Research Topics
Species | J KhanSummaryAffiliation: National Institutes of Health Country: USA Publications
| Collaborators
|
Detail Information
Publications
Genomic & proteomic technological advances in cancer researchJaved Khan
Oncogenomics Section, Pediatric Oncology Branch, Center for Cancer Research, National Cancer Institute, Advanced Technology Center, Room 134E, 8717 Grovemont Circle, Bethesda, MD 20892-4605, USA
Pharmacogenomics 4:245-9. 2003- Exon array analysis reveals neuroblastoma tumors have distinct alternative splicing patterns according to stage and MYCN amplification statusXiang Guo
Oncogenomics Section, Pediatric Oncology Branch, National Cancer Institute, National Institute of Health, Gaithersburg, MD 20877, USA
BMC Med Genomics 4:35. 2011..RNA splicing is an important regulatory mechanism of gene expression, and differential RNA splicing may be associated with the clinical behavior of a tumor... - Serum from mice immunized in the context of Treg inhibition identifies DEK as a neuroblastoma tumor antigenJin Zheng
Department of Pediatrics, Medical College of Wisconsin and the Children s Research Institute, Children s Hospital of Wisconsin, Milwaukee, WI 53226, USA
BMC Immunol 8:4. 2007..Serum from mice immunized with our cell-based vaccine in the context of Treg blockade was used to screen a cDNA expression library constructed from the parental neuroblastoma tumor cell line, AGN2a... - cDNA array-CGH profiling identifies genomic alterations specific to stage and MYCN-amplification in neuroblastomaQing Rong Chen
Oncogenomics Section, Pediatric Oncology Branch, Advanced Technology Center, National Cancer Institute, 8717 Grovemont Circle, Gaithersburg, MD 20877, USA
BMC Genomics 5:70. 2004..Recurrent non-random genomic alterations are the hallmarks of cancer and the characterization of these imbalances is critical to our understanding of tumorigenesis and cancer progression... - Classification and diagnostic prediction of cancers using gene expression profiling and artificial neural networksJ Khan
Cancer Genetics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland, USA
Nat Med 7:673-9. 2001..This study demonstrates the potential applications of these methods for tumor diagnosis and the identification of candidate targets for therapy... - Analysis of comparative genomic hybridization data on cDNA microarraysSven Bilke
Oncogenomics Section, Pediatric Oncology Branch, Advanced Technology Center, National Cancer Institute, Gaithersburg, MD, USA
Methods Mol Biol 377:175-86. 2007..The end result of the analysis is a list of p-values for the presence of genomic gains or losses for each sample individually or an average p-value, which we show is useful to identify recurrent genomic imbalances... - The MYCN oncogene is a direct target of miR-34aJ S Wei
Oncogenomics Section, Pediatric Oncology Branch, Advanced Technology Center, National Cancer Institute, Gaithersburg, MD 20892, USA
Oncogene 27:5204-13. 2008..This study demonstrates one important regulatory role of miR-34a in cell growth and MYCN suppression in neuroblastoma... - Whole chromosome alterations predict survival in high-risk neuroblastoma without MYCN amplificationSven Bilke
Oncogenomics Section, Pediatric Oncology Branch, Advanced Technology Center, National Cancer Institute, Gaithersburg, Maryland, USA
Clin Cancer Res 14:5540-7. 2008..The goal of this study is to develop a DNA copy number-based prognostic profile for these patients... - Expression profiling identifies epoxy anthraquinone derivative as a DNA topoisomerase inhibitorJinesh Gheeya
Oncogenomics Section, Pediatric Oncology Branch, Advanced Technology Center, National Cancer Institute, Gaithersburg, MD, USA
Cancer Lett 293:124-31. 2010..Our study indicates that Epoxy anthraquinone derivative may be a novel DNA topoisomerase inhibitor that can be potentially used for treatment of neuroblastoma or other cancer patients... - CASZ1, a candidate tumor-suppressor gene, suppresses neuroblastoma tumor growth through reprogramming gene expressionZ Liu
