title: Detection of prostate cancer related copy number variations with SNP genotyping array.
abstract: OBJECTIVE
  Prostate cancer is characterized by the accumulation of multiple copy number variants (CNVs) across the genome. We aim to identify potential prostate cancer related CNVs.
  
  
  METHODS
  Whole-genome SNP genotyping data of 18 prostate cancer patients was downloaded from the GEO (Gene Expression Omnibus) database. PennCNV was used to detect CNVs. All genes and miRNAs affected by CNVs were annotated. We also identified biological processes where these genes over-represented to capture the characteristics of prostate cancer.
  
  
  RESULTS
  Dominance of deletions was identified in all subjects. A total of 131 genes and 2 miRNAs which were affected by CNVs supported by at least two samples were detected. Over-representations of biological processes related with immune or inflammation response and cell cycle were identified. Two miRNAs, hsa-miR-1302 and hsa-miR-548j, were affected by CNVs and their target genes were reported to be related with prostate cancer according to the Mendelian Inheritance in Man database.
  
  
  CONCLUSIONS
  We identified genes known to be affected by prostate cancer associated CNVs in previous studies; we also identified new genes and miRNAs not reported as interesting. The discoveries in this study may advance the knowledge of the prostate cancer pathogenesis.
authors.affiliation: Department of Endocrinology, The First Affiliated Hospital of Xi'an Jiaotong University, Xi'an, Shaanxi, China. 13572101611@163.com  
authors.forename: Y
authors.initials: Y
authors.lastname: Wang
authors.forename: X
authors.initials: X
authors.lastname: Yao
authors.forename: S-N
authors.initials: SN
authors.lastname: Li
authors.forename: A-L
authors.initials: AL
authors.lastname: Suo
authors.forename: T
authors.initials: T
authors.lastname: Tian
authors.forename: Z-P
authors.initials: ZP
authors.lastname: Ruan
authors.forename: H
authors.initials: H
authors.lastname: Guo
authors.forename: Y
authors.initials: Y
authors.lastname: Yao
mesh_terms: D056915:DNA Copy Number Variations; D030541:Databases, Genetic; D017353:Gene Deletion; D055106:Genome-Wide Association Study; D005838:Genotype; D060005:Genotyping Techniques; D006801:Humans; D008297:Male; D035683:MicroRNAs / Q000235:genetics*; D020411:Oligonucleotide Array Sequence Analysis; D020641:Polymorphism, Single Nucleotide; D011471:Prostatic Neoplasms / Q000235:genetics*
chemical_list: D035683:MicroRNAs