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Table 2 Fusion transcripts identified by NGS and validated by PCR

From: Identification of mutations, gene expression changes and fusion transcripts by whole transcriptome RNAseq in docetaxel resistant prostate cancer cells

5′ gene (full name) 5′ chr 3′ gene (full name) 3′ chr Type Verified Express in TaxS Express in TaxR
TAF15 (TATA-box binding protein associated factor 15) 17 AP2B1 (adaptor related protein complex 2 beta 1 subunit) 17 Read through Yes Yes No
VCL (vinculin) 10 ADK (adenosine kinase) 10 Read through Yes Yes No
MYH9 (myosin, heavy chain 9, non-muscle) 22 EIF3D (eukaryotic translation initiation factor 3 subunit D) 22 Read through Yes No Yes
C14orf166 (chromosome 14 open reading frame 166) 14 SLC25A21 (solute carrier family 25 member 21) 14 Intra chromosomal Yes Yes Yes
UBE2L3 (ubiquitin conjugating enzyme E2 L3) 22 KRAS (kirsten rat sarcoma viral oncogene homolog) 12 Inter chromosomal Yes Yes Yes
LDLR (low density lipoprotein receptor) 19 RPL31P11 (ribosomal protein l31 pseudogene 11) 15 Read through Yes Yes Yes (up regulated)
IGSF9B (immunoglobulin superfamily member 9B) 11 FAM177A1 (family with sequence similarity 177 member A1) 14 Inter chromosomal No   
CTSD (cathepsin D) 11 IFITM10 (interferon induced transmembrane protein 10) 11 Read through Yes Yes Yes (up regulated)
FLJ39739 1 BC065231 1 Intra chromosomal Yes Yes Yes
LOC100286793 1 BC065231 1 Intra chromosomal Yes Yes Yes
UBE2H (ubiquitin conjugating enzyme E2 H) 7 WIZ (widely interspaced zinc finger motifs) 19 Inter chromosomal No   
SFPQ (splicing factor proline/glutamine-rich) 1 AL831889 (LOC100996496) 1 Read through Yes Yes Yes
CADM4 (cell adhesion molecule 4) 19 ZNF428 (zinc finger protein 428) 19 Read through Yes Yes Yes
GOLT1A (golgi transport 1A) 1 KISS1 (KiSS-1 metastasis-suppressor) 1 Read through Yes Yes Yes
SRGAP2P2 (SLIT-ROBO Rho GTPase activating protein 2B) 1 SRGAP2 (SLIT-ROBO Rho GTPase activating protein 2) 1 Intra chromosomal Yes Yes Yes (up regulated)
BTNL8 (butyrophilin like 8) 5 HMGA1 (high mobility group AT-Hook 1) 6 Inter chromosomal No   
  1. 5′ end genes and their information were listed in column 1 and 2, and 3′ end genes in column 3 and 4. Read Through, new fusion gene can be read through when translated. Intrachromosomal, fusion partners come from same chromosomes. Interchromosomal, fusion formed between different chromosomes. Last column was marked ‘Yes’ if fusions can be verified in Du145, Du145-R or Du145-RB