Pediatric Oncology Branch, Center for Cancer Research, National Cancer Institute, Bethesda, MD, USA
Cell Death Differ 18:1174-83. 2011..These data are consistent with CASZ1 being a critical modulator of neural cell development, and that somatically acquired disruption of normal CASZ1 expression contributes to the malignant phenotype of human NB... - High-resolution cDNA microarray-based comparative genomic hybridization analysis in neuroblastomaQing Rong Chen
Oncogenomics Section, Pediatric Oncology Branch, Advanced Technology Center, National Cancer Institute, 8717 Government Circle, Gaithersburg, MD 20877, USA
Cancer Lett 228:71-81. 2005..We also discuss hypothetic evolutionary models of neuroblastoma progression that can be derived from A-CGH data... - BBC3 mediates fenretinide-induced cell death in neuroblastomaJun S Wei
Pediatric Oncology Branch, National Cancer Institute, 8717 Grovemont Circle, Bethesda, MD 20892 4605, USA
Oncogene 24:7976-83. 2005..Our results indicate that BBC3 mediates cell death in NB cells in response to 4-HPR... - Detection of low level genomic alterations by comparative genomic hybridization based on cDNA micro-arraysSven Bilke
Oncogenomics Section, Pediatric Oncology Branch, Advanced Technology Center, National Cancer Institute 8717 Grovemont Circle, Gaithersburg, MD 20877, USA
Bioinformatics 21:1138-45. 2005..We find that with our algorithm the effective resolution for +/-1 DNA copy number changes is about 2 Mb. For copy number changes larger than three the effective resolution is on the level of single genes... - Gene expression profiles associated with response to chemotherapy in epithelial ovarian cancersAmir A Jazaeri
Laboratory of Biosystems and Cancer, Center for Cancer Research, National Cancer Institute, Bethesda, Maryland, USA
Clin Cancer Res 11:6300-10. 2005..Gene expression profiles were also identified that correlate with states of intrinsic and acquired chemoresistance and that represent targets for future investigation and potential therapeutic interventions... - Credentialing preclinical pediatric xenograft models using gene expression and tissue microarray analysisCraig C Whiteford
Oncogenomics Section, Comparative Oncology Program, and Cell and Molecular Biology Section, Pediatric Oncology Branch
Cancer Res 67:32-40. 2007..The database will facilitate the identification of tumor markers predictive of response to tested agents as well as the discovery of new molecular targets... - Proceedings: the Applications of Bioinformatics in Cancer Detection WorkshopIzet M Kapetanovic
Chemopreventive Agent Development Research Group, Division of Cancer Prevention, National Cancer Institute, National Institutes of Health, Bethesda, MD 20892 7322, USA
Ann N Y Acad Sci 1020:1-9. 2004..This paper summarizes the proceedings of this conference and points out future directions for research... - microRNA profiling identifies cancer-specific and prognostic signatures in pediatric malignanciesJun S Wei
Oncogenomics Section, Pediatric Oncology Branch, Advanced Technology Center, National Cancer Institute, Gaithersburg, Maryland 20877, USA
Clin Cancer Res 15:5560-8. 2009..We therefore have performed expression profiles on a panel of pediatric tumors to identify cancer-specific microRNAs. We also investigated if microRNAs are coregulated with their host gene... - Tumor classification using phylogenetic methods on expression dataRichard Desper
National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Department of Health and Human Services, Bldg 38A, Room 8N805, 8600 Rockville Pike, Bethesda, MD 20894, USA
J Theor Biol 228:477-96. 2004..We tested this method on the SRBCT data set, and classified each tumor successfully... - Gene expression profile in multiple sclerosis patients and healthy controls: identifying pathways relevant to diseaseRoberto Bomprezzi
