title: Genome-wide analysis of long non-coding RNA in primary nasopharyngeal carcinoma by microarray.
abstract: OBJECTIVE
  Alterations in the expression of several long non-coding RNAs (lncRNAs) have been found in primary nasopharyngeal carcinoma (NPC). However, the effect of lncRNA expression on primary NPC as well as the molecular mechanism of lncRNA remains vague. This study was to identify differentially expressed lncRNAs involved in NPC on a genome-wide scale and predict their potential functions.
  
  
  RESULTS
  Using high-throughput microarray with 30,586 lncRNA and 26,109 mRNA probes, 856 lncRNAs and 767 mRNAs were expressed differentially between NPC and chronic nasopharyngitis tissues. Bioinformatic analysis (clustering analysis, gene ontology analysis and pathway analysis) was used for further research. Differentially expressed lncRNAs were subgrouped into three types and differentially expressed mRNAs were clustered into 28 pathways. The first coexpression network analysis revealed that 46 lncRNAs interacting with three mRNAs involved the Janus kinase-signal transducer and activator of transcription (JAK-STAT) signalling pathway. Quantitative real-time polymerase chain reaction (PCR) verified 11 up- and down-regulated lncRNAs and eight mRNAs in NPC. The second coexpression network analysis showed that 23 significantly aberrantly expressed mRNAs interacted with three validated lncRNAs.
  
  
  CONCLUSIONS
  This study could provide new insight into the molecular mechanisms of lncRNAs and their potential role in NPC for further study. These differentially expressed lncRNAs may act as novel biomarkers and therapeutic targets for NPC.
authors.affiliation: Union School of Clinical Medicine, Fujian Medical University, Fuzhou, Fujian, China.
authors.forename: Qing-Qing
authors.initials: QQ
authors.lastname: Yang
authors.affiliation: Union School of Clinical Medicine, Fujian Medical University, Fuzhou, Fujian, China.|Department of Otolaryngology, Zhongshan Hospital, Xiamen University, Xiamen, Fujian, China.
authors.forename: Yan-Fei
authors.initials: YF
authors.lastname: Deng
mesh_terms: D000328:Adult; D000368:Aged; D002277:Carcinoma; D016000:Cluster Analysis; D005260:Female; D020869:Gene Expression Profiling; D015972:Gene Expression Regulation, Neoplastic; D063990:Gene Ontology; D006801:Humans; D008297:Male; D008875:Middle Aged; D000077274:Nasopharyngeal Carcinoma; D009303:Nasopharyngeal Neoplasms / Q000235:genetics* / Q000473:pathology; D020411:Oligonucleotide Array Sequence Analysis; D062085:RNA, Long Noncoding / Q000235:genetics*; D015398:Signal Transduction / Q000235:genetics*; D059467:Transcriptome; D055815:Young Adult
chemical_list: D062085:RNA, Long Noncoding
keywords: co expression network analysis; genome-wide analysis; long non-coding RNA; microarray; nasopharyngeal carcinoma