Publications
Publications 2009:
Molecular signatures to improve diagnosis in peripheral T-cell lymphoma and prognostication in angioimmunoblastic T-cell lymphoma
Javeed Iqbal, Dennis D Weisenburger1, Timothy C Greiner, Julie Vose, Timothy McKeithan, Can Kucuk, Huimin Geng, Karen Deffenbacher, Lynette Smith, Karen Dybkaer, Shigeo Nakamura, Masao Seto, Jan Delabie, Francoise Berger, Florence Loong, Wing Y Au, Young-Hyeh Ko, Ivy Sng, James Armitage and Wing C Chan, for the International Peripheral T-cell Lymphoma Project. Blood (in press).
Kou, Wei; Banerjee, Sugato; Eudy, James; Smith, Lynette; Persidsky, Raisa; Borgmann, Kathleen; Wu, Li; Sakhuja, Namita; Deshpande, Murali; Walseth, Timothy; Ghorpade, Anuja "CD38 regulation in activated astrocytes: implications for neuroinflammation and HIV-1 brain infection" Journal of Neuroscience Research (in press).
Iqbal, J., Kucuk, C., Deleeuw, R.J., Srivastava, G., Tam, W., Geng, H., Klinkebiel, D., Christman, J.K., Patel, K., Cao, K., Shen, L., Dybkaer, K., Tsui, I.F., Ali, H., Shimizu, N., Au, W.Y., Lam, W.L. & Chan, W.C. (2009) Genomic analyses reveal global functional alterations that promote tumor growth and novel tumor suppressor genes in natural killer-cell malignancies. Leukemia.(in press)
Pavlinkova G, Salbaum JM, Kappen C. 2009. Maternal Diabetes alters Transcriptional Programs in the Developing Embryo. BMC Genomics. Jun 18;10(1):274.
Abstracts 2009:
Microarray analysis of CpG methylation and altered gene expression in the MCF10A model of breast cancer progression. Judith K. Christman, Julun Yang, Lin Tang, Emily Rief, and David L. Klinkebiel, 2009, U.S. Army Medical Research and Material Command Research Initiative Meeting.
J.K. Christman, D.L. Klinkebiel, D.D. Weisenburger, W.C. Chan, and T.C. Greiner. 2008. Methylation analysis of mantle cell lymphoma: 1) Global methylation patterns of MCL patients, 2) Demethylating agent influence on cell line expression. Mantle Cell Lymphoma Research Initiative Annual Meeting. April 7, 2009.
Pavlinkova G, Salbaum JM, Kappen C. 2009. Maternal Diabetes alters Transcriptional Programs in the Developing Embryo. BMC Genomics. Jun 18;10(1):274.
Publications 2008:
Deffenbacher, KE , Wright G, Iqbal J, Geng H, O’Shea D, Lister TA, Fitzgibbon J, Fu K, Liu Z, Weisenburger DD, Greiner TC, Gascoyne RD, Rosenwald A, Campo E, Rimsza LM, Delabie J, Jaffe ES, Staudt LM, Chan WC. Genetic Abnormalities Involved in the Development and Progression of Follicular Lymphoma. Blood; 112: 2049, 2008.
Hegde GV, Peterson KJ, Emanuel K, Mittal AK, Joshi AD, Dickson JD, Kollessery GJ, Bociek RG, Bierman PJ, Vose JM, Weisenburger DD, Joshi SS. Hedgehog-induced survival of B-CLL in a stromal cell microenvironment. Molecular Cancer Research 6:1928- 1936, 2008.
Joshi SS, Mittal AK, Joshi AD, Vue E, Xioung W. Differential gene expression in murine large B-cell lymphoma metastatic variants. Int. Immunopharmacology 8:1257-63, 2008.
Hegde GV, Munger CM, Emanuel K, Joshi AD, Weisenburger DD, Vose JM, Joshi SS. Targeting GLI for the treatment of mantle cell lymphoma. Mol. Cancer Therapeutics, 7:1450-60, 2008.
Spresser C. R., Marshall S. E., and Carlson K. A. 2008 Characterization of gene expression regulated by human OTK18 using Drosophila
melanogaster as a model system for innate immunity J. Genet. 87
Das VA, Bhattacharya S, Zhao X, Hegde G, Mallya K, Eudy JD, and Ahmad I. The canonical Wnt pathway regulates retinal stem cells / progenitors in concert with notch signaling. Dev Neurosci. 2008;30(6):389-409.
Bafna S, Singh AP, Moniaux N, Eudy JD, Meza JL, and Batra SK. MUC4, a multifunctional transmembrane glycoprotein, induces oncogenic transformation of NIH3T3 mouse fibroblast cells. Cancer Res. 2008 Nov 15;68(22):9231-8.
