Selected Publications

 

 

 
  1. Qing-Rong Chen, Young K. Song, Jun S. Wei, Sven Bilke, Shahab Asgharzadeh, Robert C. Seeger and Javed Khan. An Integrated Cross-Platform Prognosis Study on Neuroblastoma Patients. Genomics. 2008 Oct;92(4):195-203. Epub 2008 Jul 30.
  2. Sven Bilke, Qing-Rong Chen, Jun S. Wei, and Javed Khan. Whole Chromosome alterations predict survival in high risk neuroblastoma without MYCN amplification. Clinical Cancer Research. 2008 Sep 1;14(17):5540-7
  3. Kowalska A, Brunner B, Bozsaky E, Chen QR, Stock C, Lörch T, Khan J, Ambros PF. Sequence based high resolution chromosomal CGH. Cytogenet Genome Res. 121(1):1-6. Epub 2008 May 7.
  4. J S Wei, Y K Song, S Durinck, Q-R Chen, A T C Cheuk, P Tsang, Q Zhang, C J Thiele, A Slack, J Shohet and J Khan. The MYCN oncogene is a direct target of miR-34a. Oncogene Sep 4;27(39):5204-13. Epub 2008 May 26
  5. Geoffrey Neale, Xiaoping Su, Christopher L. Morton, Doris Phelps, Richard Gorlic, Richard Lock, C. Patrick Reynolds, John M. Maris, Henry S. Friedman, Jeffrey Dome, Joseph Khoury, Timothy J. Triche, Robert C. Seeger, Richard Gilbertson, Javed Khan, Malcolm A. Smith, Peter J. Houghton. Molecular Characterization of the Pediatric Preclinical Testing Panel. Clinical Cancer Research 2008 Jul 15;14(14):4572-83
  6. Catchpoole D, Lail A, Guo D, Chen QR, Khan J. . Gene expression profiles that segregate patients with childhood acute lymphoblastic leukaemia: An independent validation study identifies that endoglin associates with patient outcome. Leuk Res. 2007 Dec;31(12):1741-7. Epub 2007 Jun 18.
  7. FrankWestermann, Kai-Oliver Henrich, Jun S.Wei, Werner Lutz, Matthias Fischer, Rainer Koinig, Ruprecht Wiedemeyer, Volker Ehemann, Benedikt Brors, Karen Ernestus, Ivo Leuschner, Axel Benner, Javed Khan, and Manfred Schwab. High Skp2 Expression Characterizes High-Risk Neuroblastomas Independent of MYCN Status. Clinical Cancer Research Aug 15;13(16):4695-703. Epub 2007 Jul 25.
  8. Jianhua Xuan, YueWang, Yibin Dong, Yuanjian Feng, BinWang, Javed Khan, Maria Bakay, Zuyi Wang, Lauren Pachman, SaraWinokur, Yi-Wen Chen, Robert Clarke, and Eric Hoffman. Gene Selection for Multiclass Prediction by Weighted Fisher Criterion. EURASIP Journal on Bioinformatics and Systems Biolog. Volume 2007, Article ID 64628
  9. Jin Zheng, M. Eric Kohler, Qingrong Chen, James Weber, Javed Khan, Bryon D Johnson, Rimas J Orentas. Serum from mice immunized in the context of Treg inhibition identifies DEK as a neuroblastoma tumor antigen. BMC Immunology, 8:4 (30 March 2007)
  10. Chen QR, Vansant G, Oades K, Pickering M, Wei JS, Song YK, Monforte J, and Khan J. Diagnosis of the Small Round Blue Cell Tumors Using Multiplex Polymerase Chain Reaction. J Mol Diagn. 2007, 9:80-88.
