title: RNA-sequencing based identification of crucial genes for esophageal squamous cell carcinoma.
abstract: OBJECTIVE
  To identify key genes and pathways in the development of esophageal squamous cell carcinoma with RNA-seq data.
  
  
  METHODS
  RNA-seq data including three paired samples were downloaded from Sequence Read Archive database under accession number SRP007169 and differentially expressed genes (DEGs) were identified with package edge R of R. Functional enrichment analysis was performed to uncover their biological functions with the Database for Annotation, Visualization, and Integrated Discovery (DAVID) tools.
  
  
  RESULTS
  A total of 5561 DEGs were obtained, including 1829 upregulated and 3732 downregulated. Quite a few upregulated genes were components of collagen and matrix metallopeptidases (MMPs), which are involved in cell adhesion, cell mobility and so on. Keratin, mucin and cysteine-rich secretory protein were found to be significantly downregulated. Significantly over-represented biological processes for downregulated genes were epidermis development, epidermal cell differentiation and arachidonic acid metabolism.
  
  
  CONCLUSIONS
  These identified DEGs may be underlying targets for diagnosis and treatment of esophageal squamous cell carcinoma.
authors.forename: Jian-Hua
authors.initials: JH
authors.lastname: Fu
authors.affiliation: Department of Thoracic Surgery, Liaocheng People's Hospital and Liaocheng Clinical School of Taishan Medical University, Liaocheng, Shandong, China.
authors.forename: Li-Quan
authors.initials: LQ
authors.lastname: Wang
authors.forename: Tao
authors.initials: T
authors.lastname: Li
authors.forename: Guo-Jun
authors.initials: GJ
authors.lastname: Ma
mesh_terms: D016718:Arachidonic Acid / Q000235:genetics; D002294:Carcinoma, Squamous Cell / Q000235:genetics*; D002448:Cell Adhesion / Q000235:genetics; D002454:Cell Differentiation / Q000235:genetics; D002465:Cell Movement / Q000235:genetics; D003094:Collagen / Q000235:genetics; D019295:Computational Biology / Q000379:methods; D030541:Databases, Genetic; D015536:Down-Regulation / Q000235:genetics; D004938:Esophageal Neoplasms / Q000235:genetics*; D000077277:Esophageal Squamous Cell Carcinoma; D020869:Gene Expression Profiling / Q000379:methods; D015972:Gene Expression Regulation, Neoplastic / Q000235:genetics; D006801:Humans; D020782:Matrix Metalloproteinases / Q000235:genetics; D012313:RNA / Q000235:genetics*; D017423:Sequence Analysis, RNA / Q000379:methods; D015854:Up-Regulation / Q000235:genetics
chemical_list: D016718:Arachidonic Acid; D012313:RNA; D003094:Collagen; D020782:Matrix Metalloproteinases