title: Discovery and Classification of Fusion Transcripts in Prostate Cancer and Normal Prostate Tissue.
abstract: Fusion transcript formation is one of the fundamental mechanisms that drives the development of prostate cancer. Because of the advance of high-throughput parallel sequencing, many fusion transcripts have been discovered. However, the discovery rate of fusion transcripts specific for prostate cancer is lagging behind the discoveries made on chromosome abnormalities of prostate cancer. Recent analyses suggest that many fusion transcripts are present in both benign and cancerous tissues. Some of these fusion transcripts likely represent important components of normal gene expression in cells. It is necessary to identify the criteria and features of fusion transcripts that are specific for cancer. In this review, we discuss optimization of RNA sequencing depth for fusion transcript discovery and the characteristics of fusion transcripts in normal prostate tissues and prostate cancer. We also propose a new classification of cancer-specific fusion transcripts on the basis of their tail gene fusion protein product and the roles that these fusions may play in cancer development.
authors.affiliation: Department of Pathology, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania. Electronic address: luoj@msx.upmc.edu.
authors.forename: Jian-Hua
authors.initials: JH
authors.lastname: Luo
authors.affiliation: Department of Biostatistics, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania.
authors.forename: Silvia
authors.initials: S
authors.lastname: Liu
authors.affiliation: Department of Pathology, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania.
authors.forename: Ze-Hua
authors.initials: ZH
authors.lastname: Zuo
authors.affiliation: Department of Biostatistics, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania.
authors.forename: Rui
authors.initials: R
authors.lastname: Chen
authors.affiliation: Department of Biostatistics, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania.
authors.forename: George C
authors.initials: GC
authors.lastname: Tseng
authors.affiliation: Department of Pathology, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania.
authors.forename: Yan P
authors.initials: YP
authors.lastname: Yu
mesh_terms: D050939:Gene Fusion / Q000235:genetics; D006801:Humans; D008297:Male; D050596:Oncogene Fusion / Q000235:genetics; D011467:Prostate / Q000502:physiology*; D011471:Prostatic Neoplasms / Q000145:classification / Q000235:genetics*; D012333:RNA, Messenger / Q000235:genetics; D017423:Sequence Analysis, RNA
chemical_list: D012333:RNA, Messenger