  11. Whiteford CC, Bilke S, Greer BT, Chen QR, Braunschweig TA, Cenacchi N, Wei JS, Smith MA, Houghton P, Morton C, Reynolds CP, Lock R, Gorlick R, Khanna C, Thiele CJ, Takikita M, Catchpoole D, Hewitt SM and Khan J. Credentialing Preclinical Pediatric Xenograft Models Using Gene Expression and Tissue Microarray Analysis. Cancer Res. 2007 Jan 1;67(1):32-40, Supplemental Material, Figure 3 High Res, Database.
  12. Chen QR, Bilke S, Wei JS, Greer BT, Steinberg SM, Westermann F, Schwab M, and Khan J. Increased WSB1 Copy Number Correlates with its Over-Expression which Associates with Increased Survival in Neuroblastoma. Genes Chromosomes Cancer. 2006, 45:856-862. Supplemental Table 1
  13. Bilke S, Chen QR, Westerman F, Schwab M, Catchpoole D, and Khan J. Inferring a tumor progression model for neuroblatoma from genomic data. J Clin Oncol. 2005, 23:7322-31. CGH Database.
  14. Chen QR, Bilke S, and Khan J. High-resolution cDNA microarray-based comparative genomic hybridization analysis in neuroblastoma. Cancer Letters 2005, 228:71-81.
  15. Wei JS, Whiteford CC, Cenacchi N, Son CG, and Khan J. BBC3 mediates ferretinide-induced cell death in neuroblastoma. Oncogene. 2005, 24:7976-83. Database.
  16. Son CG, Bilke S, Davis S, Greer BT, Wei JS, Whiteford CC, Chen QR, Cenacchi N, Khan J. Database of mRNA gene expression profiles of multiple human organs. Genome Research Mar 1, 2005; 15:443-450. Supplement Table 1, Supplement Table 2, Supplement Table 3, Supplement Table 4, Supplement Table 5
  17. Bilke S, Chen QR, Whiteford CC, Khan J. Detection of low level genomic alterations by comparitive genomic hybridization based on cDNA microarrays. Bioinformatics 2005, 21(7):1138-45.
  18. Krasnoselsky AL, Whiteford CC, Wei JS, Bilke S, Westermann F, Chen QR, Khan J. Altered expression of cell cycle genes distinguishes aggressive neuroblastoma. Oncogene Feb 24, 2005, 24(9):1533-41.
  19. Wei JS, Greer BT, Westermann F, Steinberg SM, Son C, Chen Q, Whiteford CC, Bilke S, Krasnoselsky AL, Cenacchi N, Catchpoole D, Berthold F, Schwab M, Khan J. Prediction of clinical outcome using gene expression profiling and artificial neural networks for patients with neuroblastoma. Cancer Research Oct 1, 2004; 64(19):6883-91
  20. Chen QR, Bilke S, Wei JS,Whiteford CC, Cenacchi N, Krasnoselsky AL, Greer BT, Son C, Westermann F, Berthold F, Schwab M, Catchpoole D, Khan J. cDNA array-CGH profiling identifies genomic alterations specific to stage and MYCN-amplification in neuroblastoma. BMC Genomics Sept 20, 2004, 5(1):70. CGH Database.
  21. Greer B, Khan J: Diagnostic Classification of Cancer Using DNA Microarrays and Artificial Intelligence. Ann N Y Acad Sci. 2004 May;1020:49-66. Reviews
  22. Williams RD, Hing SN, Greer BT, Whiteford CC, Wei JS, Natrajan R, Kelsey A, Rogers S, Campbell C, Pritchard-Jones K, Khan J. Prognostic classification of relapsing favorable histology Wilms tumor using cDNA microarray expression profiling and support vector machines. Genes Chromosomes Cancer. 2004 Sep;41(1):65-79.
  23. Yu Y, Khan J, Khanna C, Helman L, Meltzer PS, Merlino G. Discriminatory Expression profiling identifies the cytoskeletal organizer ezrin and the developmental homeoprotein Six-1 as key metastatic regulators. Nature Medicine 10: 175-81, 2004.
