CDKN2D-WDFY2 Is a Cancer-Specific Fusion Gene Recurrent in High-Grade Serous Ovarian Carcinoma

PLoS Genetics

Volumn 10, Issue 3, 2014, Pages

  Kannan, Kalpana ^a   Coarfa, Cristian ^a   Rajapakshe, Kimal ^a   Hawkins, Shannon M ^a   Matzuk, Martin M ^a   Milosavljevic, Aleksandar ^a   Yen, Laising ^a  

^a BAYLOR COLLEGE OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CYCLIN DEPENDENT KINASE INHIBITOR 2D; DNA; ISOPROTEIN; PHOSPHATIDYLINOSITOL 3 KINASE; PROTEIN KINASE B; RNA; CDKN2D PROTEIN, HUMAN; ONCOPROTEIN; PROTEIN P53; SIGNAL PEPTIDE; TUMOR MARKER; WDFY2 PROTEIN, HUMAN;

ARTICLE; CARCINOGENESIS; CDKN2D GENE; CELL LINEAGE; CHROMOSOME REARRANGEMENT; CONTROLLED STUDY; DNA DETERMINATION; DNA REPAIR; FEMALE; FUSION GENE; GENE FREQUENCY; GENE IDENTIFICATION; GENETIC ANALYSIS; HIGH GRADE SEROUS OVARIAN CARCINOMA; HUMAN; HUMAN CELL; INTRON; OVARY CARCINOMA; PROMOTER REGION; PROTEIN ANALYSIS; PROTEIN DEPLETION; PROTEIN EXPRESSION; PROTEIN INTERACTION; RNA ANALYSIS; SIGNAL TRANSDUCTION; TUMOR GENE; WDFY2 GENE; CANCER GRADING; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENE TRANSLOCATION; GENETICS; METABOLISM; MUTATION; OVARY TUMOR; PATHOLOGY; UTERINE TUBE;

BIOMARKERS, TUMOR; CYCLIN-DEPENDENT KINASE INHIBITOR P19; FALLOPIAN TUBES; FEMALE; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, NEOPLASTIC; HUMANS; INTRACELLULAR SIGNALING PEPTIDES AND PROTEINS; MUTATION; NEOPLASM GRADING; ONCOGENE PROTEINS, FUSION; OVARIAN NEOPLASMS; TRANSLOCATION, GENETIC; TUMOR SUPPRESSOR PROTEIN P53;

EID: 84897397128     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1004216     Document Type: Article

References (26)