Lenz G, Wright G, Dave SS, Xiao W, Powell J, Zhao H, Xu W, Tan B, Iqbal J, Vose J, Bast M, Fu K, Weisenburger DD, Greiner TC, Armitage JO, May L, Gascoyne R, Connors JM, Troen G, Holte H, Kvaloy S, Dierickx D, Verhoef G, Delabie J, Smeland EB,Jares P, Martinez A, Lopez-Guillermo A,Montserrat E, Campo E, Braziel RM, Miller, T, Rimsza LM, Cook J, Pohlman B, Sweetenham J, Tubbs R, Fisher RI, Hartmann E, Rosenwald A, Ott G, Muller-Hermelink HK, Wrench D, Lister TA, Jaffe ES, Wilson WH, Chan WC, Staudt LM. A Gene Expression-based Survival Predictor For Diffuse Large B Cell Lymphoma Treated With Chemotherapy Plus Rituximab. NEJM 2008 Nov 27;359(22):2313-23.
Bates JS , Petry DB, Eudy J, Bough L, and Johnson RK. Differential expression in lung and bronchial lymph node of pigs with high and low responses to infection with Porcine Reproductive and Respiratory Syndrome Virus. J Anim Sci. 2008 Dec;86(12):3279-89.
Gelineau-van Waes J, Maddox JR, Smith LM, van Waes M, Wilberding J, Eudy JD, Bauer LK, Finnell RH.Microarray analysis of E9.5 reduced folate carrier (RFC1; Slc19a1) knockout embryos reveals altered expression of genes in the cubilin-megalin multiligand endocytic receptor complex. BMC Genomics. 2008 Apr 9;9:156.
Langer WJ, Devish K, Carmines PK, Lane PH. Prepubertal onset of diabetes prevents expression of renal cortical connective tissue growth factor. Pediatr Nephrol. 2008 Feb;23(2):275-83.
Gelineau-van Waes, J., Smith, L., van Waes, M., Wilberding, J., Eudy, J.D., Bauer, L.K., and J. Maddox. Altered Expression of the Iron Transporter Nramp1 (slc11a1) During Fetal Eye Development in Microphthalmia-Associated Transcription Factor Mitfmi and Mitfvitiligo Mouse Mutants Experimental Eye Research (2008). Feb;86(2):419-33
Singh AP, Bafna S, Chaudhary K, Venkatraman G, Smith L, Eudy JD, Johansson SL, Lin MF, Batra SK.Genome-wide expression profiling reveals transcriptomic variation and perturbed gene networks in androgen-dependent and androgen-independent prostate cancer cells. Cancer Letters, 2008 Jan 18;259(1):28-38
Abstracts 2008:
Deffenbacher K, Liu Z, Iqbal J, Geng H, Chan, WC. High Resolution Profiling of DNA copy number and gene expression changes in AIDS-related Lymphoma. “11th International Conference on Malignancies in AIDS and other Acquired Immunodeficiencies”, NIH; October 6-7, 2008
J.K. Christman, D.L. Klinkebiel, D.D. Weisenburger, W.C. Chan, and T.C. Greiner. 2008. Methylation analysis of mantle cell lymphoma: 1) Evaluation of methods to enhance detection of methylation changes using Affymetrix Promoter arrays, 2) Evaluation of agents to change gene expression patterns in vitro. Mantle Cell Lymphoma Research Initiative Annual Meeting. March 10.
Publications 2007:
Chaudhuri A, Duan F, Morsey B, Persidsky Y, and Kanmogne, GD. HIV-1 activates proinflammatory and interferon-inducible genes in human brain microvascular endothelial cells: putative mechanisms of blood-brain barrier dysfunction. Journal of Cerebral Blood Flow and Metabolism (2007) 1-15.
Rocha-Sanchez S, Beisel K. Pocket proteins and cell cycle regulation in inner ear develoment. Int. J. Dev. Biol. 51, 585-595. 2007
Joshi, A. D., G. V. Hegde, J. D. Dickinson, A. K. Mittal, J. C. Lynch, J. D. Eudy, J. O. Armitage, P. J. Bierman, R. G. Bociek, M. P. Devetten, J. M. Vose, and S. S. Joshi. Divergent Role of ATM, CTLA4, MNDA and HEM1 in the Clinical Behavior of High versus Low CD38 Expressing CLL. Clin Cancer Res. 2007 Sep 15;13(18 Pt 1):5295-304.
Dybkaer, K., J. Iqbal, G. Zhou, H. Geng, L. Xiao, A. Schmitz, F. d’Amore, and W. C. Chan. Genome wide transcriptional analysis of resting and IL2 activated human natural killer cells: Gene expression signatures indicative of novel molecular signaling pathways. BMC Genomics. 2007 Jul 10;8:230.