  24. Bomprezzi R, Ringner M, Kim S, Bittner ML, Khan J, Chen Y, Elkahloun A, Yu A, Bielekova B, Meltzer PS, Martin R, McFarland HF, Trent JM: Gene expression profile in multiple sclerosis patients and healthy controls: identifying pathways relevant to disease. Hum Mol Genet. 12: 2191-9, 2003.
  25. Khan J: Genomic & proteomic technological advances in cancer research. Pharmacogenomics. 4: 245-9, 2003.
  26. Ringner M, Peterson C, Khan J: Analyzing array data using supervised methods. Pharmacogenomics. 3: 403-15, 2002.
  27. Dickens DS, Kozielski R, Khan J, Forus A, Cripe TP: Cyclooxygenase-2 expression in pediatric sarcomas. Pediatr Dev Pathol. 5: 356-64, 2002.
  28. Khan J, Saal LH, Bittner ML, Jiang Y, Gooden GC, Glatfelter AA, Meltzer PS: Gene expression profiling in cancer using cDNA microarrays. Methods Mol Med. 68: 205-22, 2002.
  29. Rice AM, Currier MA, Adams LC, Bharatan NS, Collins MH, Snyder JD, Khan J, Cripe TP.: Ewing sarcoma family of tumors express adenovirus receptors and are susceptible to adenovirus-mediated oncolysis. J Pediatr Hematol Oncol. Oct;24(7): 527-33, 2002.
  30. Dupont J, Khan J, Qu BH, Metzler P, Helman L, LeRoith D: Insulin and IGF-1 induce different patterns of gene expression in mouse fibroblast NIH-3T3 cells: identification by cDNA microarray analysis. Endocrinology. 142: 4969-75, 2001.
  31. Khan J, Wei JS, Ringner M, Saal LH, Ladanyi M, Westermann F, Berthold F, Schwab M, Antonescu CR, Peterson C, Meltzer PS: Classification and diagnostic prediction of cancers using gene expression profiling and artificial neural networks. Nat Med. 7: 673-9, 2001. Supplement, Database
  32. Khanna C, Khan J, Nguyen P, Prehn J, Caylor J, Yeung C, Trepel J, Meltzer P, Helman L: Metastasis-associated differences in gene expression in a murine model of osteosarcoma. Cancer Res. 61: 3750-9, 2001.
  33. Heiskanen MA, Bittner ML, Chen Y, Khan J, Adler KE, Trent JM, Meltzer PS.: Detection of gene amplification by genomic hybridization to cDNA microarrays. Cancer Res. 60(4): 799-802, 2000.
  34. Khan J, Bittner ML, Saal LH, Teichmann U, Azorsa DO, Gooden GC, Pavan WJ, Trent JM, Meltzer PS: cDNA microarrays detect activation of a myogenic transcription program by the PAX3-FKHR fusion oncogene. Proc Natl Acad Sci U S A. 96: 13264-9, 1999.
  35. Khan J, Saal LH, Bittner ML, Chen Y, Trent JM, Meltzer PS: Expression profiling in cancer using cDNA microarrays. Electrophoresis. 20: 223-9, 1999.
  36. Khan J, Simon R, Bittner M, Chen Y, Leighton SB, Pohida T, Smith PD, Jiang Y, Gooden GC, Trent JM, Meltzer PS: Gene expression profiling of alveolar rhabdomyosarcoma with cDNA microarrays. Cancer Res. 58: 5009-13, 1998.
  37. Khan J, Parsa NZ, Harada T, Meltzer PS, Carter NP: Detection of gains and losses in 18 meningiomas by comparative genomic hybridization. Cancer Genet Cytogenet. 103: 95-100, 1998.
  38. Khan J, Broadbent VA: Tumor lysis syndrome complicating treatment of widespread metastatic abdominal rhabdomyosarcoma. Pediatr Hematol Oncol. 10: 151-5, 1993.