Cancer Genetics Branch, National Human Genome Research Institute, National Institutes of Health, 50 South Drive, Bldg 50 Room 5150, Bethesda, MD 20892 8000, USA
Hum Mol Genet 12:2191-9. 2003.... - Analyzing array data using supervised methodsMarkus Ringner
Cancer Genetics Branch, National Human Genome Research Institute, National Institutes of Health, Building 50, Room 5142, 50 South Drive MSC 8000, Bethesda, MD 20892, USA
Pharmacogenomics 3:403-15. 2002..Here, methods with special reference to applications for pharmacogenomics are reviewed... - Ecteinascidin 743 interferes with the activity of EWS-FLI1 in Ewing sarcoma cellsPatrick J Grohar
Molecular Oncology Section, Pediatric Oncology Branch, National Cancer Institute, National Institutes of Health, Bethesda, MD 20892 1928, USA
Neoplasia 13:145-53. 2011..In addition, the modulation of EWS-FLI1 makes it a novel targeting agent for ESFT and suggests that further development of this compound for the treatment of ESFT is warranted... - Gene expression profiling in cancer using cDNA microarraysJaved Khan
Oncogenomics Section, Pediatric Oncology Branch, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA
Methods Mol Med 68:205-22. 2002 - Increased WSB1 copy number correlates with its over-expression which associates with increased survival in neuroblastomaQing Rong Chen
Oncogenomics Section, Pediatric Oncology Branch, Advanced Technology Center, National Cancer Institute, 8717 Grovemont Circle, Gaithersburg, MD 20877, USA
Genes Chromosomes Cancer 45:856-62. 2006..This article contains Supplementary Material available at http://www.interscience.wiley.com/jpages/1045-2257/suppmat... - An integrated cross-platform prognosis study on neuroblastoma patientsQing Rong Chen
Oncogenomics Section, Pediatric Oncology Branch, Advanced Technology Center, National Cancer Institute, Gaithersburg, MD 20877, USA
Genomics 92:195-203. 2008..Our study showed that gene expression studies performed in different platforms could be integrated for prognosis analysis after removing variation resulting from different platforms... - Global genomic and proteomic analysis identifies biological pathways related to high-risk neuroblastomaQing Rong Chen
Oncogenomics Section, Pediatric Oncology Branch, Advanced Technology Center, National Cancer Institute, 8717 Grovemont Circle, Gaithersburg, Maryland 20877, USA
J Proteome Res 9:373-82. 2010..We used global genomic and proteomic analysis to identify biologically relevant proteins and pathways important to NB progression and development that may provide new insights into the biology of advanced neuroblastoma... - Expression profiling identifies the cytoskeletal organizer ezrin and the developmental homeoprotein Six-1 as key metastatic regulatorsYanlin Yu
Laboratory of Molecular Biology, National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20892, USA
Nat Med 10:175-81. 2004..The identification of ezrin and Six-1 as critical regulators of metastasis in RMS provides new mechanistic and therapeutic insights into this pediatric cancer... - Altered expression of cell cycle genes distinguishes aggressive neuroblastomaAlexei L Krasnoselsky
Oncogenomics Section, Pediatric Oncology Branch, Advanced Technology Center, National Cancer Institute, 8717 Grovemont Circle, Gaithersburg, MD 20877, USA
Oncogene 24:1533-41. 2005..Finally, we establish that these genes are further upregulated in the most aggressive MYCN-amplified tumors... - Metastasis-associated differences in gene expression in a murine model of osteosarcomaC Khanna
Pediatric Oncology, National Cancer Institute, and Cancer Genetics Branch, Human Genome Research Institute, NIH, Bethesda, Maryland 20892, USA
Cancer Res 61:3750-9. 2001..This work represents a rationale approach to the evaluation of microarray data and will be useful to identify genes that may be causally associated with metastasis... - Diagnostic classification of cancer using DNA microarrays and artificial intelligenceBraden T Greer
