title: Microarray analysis of Long non-coding RNA expression profiles in human gastric cells and tissues with Helicobacter pylori Infection.
abstract: BACKGROUND
  Although Helicobacter pylori (H.pylori) is the dominant gastrointestinal pathogen, the genetic and molecular mechanisms underlying H.pylori-related diseases have not been fully elucidated. Long non-coding RNAs (lncRNAs) have been identified in eukaryotic cells, many of which play important roles in regulating biological processes and pathogenesis. However, the expression changes of lncRNAs in human infected by H.pylori have been rarely reported. This study aimed to identify the dysregulated lncRNAs in human gastric epithelial cells and tissues infected with H.pylori.
  
  
  METHODS
  The aberrant expression profiles of lncRNAs and mRNAs in GES-1 cells with or without H.pylori infection were explored by microarray analysis. LncRNA-mRNA co-expression network was constructed based on Pearson correlation analysis. Gene Ontology (GO) and KEGG Pathway analyses of aberrantly expressed mRNAs were performed to identify the related biological functions and pathologic pathways. The expression changes of target lncRNAs were validated by qRT-PCR to confirm the microarray data in both cells and clinical specimens.
  
  
  RESULTS
  Three hundred three lncRNAs and 565 mRNAs were identified as aberrantly expressed transcripts (≥2 or ≤0.5-fold change, P < 0.05) in cells with H.pylori infection compared to controls. LncRNA-mRNA co-expression network showed the core lncRNAs/mRNAs which might play important roles in H.pylori-related pathogenesis. GO and KEGG analyses have indicated that the functions of aberrantly expressed mRNAs in H.pylori infection were related closely with inflammation and carcinogenesis. QRT-PCR data confirmed the expression pattern of 8 (n345630, XLOC_004787, n378726, LINC00473, XLOC_005517, LINC00152, XLOC_13370, and n408024) lncRNAs in infected cells. Additionally, four down-regulated (n345630, XLOC_004787, n378726, and LINC00473) lncRNAs were verified in H.pylori-positive gastric samples.
  
  
  CONCLUSIONS
  Our study provided a preliminary exploration of lncRNAs expression profiles in H.pylori-infected cells by microarray. These dysregulated lncRNAs might contribute to the pathological processes during H.pylori infection.
authors.affiliation: School of Medicine, Jiangsu University, 301 Xuefu Road, Zhenjiang, Jiangsu, 212013, China. emeraldzh@sina.com.
authors.forename: Hong
authors.initials: H
authors.lastname: Zhu
authors.affiliation: Department of Gastroenterology, The Second People's Hospital of Changzhou, Changzhou, Jiangsu, 213003, China. wqyx80513@126.com.
authors.forename: Qiang
authors.initials: Q
authors.lastname: Wang
authors.affiliation: School of Medicine, Jiangsu University, 301 Xuefu Road, Zhenjiang, Jiangsu, 212013, China. yaoyizheng1228@163.com.
authors.forename: Yizheng
authors.initials: Y
authors.lastname: Yao
authors.affiliation: School of Medicine, Jiangsu University, 301 Xuefu Road, Zhenjiang, Jiangsu, 212013, China. 510264709@qq.com.
authors.forename: Jian
authors.initials: J
authors.lastname: Fang
authors.affiliation: School of Medicine, Jiangsu University, 301 Xuefu Road, Zhenjiang, Jiangsu, 212013, China. sfy7432160@126.com.
authors.forename: Fengying
authors.initials: F
authors.lastname: Sun
authors.affiliation: School of Medicine, Jiangsu University, 301 Xuefu Road, Zhenjiang, Jiangsu, 212013, China. Ali_Fantasy@yeah.com.
authors.forename: Ying
authors.initials: Y
authors.lastname: Ni
authors.affiliation: School of Medicine, Jiangsu University, 301 Xuefu Road, Zhenjiang, Jiangsu, 212013, China. 1017448491@qq.com.
authors.forename: Yixin
authors.initials: Y
authors.lastname: Shen
authors.affiliation: School of Medicine, Jiangsu University, 301 Xuefu Road, Zhenjiang, Jiangsu, 212013, China. wangjiahan1979@163.com.
authors.forename: Hua
authors.initials: H
authors.lastname: Wang
authors.affiliation: School of Medicine, Jiangsu University, 301 Xuefu Road, Zhenjiang, Jiangsu, 212013, China. shaoshihe2006@163.com.
authors.forename: Shihe
authors.initials: S
authors.lastname: Shao
mesh_terms: D002460:Cell Line; D004847:Epithelial Cells / Q000378:metabolism* / Q000382:microbiology; D005753:Gastric Mucosa / Q000378:metabolism; D020869:Gene Expression Profiling; D063990:Gene Ontology; D016480:Helicobacter pylori / Q000502:physiology*; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis; D062085:RNA, Long Noncoding / Q000235:genetics*; D012333:RNA, Messenger / Q000235:genetics; D013270:Stomach / Q000166:cytology* / Q000382:microbiology*
chemical_list: D062085:RNA, Long Noncoding; D012333:RNA, Messenger