Identification of novel cancer fusion genes using chromosome breakpoint screening

Kate Hua, Chin Hui Lin, Ya Lun Chen, Chi Hung Lin, Yueh Hsin Ping, Yuh Shan Jou, Chian Feng Chen*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

1 Scopus citations


Gene fusion due to rearrangement or translocation of chromosomes is a powerful mutational mechanism during tumorigenesis. Several new high-resolution technologies have recently been developed to evaluate large numbers of small aberrations as candidate loci for fusion gene screening. In our previous whole-genome screening study using 500K SNP arrays, we identified more than 700 homozygous deletions (HDs) and amplicons in 23 cancer cell lines. To explore novel fusion genes in cancer, we established stringent criteria for defining HD and amplicon breakpoints. Then genomic PCR and sequencing analyses identified a fusion gene, FNDC3BPRKCI, that resulted from chromosome intra-rearrangement. Western blotting and 3'-RACE analyses revealed that the chimeric transcript was an in-frame fusion between FNDC3B and PRKCI. Finally, cell migration and colony formation assays suggested that FNDC3B-PRKCI is a potential oncogene.

Original languageEnglish
Pages (from-to)2101-2108
Number of pages8
JournalOncology Reports
Issue number4
StatePublished - Apr 2017


  • Chromosome breakpoints
  • Chromosome rearrangement
  • Fusion gene


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