Advanced Technology Center, National Cancer Institute, National Institutes of Health, Gaithersburg, MD 20877, USA
Ann N Y Acad Sci 1020:49-66. 2004..Several such applications are summarized in this chapter, and some of the common pitfalls are noted... - Prediction of clinical outcome using gene expression profiling and artificial neural networks for patients with neuroblastomaJun S Wei
Advanced Technology Center, Oncogenomics Section, Pediatric Oncology Branch, National Cancer Institute, NIH, Gaithersburg, Maryland 20877, USA
Cancer Res 64:6883-91. 2004..0005). Our findings provide evidence of a gene expression signature that can predict prognosis independent of currently known risk factors and could assist physicians in the individual management of patients with high-risk neuroblastoma... - Online analysis of microarray data using artificial neural networksBraden Greer
Oncogenomics Section, Pediatric Oncology Branch, Advanced Technology Center, National Cancer Institute, Gaithersburg, MD, USA
Methods Mol Biol 377:61-74. 2007..This is one possible method of many but we have found it suitable to microarray data and attempted to discuss universal guidelines for this type of analysis along the way... - Database of mRNA gene expression profiles of multiple human organsChang Gue Son
Advanced Technology Center, Oncogenomics Section, Pediatric Oncology Branch, National Cancer Institute, National Institutes of Health, Gaithersburg, Maryland 20877, USA
Genome Res 15:443-50. 2005..We expect this database will be of utility for developing rationally designed molecularly targeted therapeutics in diseases such as cancer, as well as for exploring the functions of genes... - Inferring a tumor progression model for neuroblastoma from genomic dataSven Bilke
Oncogenomics Section, Pediatric Oncology Branch, Advanced Technology Center, National Cancer Institute, Gaithersburg, MD, USA
J Clin Oncol 23:7322-31. 2005.... - Screening a panel of drugs with diverse mechanisms of action yields potential therapeutic agents against neuroblastomaJinesh S Gheeya
Oncogenomics Section, Pediatric Oncology Branch, Advanced Technology Center, National Cancer Institute, Gaithersburg, MD, USA
Cancer Biol Ther 8:2386-95. 2009..These drugs thus represent potential novel therapeutic agents for patients with NB, and further validation studies are needed to translate them to the clinic... - Insulin and IGF-1 induce different patterns of gene expression in mouse fibroblast NIH-3T3 cells: identification by cDNA microarray analysisJ Dupont
Section on Cellular and Molecular Physiology, Clinical Endocrinology Branch, National Institute of Diabetes and Digestive and Kidney Diseases, NIH, Bethesda, Maryland 208952-1758, USA
Endocrinology 142:4969-75. 2001..Our results indicate that under the conditions used in this study, IGF-1 is a more potent activator of the mitogenic pathway than insulin in mouse fibroblast NIH-3T3 cells... - Diagnosis of the small round blue cell tumors using multiplex polymerase chain reactionQing Rong Chen
Oncogenomics Section, Pediatric Oncology Branch, Advanced Technology Center, National Cancer Institute, 8717 Grovemont Circle, Gaithersburg, MD 20877, USA
J Mol Diagn 9:80-8. 2007..Our results suggest that this molecular test based on a multiplex PCR reaction may assist the physician in the rapid confirmation of the diagnosis of these cancers... - Expression of genes encoding innate host defense molecules in normal human monocytes in response to Candida albicansHee Sup Kim
Immunocompromised Host Section, Pediatric Oncology Branch, National Cancer Institute/NIH, Room 1-5740, Bethesda, MD 20892, USA
Infect Immun 73:3714-24. 2005..albicans. Thus, C. albicans is a potent inducer of a dynamic cascade of expression of genes whose products are related to the recruitment, activation, and protection of neutrophils and monocytes... - Identification of FGFR4-activating mutations in human rhabdomyosarcomas that promote metastasis in xenotransplanted modelsJames G Taylor