1. Jemal A, Bray F, Center MM, Ferlay J, Ward E, et al. (2011) Global cancer statistics. CA Cancer J Clin 61: 69-90.
2. Bell DBA, Birrer M, Chien J, Cramer DW, et al. (2011) Integrated genomic analyses of ovarian carcinoma. Nature 474: 609-615.
3. Mitelman F, Johansson B, Mertens F, (2007) The impact of translocations and gene fusions on cancer causation. Nat Rev Cancer 7: 233-245.
4. Perner S, Demichelis F, Beroukhim R, Schmidt FH, Mosquera JM, et al. (2006) TMPRSS2:ERG fusion-associated deletions provide insight into the heterogeneity of prostate cancer. Cancer Res 66: 8337-8341.
5. Tomlins SA, Rhodes DR, Perner S, Dhanasekaran SM, Mehra R, et al. (2005) Recurrent fusion of TMPRSS2 and ETS transcription factor genes in prostate cancer. Science 310: 644-648.
6. McPherson A, Hormozdiari F, Zayed A, Giuliany R, Ha G, et al. (2011) deFuse: an algorithm for gene fusion discovery in tumor RNA-Seq data. PLoS Comput Biol 7: e1001138.
7. Salzman J, Marinelli RJ, Wang PL, Green AE, Nielsen JS, et al. (2011) ESRRA-C11orf20 is a recurrent gene fusion in serous ovarian carcinoma. PLoS Biol 9: e1001156.
8. Lee Y, Miron A, Drapkin R, Nucci MR, Medeiros F, et al. (2007) A candidate precursor to serous carcinoma that originates in the distal fallopian tube. J Pathol 211: 26-35.
9. Pothuri B, Leitao MM, Levine DA, Viale A, Olshen AB, et al. (2010) Genetic analysis of the early natural history of epithelial ovarian carcinoma. PLoS One 5: e10358.
10. Kent WJ, (2002) BLAT-the BLAST-like alignment tool. Genome Res 12: 656-664.
11. Kannan K, Wang L, Wang J, Ittmann MM, Li W, et al. (2011) Recurrent chimeric RNAs enriched in human prostate cancer identified by deep sequencing. Proc Natl Acad Sci U S A 108: 9172-9177.
12. Lieber MR, (2010) The mechanism of double-strand DNA break repair by the nonhomologous DNA end-joining pathway. Annu Rev Biochem 79: 181-211.
13. Weier C, Haffner MC, Mosbruger T, Esopi DM, Hicks J, et al. (2013) Nucleotide resolution analysis of TMPRSS2 and ERG rearrangements in prostate cancer. J Pathol 230: 174-183.
14. Fritzius T, Burkard G, Haas E, Heinrich J, Schweneker M, et al. (2006) A WD-FYVE protein binds to the kinases Akt and PKCzeta/lambda. Biochem J 399: 9-20.
15. Fritzius T, Moelling K, (2008) Akt- and Foxo1-interacting WD-repeat-FYVE protein promotes adipogenesis. EMBO J 27: 1399-1410.
16. Tibes R, Qiu Y, Lu Y, Hennessy B, Andreeff M, et al. (2006) Reverse phase protein array: validation of a novel proteomic technology and utility for analysis of primary leukemia specimens and hematopoietic stem cells. Mol Cancer Ther 5: 2512-2521.
17. Ortega S, Malumbres M, Barbacid M, (2002) Cyclin D-dependent kinases, INK4 inhibitors and cancer. Biochim Biophys Acta 1602: 73-87.
18. Ceruti JM, Scassa ME, Flo JM, Varone CL, Canepa ET, (2005) Induction of p19INK4d in response to ultraviolet light improves DNA repair and confers resistance to apoptosis in neuroblastoma cells. Oncogene 24: 4065-4080.
19. Scassa ME, Marazita MC, Ceruti JM, Carcagno AL, Sirkin PF, et al. (2007) Cell cycle inhibitor, p19INK4d, promotes cell survival and decreases chromosomal aberrations after genotoxic insult due to enhanced DNA repair. DNA Repair (Amst) 6: 626-638.
20. Zindy F, van Deursen J, Grosveld G, Sherr CJ, Roussel MF, (2000) INK4d-deficient mice are fertile despite testicular atrophy. Mol Cell Biol 20: 372-378.
21. Hayakawa A, Leonard D, Murphy S, Hayes S, Soto M, et al. (2006) The WD40 and FYVE domain containing protein 2 defines a class of early endosomes necessary for endocytosis. Proc Natl Acad Sci U S A 103: 11928-11933.
22. Coarfa C, Yu F, Miller CA, Chen Z, Harris RA, et al. (2010) Pash 3.0: A versatile software package for read mapping and integrative analysis of genomic and epigenomic variation using massively parallel DNA sequencing. BMC Bioinformatics 11: 572.
23. Li H, Durbin R, (2009) Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25: 1754-1760.
24. Ory DS, Neugeboren BA, Mulligan RC, (1996) A stable human-derived packaging cell line for production of high titer retrovirus/vesicular stomatitis virus G pseudotypes. Proc Natl Acad Sci U S A 93: 11400-11406.
25. Neeley ES, Baggerly KA, Kornblau SM, (2012) Surface Adjustment of Reverse Phase Protein Arrays using Positive Control Spots. Cancer Inform 11: 77-86.
26. Neeley ES, Kornblau SM, Coombes KR, Baggerly KA, (2009) Variable slope normalization of reverse phase protein arrays. Bioinformatics 25: 1384-1389.