title: Epigenomic landscape of 5-hydroxymethylcytosine reveals its transcriptional regulation of lncRNAs in colorectal cancer.
abstract: BACKGROUND
  DNA methylation at the 5 position of cytosine (5mC) can be converted to 5-hydroxymethylcytosine (5hmC) by the ten-eleven translocation family. The loss of global levels of 5hmC has been regarded as a hallmark in various cancers. 5-hydroxymethylcytosine is distributed at protein-coding gene bodies and promoters; however, the role and distribution of 5hmC at long non-coding RNAs (lncRNAs) is not clear. We investigated the distribution and regulatory roles of 5hmC for lncRNAs in colorectal cancer (CRC).
  
  
  METHODS
  We integrated genome-wide profiles of 5hmC, 5mC, transcriptome and histone marks in CRC patients and examined the 5hmC-based clinical outcomes in patients.
  
  
  RESULTS
  5-hydroxymethylcytosine was distributed at lncRNA loci and positively correlated with lncRNA transcription. Dysreulated CRC lncRNAs were regulated by 5hmC directly or through abnormal activities of typical and super-enhancers and promoters modified by 5hmC. In addition, 5hmC was involved in long-range chromatin interactions at lncRNA loci. Finally, lncRNAs regulated by differential 5hmC marks were correlated with different clinical outcomes and tumour status in patients.
  
  
  CONCLUSIONS
  5-hydroxymethylcytosine is critical in regulating the transcription of lncRNA and serve as novel biomarkers for clinical prognosis in CRC.
authors.affiliation: Department of Laboratory Medicine, No. 161 Hospital of PLA, Wuhan 430010, China.|School of Basic Medical Science, Wuhan University, Wuhan, China.
authors.forename: Hanyang
authors.initials: H
authors.lastname: Hu
authors.affiliation: Departmemt of Plastic, Aesthetic and Craniofacial Surgery, The First Affiliated Hospital of Xi'an Jiaotong University, Xi'an 710061, China.
authors.forename: Maoguo
authors.initials: M
authors.lastname: Shu
authors.affiliation: Departmemt of Plastic, Aesthetic and Craniofacial Surgery, The First Affiliated Hospital of Xi'an Jiaotong University, Xi'an 710061, China.
authors.forename: Lin
authors.initials: L
authors.lastname: He
authors.affiliation: Departmemt of Plastic, Aesthetic and Craniofacial Surgery, The First Affiliated Hospital of Xi'an Jiaotong University, Xi'an 710061, China.
authors.forename: Xueyuan
authors.initials: X
authors.lastname: Yu
authors.affiliation: Departmemt of Plastic, Aesthetic and Craniofacial Surgery, The First Affiliated Hospital of Xi'an Jiaotong University, Xi'an 710061, China.
authors.forename: Xiangyu
authors.initials: X
authors.lastname: Liu
authors.affiliation: Department of Laboratory Medicine, No. 161 Hospital of PLA, Wuhan 430010, China.
authors.forename: Yalin
authors.initials: Y
authors.lastname: Lu
authors.affiliation: Nursing Department, No. 161 Hospital of PLA, Wuhan 430010, China.
authors.forename: Yinghong
authors.initials: Y
authors.lastname: Chen
authors.affiliation: Department of Epidemiology and Biostatistics and the Ministry of Education Key Lab of Environment and Health, School of Public Health, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, China.
authors.forename: Xiaoping
authors.initials: X
authors.lastname: Miao
authors.affiliation: Department of Laboratory Medicine, No. 161 Hospital of PLA, Wuhan 430010, China.|School of Basic Medical Science, Wuhan University, Wuhan, China.
authors.forename: Xiaohua
authors.initials: X
authors.lastname: Chen
mesh_terms: D044503:5-Methylcytosine / Q000031:analogs & derivatives* / Q000378:metabolism; D015179:Colorectal Neoplasms / Q000235:genetics / Q000473:pathology*; D019175:DNA Methylation; D057890:Epigenomics / Q000379:methods*; D015972:Gene Expression Regulation, Neoplastic; D006801:Humans; D011379:Prognosis; D062085:RNA, Long Noncoding / Q000235:genetics*; D016019:Survival Analysis
chemical_list: D062085:RNA, Long Noncoding; C011865:5-hydroxymethylcytosine; D044503:5-Methylcytosine