title: Both genes and lncRNAs can be used as biomarkers of prostate cancer by using high throughput sequencing data.
abstract: OBJECTIVE
  To investigate prostate cancer-related genes and lncRNAs by using a high throughput sequencing dataset.
  
  
  METHODS
  RNA-seq data were obtained from the sequencing read archive database, including both benign and malignant tumor samples. After aligning the RNA-seq reads to human genome reference, gene expression profile as well as lncRNA expression profile was obtained. Next, student's t-test was used to screen both the differentially expressed genes (DEGs) and lncRNAs (DELs) between benign and malignant samples. Finally, goseq was used to conduct the functional annotation of DEGs.
  
  
  RESULTS
  A total of 7112 DEGs were screened, such as ZNF512B, UCKL1, STMN3, GMEB2, and PTK6. The top 10 enriched functions of DEGs were mainly related to organism development, including multi-cellular development, system development and anatomical structure development. Also, we discovered 26 differentially expressed lncRNAs.
  
  
  CONCLUSIONS
  The analysis used in this study is reliable in screening prostate cancer markers including both genes and lncRNAs by using RNA-seq data, which provides new insight into the understanding of molecular mechanism of prostate cancer.
authors.affiliation: Department of Urology, Taizhou Municipal Hospital, Taizhou, Zhejiang, China. dongliangyan123@126.com.
authors.forename: W-S
authors.initials: WS
authors.lastname: Cheng
authors.forename: H
authors.initials: H
authors.lastname: Tao
authors.forename: E-P
authors.initials: EP
authors.lastname: Hu
authors.forename: S
authors.initials: S
authors.lastname: Liu
authors.forename: H-R
authors.initials: HR
authors.lastname: Cai
authors.forename: X-L
authors.initials: XL
authors.lastname: Tao
authors.forename: L
authors.initials: L
authors.lastname: Zhang
authors.forename: J-J
authors.initials: JJ
authors.lastname: Mao
authors.forename: D-L
authors.initials: DL
authors.lastname: Yan
mesh_terms: D014408:Biomarkers, Tumor / Q000096:biosynthesis* / Q000235:genetics*; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D006801:Humans; D008297:Male; D011471:Prostatic Neoplasms / Q000235:genetics* / Q000378:metabolism*; D062085:RNA, Long Noncoding / Q000096:biosynthesis* / Q000235:genetics*; D059467:Transcriptome
chemical_list: D014408:Biomarkers, Tumor; D062085:RNA, Long Noncoding