Pulmonary and Vascular Medicine Branch, National Heart, Lung, and Blood Institute NHLBI, NIH, Bethesda, Maryland 20892 4605, USA
J Clin Invest 119:3395-407. 2009..These findings support the potential therapeutic targeting of FGFR4 in RMS... - Prognostic classification of relapsing favorable histology Wilms tumor using cDNA microarray expression profiling and support vector machinesRichard D Williams
Section of Paediatric Oncology, Institute of Cancer Research, Sutton, Surrey, UK
Genes Chromosomes Cancer 41:65-79. 2004..This set of discriminators was highly enriched in genes on 1q, indicating close agreement between data obtained from expression profiling with data from genomic copy number analyses... - Molecular characterization of the pediatric preclinical testing panelGeoffrey Neale
Hartwell Center of Bioinformatics and Biotechnology, St Jude Children s Research Hospital, Memphis, Tennessee 38105, USA
Clin Cancer Res 14:4572-83. 2008..Identifying novel therapeutic agents for the treatment of childhood cancers requires preclinical models that recapitulate the molecular characteristics of their respective clinical histotypes... - High Skp2 expression characterizes high-risk neuroblastomas independent of MYCN statusFrank Westermann
Department of Tumor Genetics, German Cancer Research Center, Heidelberg, Germany
Clin Cancer Res 13:4695-703. 2007..However, a substantial number of MYCN single-copy neuroblastomas exhibits an aggressive phenotype similar to that of MYCN-amplified neuroblastomas even in the absence of high MYCN mRNA and/or protein levels... - Gene expression profiles that segregate patients with childhood acute lymphoblastic leukaemia: an independent validation study identifies that endoglin associates with patient outcomeDaniel Catchpoole
The Tumour Bank, The Oncology Research Unit, The Children s Hospital at Westmead, Locked Bag 4001, Westmead, NSW 2145, Australia
Leuk Res 31:1741-7. 2007..An artificial neural network identified endoglin, which was reported in the initial study as a potential lineage marker, was actually better at identifying ALL patients with poor outcome... - Human neuroblastoma cells rapidly enter cell cycle arrest and apoptosis following exposure to C-28 derivatives of the synthetic triterpenoid CDDOJennifer L Alabran
Department of Pediatrics, Case Comprehensive Cancer Center, Case Western Reserve University, Cleveland, Ohio 44106, USA
Cancer Biol Ther 7:709-17. 2008..These data demonstrate the potential utility of CDDO analogs as promising novel therapeutic agents for high-risk pediatric solid tumors... - The pediatric preclinical testing program: description of models and early testing resultsPeter J Houghton
Department of Molecular Pharmacology, St Jude Children s Research Hospital, Memphis, Tennessee 38105, USA
Pediatr Blood Cancer 49:928-40. 2007..Here, we describe the characteristics of the in vivo tumor panels and report results for the in vivo evaluation of two standard agents, vincristine and cyclophosphamide... - Cyclooxygenase-2 expression in pediatric sarcomasDavid S Dickens
Department of Pediatrics, Division of Hematology Oncology, Cincinnati Children s Hospital Medical Center, 3333 Burnet Avenue, Cincinnati, OH 45229, USA
Pediatr Dev Pathol 5:356-64. 2002..We conclude that the majority of these pediatric sarcoma samples express COX-2 to varying degrees. Therefore, studies testing the efficacy of COX-2 inhibitors in the treatment of pediatric sarcomas are warranted... - Reduced expression of CAMTA1 correlates with adverse outcome in neuroblastoma patientsKai Oliver Henrich
Department of Tumour Genetics B030, Molecular Genetics B060, Deutsches Krebsforschungszentrum, Heidelberg, Germany
Clin Cancer Res 12:131-8. 2006..A 1p36.3 commonly deleted region, bordered by D1S2731 and D1S214 has been defined. The present study surveys whether expression of genes mapping to this region is associated with tumor behavior...