title: A transcriptome profile in hepatocellular carcinomas based on integrated analysis of microarray studies.
abstract: BACKGROUND
  Despite new treatment options for hepatocellular carcinomas (HCC) recently, 5-year survival remains poor, ranging from 50 to 70%, which may attribute to the lack of early diagnostic biomarkers. Thus, developing new biomarkers for early diagnosis of HCC, is extremely urgent, aiming to decrease HCC-related deaths.
  
  
  METHODS
  In the study, we conducted a comprehensive characterization of gene expression data of HCC based on a bioinformatics method. The results were confirmed by real time polymerase chain reaction (RT-PCR) and TCGA database to prove the credibility of this integrated analysis.
  
  
  RESULTS
  After integrating analysis of seven HCC gene expression datasets, 1167 differential expressed genes (DEGs) were identified. These genes mainly participated in the process of cell cycle, oocyte meiosis, and oocyte maturation mediated by progesterone. The results of experiments and TCGA database validation in 10 genes was in full accordance with findings in integrated analysis, indicating the high credibility of our integrated analysis of different gene expression datasets. ASPM, CCT3, and NEK2 was showed to be significantly associated with overall survival of HCC patients in TCGA database.
  
  
  CONCLUSIONS
  This method of integrated analysis may be a useful tool to minish the heterogeneity of individual microarray, hopefully outputs more accurate HCC transcriptome profiles based on large sample size, and explores some potential biomarkers and therapy targets for HCC.
authors.affiliation: Department of Oncology, The First Affiliated Hospital of PLA General Hospital, Fucheng Road 51, Beijing, 100048, China.
authors.forename: Feifei
authors.initials: F
authors.lastname: Wang
authors.affiliation: Department of Oncology, The First Affiliated Hospital of PLA General Hospital, Fucheng Road 51, Beijing, 100048, China.
authors.forename: Ruliang
authors.initials: R
authors.lastname: Wang
authors.affiliation: Department of Oncology, The First Affiliated Hospital of PLA General Hospital, Fucheng Road 51, Beijing, 100048, China.
authors.forename: Qiuwen
authors.initials: Q
authors.lastname: Li
authors.affiliation: Department of Oncology, The First Affiliated Hospital of PLA General Hospital, Fucheng Road 51, Beijing, 100048, China.
authors.forename: Xueling
authors.initials: X
authors.lastname: Qu
authors.affiliation: Department of Oncology, The First Affiliated Hospital of PLA General Hospital, Fucheng Road 51, Beijing, 100048, China.
authors.forename: Yixin
authors.initials: Y
authors.lastname: Hao
authors.affiliation: Department of Oncology, The First Affiliated Hospital of PLA General Hospital, Fucheng Road 51, Beijing, 100048, China.
authors.forename: Jingwen
authors.initials: J
authors.lastname: Yang
authors.affiliation: Department of Oncology, The First Affiliated Hospital of PLA General Hospital, Fucheng Road 51, Beijing, 100048, China.
authors.forename: Huixia
authors.initials: H
authors.lastname: Zhao
authors.affiliation: Department of Oncology, The First Affiliated Hospital of PLA General Hospital, Fucheng Road 51, Beijing, 100048, China.
authors.forename: Qian
authors.initials: Q
authors.lastname: Wang
authors.affiliation: Department of Oncology, The First Affiliated Hospital of PLA General Hospital, Fucheng Road 51, Beijing, 100048, China.
authors.forename: Guanghui
authors.initials: G
authors.lastname: Li
authors.affiliation: Department of Oncology, The First Affiliated Hospital of PLA General Hospital, Fucheng Road 51, Beijing, 100048, China.
authors.forename: Fengyun
authors.initials: F
authors.lastname: Zhang
authors.affiliation: Department of Oncology, The First Affiliated Hospital of PLA General Hospital, Fucheng Road 51, Beijing, 100048, China.
authors.forename: He
authors.initials: H
authors.lastname: Zhang
authors.affiliation: Department of Oncology, The First Affiliated Hospital of PLA General Hospital, Fucheng Road 51, Beijing, 100048, China.
authors.forename: Xuan
authors.initials: X
authors.lastname: Zhou
authors.affiliation: Department of Oncology, The First Affiliated Hospital of PLA General Hospital, Fucheng Road 51, Beijing, 100048, China.
authors.forename: Xioumei
authors.initials: X
authors.lastname: Peng
authors.affiliation: Department of Bioinformatics, Beijing Medintell Biomed Co., Ltd, Beijing, China.
authors.forename: Yang
authors.initials: Y
authors.lastname: Bian
authors.affiliation: Department of Oncology, The First Affiliated Hospital of PLA General Hospital, Fucheng Road 51, Beijing, 100048, China. wenhua_xiao_doctor@163.com.
authors.forename: Wenhua
authors.initials: W
authors.lastname: Xiao
mesh_terms: D014408:Biomarkers, Tumor / Q000235:genetics; D006528:Carcinoma, Hepatocellular / Q000235:genetics*; D019295:Computational Biology / Q000379:methods*; D030541:Databases, Genetic; D020869:Gene Expression Profiling / Q000379:methods*; D053263:Gene Regulatory Networks; D006801:Humans; D008113:Liver Neoplasms / Q000235:genetics*; D020411:Oligonucleotide Array Sequence Analysis; D060888:Real-Time Polymerase Chain Reaction; D059467:Transcriptome
chemical_list: D014408:Biomarkers, Tumor
keywords: Differentially expressed gene; Expression profile; Hepatocellular cancer; Integrated analysis; Real time polymerase chain reaction; TCGA validation