Automated multiplexing quantum dots in situ hybridization assay for simultaneous detection of ERG and PTEN gene status in prostate cancer

Journal of Molecular Diagnostics

Volumn 15, Issue 6, 2013, Pages 754-764

  Zhang, Wenjun ^a   Hubbard, Antony ^a   Brunhoeber, Patrick ^a   Wang, Yixin ^a   Tang, Lei ^a  

^a F HOFFMANN LA ROCHE LTD   (Switzerland)

Author keywords

[No Author keywords available]

Indexed keywords

CEN10 PROTEIN; HAPTEN; HAPTEN ANTIBODY; PHOSPHATIDYLINOSITOL 3,4,5 TRISPHOSPHATE 3 PHOSPHATASE; PROTEIN; QUANTUM DOT; TRANSCRIPTION FACTOR ERG; TRANSCRIPTION FACTOR ERG 3P; TRANSCRIPTION FACTOR ERG 5P; UNCLASSIFIED DRUG;

ARTICLE; CANCER DIAGNOSIS; CLINICAL ARTICLE; CONTROLLED STUDY; FLUORESCENCE MICROSCOPY; GENE DELETION; GENE LOCUS; GENE REARRANGEMENT; HUMAN; HUMAN TISSUE; IN SITU HYBRIDIZATION; MALE; MOLECULAR DIAGNOSIS; PROSTATE CANCER; PROSTATE HYPERTROPHY; PROSTATECTOMY; PROTEIN EXPRESSION; STAINING;

ANTIBODIES; FLUORESCENT DYES; HUMANS; IN SITU HYBRIDIZATION, FLUORESCENCE; MALE; NUCLEAR ENVELOPE; PROSTATIC NEOPLASMS; PTEN PHOSPHOHYDROLASE; QUANTUM DOTS; REPRODUCIBILITY OF RESULTS; SENSITIVITY AND SPECIFICITY; TRANS-ACTIVATORS;

EID: 84885961735     PISSN: 15251578     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jmoldx.2013.06.005     Document Type: Article

References (42)

