q000235:genetics*; D019175:DNA Methylation; D057225:Data Mining; D030541:Databases, Genetic; D006801:Humans; D058977:Molecular Sequence Annotation; D062085:RNA, Long Noncoding / Q000378:metabolism*; D017422:Sequence Analysis, DNA
chemical_list: D062085:RNA, Long Noncoding
keywords: Co-methylation network; Colorectal cancer; DNA methylation; Functional annotation; Long noncoding RNAs