Joshi, A. D., J. D. Dickinson, G. V. Hegde, W. G. Sanger, J. O. Armitage, P. J. Bierman, R. G. Bociek, M. P. Devetten, J. M. Vose, and S. S. Joshi. Bulky lymphadenopathy with poor clinical outcome is associated with ATM downregulation in B-cell chronic lymphocytic leukemia patients irrespective of 11q23 deletion. Cancer Genet Cytogenet. 172(2): 120-126.
Jiang, C., J. Pecha, I. Hoshino, D. Ankrapp, and H. Xiao. TIP30 mutant derived from hepatocellular carcinoma specimens promotes growth of HepG2 cells through up-regulation of N-cadherin. Cancer Res. 67(8): 3574-3582.
Duan, F., E. R. Spindel, Y. H. Li, and R. Norgren. Intercenter reliability and validity of the rhesus macaque GeneChip. BMC Genomics 8:61.
Rosenquist, T. H., G. D. Bennett, P. R. Brauer, M. L. Stewart, T. R. Chaudoin, and R. H. Finnell. Microarray analysis of homocysteine-responsive genes in cardiac neural crest cells in vitro. Dev Dyn. 236(4): 1044-1054.
Publications 2006:
Weston, M. D., M. L. Pierce, S. Rocha-Sanchez, K. W. Beisel, and G. A. Soukup. MicroRNA gene expression in the mouse inner ear. Brain Res. 1111(1): 95-104.
Dickinson, J. D., A. Joshi, J. Iqbal, W. Sanger, P. J. Bierman, and S. S. Joshi. Genomic abnormalities in chronic lymphocytic leukemia influence gene expression by a gene dosage effect. Int J Mol Med. 17(5): 769-778.
Dickinson, J. D., J. Gilmore, J. Iqbal, W. Sanger, J. C. Lynch, J. Chan, P. J. Bierman, and S. S. Joshi. 11q22.3 deletion in B-chronic lymphocytic leukemia is specifically associated with bulky lymphadenopaty and ZAP-70 expression but not reduced expression of adhesion/cell surface receptor molecules. Leuk Lymphoma 47 (2): 231-244.
Schulz, J. S., N. Palmer, J. Steckelberg, S. J. Jones, and M. G. Zeece. Microarray profiling of skeletal muscle sarcoplasmic reticulum proteins. Biochim Biophys Acta. 1764 (9): 1429-1435.
Madson, J. G., D. T. Lynch, K. L. Tinkum, S. K. Putta, and L. A. Hansen. Erbb2 regulates inflammation and proliferation in the skin after ultraviolet irradiation. Am J Pathol. 169 (4): 1402-1414.
Publications 2005:
Dickinson, J. D., L. M. Smith, W. G. Sanger, G. Zhou, P. Townley, J. C. Lynch, Z. S. Pavletic, P. J. Bierman, and S. S. Joshi. Unique gene expression and clinical characteristics are associated with the 11q23 deletion in chronic lymphocytic leukaemia. Br J Haematol. 128(4):460-471.
Ruthermund, C. A., V. K. Gopalakrishnan, J. D. Eudy, and J. K. Vishwanatha. Casodex treatment induces hypoxia-related gene expression in the LNCaP prostate cancer progression model. BMC Urology 5:5.
Lahue, E., J. Heckathorn, A. Meyer, J. Smith, and C. Wolfe. The Saccharomyces cerevisiae Sub2 protein suppresses heterochromatic silencing at telomeres and subtelomeric genes. Yeast 22 (7): 537-551.
Wei, M., L. Arnold, M. Cano, and S. M. Cohen. Effects of co-administration of antioxidants and arsenicals on the rat urinary bladder epithelium. Toxicol Sci. 83(2): 237-245.
Publications 2004:
Shen, Y., J. Iqbal, L. Xiao, R. C. Lynch, A. Rosenwald, L. M. Staudt, S. Sherman, K. Dybkaer, G. Zhou, J. D. Eudy, J. Delabie, T. W. McKeithan and W. C. Chan. Distinct gene expression profiles in different B-cell ccmpartments in human peripheral lymphoid organs. BMC Immunology 5:20.
Caetano, A. R., R. K. Johnson, J. J. Ford, and D. Pomp. Microarray profiling for differential gene expression in ovaries and ovarian follicles of pigs selected for increased ovulation rate. Genetics 168 (3): 1529-1537.
Publications 2003:
Wiedmann, S., J. D. Eudy, and J. Zempleni. Biotin supplementation increases expression of genes encoding interferon-γ, interleukin-1ß and 3-methylcrotonyl-CoA carboxylase, and decreases expression of the gene encoding interleukin-4 in human peripheral blood mononuclear cells. Journal of Nutrition 133 (3): 716-719.
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