1. J.M. Levsky, and R.H. Singer Fluorescence in situ hybridization: past, present and future J Cell Science 116 2003 2833 2838
2. U. Resch-Genger, M. Grabolle, S. Cavaliere-Jaricot, R. Nitschke, and T. Nann Quantum dots versus organic dyes as fluorescent labels Nat Methods 5 2008 763 775
3. E. Tholouli, E. Sweeney, E. Barrow, V. Clay, J.A. Hoyland, and R.J. Byers Quantum dots light up pathology J Pathol 216 2008 275 285
4. Y. Xiao, and P.E. Barker Semiconductor nanocrystal probes for human metaphase chromosomes Nucleic Acids Res 32 2004 e28
5. P. Chan, T. Yuen, F. Ruf, J. Gonzalez-Maeso, and S.C. Sealfon Method for multiplex cellular detection of mRNAs using quantum dot fluorescent in situ hybridization Nucleic Acids Res 33 2005 e161
6. F. Müller, A. Houben, P.E. Barker, Y. Xiao, J.A. Käs, and M. Melzer Quantum dots - a versatile tool in plant science? J Nanobiotechnol 4 2006 5
7. S.M. Wu, X. Zhao, Z.L. Zhang, H.Y. Xie, Z.Q. Tian, J. Peng, Z.X. Lu, D.W. Pang, and Z.X. Xie Quantum-dot-labeled DNA probes for fluorescence in situ hybridization (FISH) in the microorganism Escherichia coli Chem Phys Chem 7 2006 1062 1067
8. H.L. Chen, J. Peng, X.B. Zhu, J. Gao, J.L. Xue, M.W. Wang, and H.S. Xia Detection of EBV in nasopharyngeal carcinoma by quantum dot fluorescent in situ hybridization Exp Mol Pathol 89 2010 367 371
9. J. Xue, H. Chen, M. Fan, F. Zhu, L. Diao, X. Chen, L. Fan, P. Li, and D. Xia Use of quantum dots to detect human papillomavirus in oral squamous cell carcinoma J Oral Pathol Med 38 2009 668 671
10. Z. Jiang, R. Li, N.W. Todd, S.A. Stass, and F. Jiang Detecting genomic aberrations by fluorescence in situ hybridization with quantum dots-labeled probes J Nanosci Nanotechnol 12 2007 4254 4259
11. L.A. Bentolila, and S. Weiss Single-step multicolor fluorescence in situ hybridization using semiconductor quantum dot-DNA conjugates Cell Biochem Biophys 45 2006 59 70
12. R.J. Byers, D.D. Vizio, F. O'Connell, E. Tholouli, R.M. Levenson, K. Gossard, D. Twomey, Y. Yang, E. Benedettini, J. Rose, K.L. Ligon, S.P. Finn, T.R. Golub, and M. Loda Semiautomated multiplexed quantum dot-based in situ hybridization and spectral deconvolution J of Mol Diag 9 2007 20 29
13. E. Tholouli, S. Macdermott, J. Hoyland, J.L. Yina, and R. Byers Quantitative multiplex quantum dot in-situ hybridisation based gene expression profiling in tissue microarrays identifies prognostic genes in acute myeloid leukaemia Biochem Biophys Res Commun 425 2012 333 339
14. D. Ioannou, H.G. Tempest, B.M. Skinner, A.R. Thornhill, M. Ellis, and D.K. Griffin Quantum dots as new-generation fluorochromes for FISH: an appraisal Chromosome Res 17 2009 519 530
15. D. Ioannou, and D.K. Griffin Nanotechnology and molecular cytogenetics: the future has not yet arrived Nano Rev 1 2010 5117
16. L. Ma, S.M. Wu, J. Huang, Y. Ding, D.W. Pang, and L. Li Fluorescence in situ hybridization (FISH) on maize metaphase chromosome with quantum dot-labeled DNA conjugates Chromosoma 117 2008 181 187
17. C. Kumar-Sinha, S.A. Tomlins, and A.M. Chinnaiyan Recurrent gene fusions in prostate cancer Nat Rev Cancer 8 2008 497 511
18. B. Han, R. Mehra, R.J. Lonigro, L. Wang, K. Suleman, A. Menon, N. Palanisamy, S.A. Tomlins, A.M. Chinnaiyan, and R.B. Shah Fluorescence in situ hybridization study shows association of PTEN deletion with ERG rearrangement during prostate cancer progression Mod Pathol 22 2009 1083 1093
19. B.S. Carver, J. Tran, A. Gopalan, Z. Chen, S. Shaikh, A. Carracedo, A. Alimonti, C. Nardella, S. Varmeh, P.T. Scardino, C. Cordon-Cardo, W. Gerald, and P.P. Pandolfi Aberrant ERG expression cooperates with loss of PTEN to promote cancer progression in the prostate Nat Genet 41 2009 619 624
20. S.A. Tomlins, D.R. Rhodes, S. Perner, S.M. Dhanasekaran, R. Mehra, X.W. Sun, S. Varambally, X. Cao, J. Tchinda, R. Kuefer, C. Lee, J.E. Montie, R.B. Shah, K.J. Pienta, M.A. Rubin, and A.M. Chinnaiyan Recurrent fusion of TMPRSS2 and ETS transcription factor genes in prostate cancer Science 310 2005 644 648
21. W. Zhang, A. McElhinny, A. Nielsen, M. Wang, M. Miller, S. Singh, R. Rueger, B.P. Rubin, Z. Wang, R.R. Tubbs, R.B. Nagle, P. Roche, P. Wu, and L. Pestic-Dragovich Automated brightfield dual-color in situ hybridization for detection of mouse double minute 2 gene amplification in sarcomas Appl Immunohistochem Mol Morphol 19 2011 54 61
22. H. Nitta, W. Zhang, B.D. Kelly, M. Miller, L. Pestic-Dragovich, C. Bieniarz, T.J. Vasicek, T. Marafioti, L. Rimsza, and T.M. Grogan Automated brightfield break-apart in situ hybridization (ba-ISH) application: aLK and MALT1 genes as models Methods 52 2010 352 358
23. M. Yoshimoto, I.W. Cunha, R.A. Coudry, F.P. Fonseca, C.H. Torres, F.A. Soares, and J.A. Squire FISH analysis of 107 prostate cancers shows that PTEN genomic deletion is associated with poor clinical outcome Br J Cancer 97 2007 678 685
24. K.G. Hermans, D.C. van Alewijk, J.A. Veltman, W. van Weerden, A.G. van Kessel, and J. Trapman Loss of a small region around the PTEN locus is a major chromosome 10 alteration in prostate cancer xenografts and cell lines Genes Chromosomes Cancer 39 2004 171 184
25. W.C. Chan, and S. Nie Quantum dot bioconjugates for ultrasensitive nonisotopic detection Science 281 1998 2016 2018
26. M.F. Berger, M.S. Lawrence, F. Demichelis, Y. Drier, K. Cibulskis, A.Y. Sivachenko, A. Sboner, R. Esgueva, D. Pflueger, C. Sougnez, R. Onofrio, S.L. Carter, K. Park, L. Habegger, L. Ambrogio, T. Fennell, M. Parkin, G. Saksena, D. Voet, A.H. Ramos, T.J. Pugh, J. Wilkinson, S. Fisher, W. Winckler, S. Mahan, K. Ardlie, J. Baldwin, J.W. Simons, N. Kitabayashi, T.Y. MacDonald, P.W. Kantoff, L. Chin, S.B. Gabriel, M.B. Gerstein, T.R. Golub, M. Meyerson, A. Tewari, E.S. Lander, G. Getz, M.A. Rubin, and L.A. Garraway The genomic complexity of primary human prostate cancer Nature 470 2011 214 220
27. Y. Choi, H.P. Kim, S.M. Hong, J.Y. Ryu, S.J. Han, and R. Song In situ visualization of gene expression using polymer-coated quantum-dot-DNA conjugates Small 5 2009 2085 2091
28. F. D'Amico, E. Skarmoutsou, and F. Stivala State of the art in antigen retrieval for immunohistochemistry J Immunol Methods 341 2009 1 18
29. S. Shi, R.J. Cote, and C.R. Taylor Antigen Retrieval Techniques J Histochem Cytochem 49 2001 931 937
30. S. Yamashita Heat-induced antigen retrieval: mechanisms and application to histochemistry Prog Histochem Cytochem 41 2007 141 200
31. E. Tholouli, J.A. Hoyland, D.D. Vizio, F. O'Connell, S.A. MacDermott, D. Twomey, R. Levenson, J.A.L. Yin, T.R. Golub, M. Loda, and R. Byers Imaging of multiple mRNA targets using quantum dot based in situ hybridization and spectral deconvolution in clinical biopsies Biochem Biophys Res Commun 348 2006 628 636
32. A. Ioannou, I. Eleftheriou, A. Lubatti, A. Charalambous, and P.A. Skourides High-resolution whole-mount in situ hybridization using quantum dot nanocrystals J Biomed Biotech 2012 article ID:627602
33. S.R. Shi, S.A. Imam, L. Young, R.J. Cote, and C.R. Taylor Antigen retrieval immunohistochemistry under the influence of pH using monoclonal antibodies J Histochem Cytochem 43 1995 193 201
34. S.H. Kim, M.C. Kook, Y.K. Shin, S.H. Park, and H.G. Song Evaluation of antigen retrieval buffer systems J Mol Histol 35 2004 409 416
35. B.L. Relf, R. Machaalani, and K.A. Waters Retrieval of mRNA from paraffin-embedded human infant brain tissue for non-radioactive in situ hybridization using oligonucleotides J Neurosci Methods 115 2001 129 136
36. J.M. Morgan, H. Navabi, K.W. Schmid, and B. Jasani Possible role of tissue-bound calcium ions in citrate-mediated high temperature antigen retrieval J Pathol 174 1994 301 307
37. J.M. Morgan, H. Navabi, and B. Jasani Role of calcium chelation in high-temperature antigen retrieval at different pH values J Pathol 182 1997 233 237
38. D. Zarkowsky, L. Lamoreaux, P. Chattopadhyay, R.A. Koup, S.P. Perfetto, and M. Roederer Cytometry A. Heavy metal contaminants can eliminate quantum dot fluorescence Cytometry Part A 79 2011 84 89
39. S. Liu, M. Yoshimoto, K. Trpkov, Q. Duan, M. Firszt, J. Corcos, J.A. Squire, and T.A. Bismar Detection of ERG gene rearrangements and PTEN deletions in unsuspected prostate cancer of the transition zone Cancer Biol Ther 11 2011 562 566
40. M.A. Svensson, C.J. LaFargue, T.Y. MacDonald, D. Pflueger, N. Kitabayashi, A.M. Santa-Cruz, K.E. Garsha, U.G. Sathyanarayana, J.P. Riley, C.S. Yun, D. Nagy, J.W. Kosmeder, G.A. Pestano, A.K. Tewari, F. Demichelis, and M.A. Rubin Testing mutual exclusivity of ETS rearranged prostate cancer Lab Invest 91 2011 404 412
41. T.A. Bismar, M. Yoshimoto, Q. Duan, S. Liu, K. Sircar, and J.A. Squire Interactions and relationships of PTEN, ERG, SPINK1 and AR in castration-resistant prostate cancer Histopathology 60 2012 645 652
42. T.A. Bismar, M. Yoshimoto, R.T. Vollmer, Q. Duan, M. Firszt, J. Corcos, and J.A. Squire PTEN genomic deletion is an early event associated with ERG gene rearrangements in prostate cancer BJU Int 107 2011 477 485