Graduate Student Publications

Graduate Students in bold; Mentors in italics.

Cell and Molecular Biology

  • Adams KW & GM Cooper. 2007. Rapid turnover of Mcl-1 couples translation to cell survival and apoptosis. Journal of Biological Chemistry 282: 6192-6200
  • Bass BP, K Cullen & K McCall. 2007. The axon guidance gene lola is required for programmed cell death in the Drosophila ovary. Developmental Biology 304: 771-785
  • Baum JS, E Arama, H Steller & K McCall. 2007. The Drosophila caspases Strica and Droncfunction redundantly in programmed cell death during oogenesis. Cell Death and Differentiation 14: 1508-1517
  • Durham JT, OM Brand, M Arnold, JG Reynolds, L Muthukumar, H Weiler, JA Richardson & FJ Naya. 2006. Myospryn is a direct transcriptional target for MEF2A that encodes a striated muscle, alpha-actinin-interacting, costamere-localized protein. Journal of Biological Chemistry 281: 6841-6849
  • Huang HT, OM Brand, M Mathew, C Ignatiou, EP Ewen, SA McCalmon & FJ Naya. 2006. Myomaxin is a novel transcriptional target of MEF2A that encodes a Xin-related alpha-actinin-interacting protein. Journal of Biological Chemistry 281: 39370-39379
  • Clodfelter KH, DJ Waxman & S Vajda. 2006. Computational solvent mapping reveals the importance of local conformational changes for broad substrate specificity in mammalian cytochromes P450. Biochemistry 45: 9393-9407
  • Clodfelter KH, GD Miles, V Wauthier, MG Holloway, X Zhang, P Hodor, WJ Ray & DJ Waxman. 2007. Role of STAT5a in regulation of sex-specific gene expression in female but not male mouse liver revealed by microarray analysis. Physiological Genomics 31: 63-74
  • Clodfelter KH, MG Holloway, P Hodor, SH Park, WJ Raj & DJ Waxman. 2006. Sex-dependent liver gene expression is extensive and largely dependent upon signal transducer and activator of transcription 5b (STAT5b): STAT5b-dependent activation of male genes and repression of female genes revealed by microarray analysis. Molecular Endocrinology 20: 1333-1351
  • Bradham CA, Oikonomou C, Kühn A, Core AB, Modell JM, McClay DR, and AJ Poustka. 2009. Chordin is required for neural but not axial development in sea urchin embryos. Developmental Biology 328:221-233.
  • Doloff JC, DJ Waxman , & Y Jounaidi. 2008. hTERT-promoter driven oncolytic adenovirus with E1B-19 kDa and E1B-55 kDa gene deletions. Hum Gene Ther. Sep 4., in press.
  • Jounaidi Y, JC Doloff , & DJ Waxman. 2007. Conditionally replicating adenoviruses for cancer treatment. Curr Cancer Drug Targets. 7(3): 285-301.
  • Andken BB, I Lim, G Benson, JJ Vincent, MT Ferenc, B Heinrich, LA Jarzylo, HY Man & JO Deshler. 2007. 3'-UTR SIRF: a database for identifying clusters of short interspersed repeats in 3' untranslated regions. BMC Bioinformatics 8: 274
  • Funari VA, JE Crandall & DR Tolan. 2007. Fructose metabolism in the cerebellum. Cerebellum 6: 130-140
  • Garbati MR and TD Gilmore. 2008. Ser484 and Ser494 in REL are the major sites of IKK phosphorylation in vitro: evidence that IKK does not directly enhance GAL4-REL transactivation. Gene Expression 14, 195-205
  • Gilmore TD & M Herscovitch. 2006. Inhibitors of NF-kB signaling: 785 and counting. Oncogene 25: 6887-6899
  • Heinrich B & JO Deshler. 2008. RNA localization to the Balbiani body in Xenopus oocytes is regulated by the energy state of the cell and facilitated by kinesin II. RNA, in press
  • Chin M, Herscovitch M, Zhang N, Waxman DJ, Gilmore TD (2009). Overexpression of an activated version of the REL oncoprotein enhances the oncogenie properties of the human B-lymphoma BJAB cell line and alters its gene expression prolife. Oncogene 28: 2100-2111
  • Herscovitch M, W Comb, T Ennis, K Coleman, S Yong, B Armstead, D Kalaitzidis, S Chandani & TD Gilmore. 2008. Intermolecular disulfide bond formation in the NEMO dimer requires Cys54 and Cys347. Biochemical and Biophysical Research Communications 367: 103-108
  • Holloway MG, EV Laz & DJ Waxman. 2006. Codependence of growth hormone-responsive, sexually dimorphic hepatic gene expression on signal transducer and activator of transcription 5b and hepatic nuclear factor 4alpha. Molecular Endocrinology 20: 647-660
  • Holloway MG, GD Miles, AA Dombkowski & DJ Waxman. 2008. Liver-specific HNF4{alpha}-deficiency: greater impact on gene expression in male than in female mouse liver. Molecular Endocrinology, in press
  • Holloway MG, Y Cui, EV Laz, A Hosui, L Hennighausen & DJ Waxman. 2007. Loss of sexually dimorphic liver gene expression upon hepatocyte-specific deletion of Stat5a-Stat5b locus. Endocrinology 148 1977-1986
  • Kaya T, SC Mohr, DJ Waxman & S Vajda. 2006. Computational screening of phthalate monoesters for binding to PPARgamma. Chemical Research in Toxicology 19: 999-1009
  • Laz EV, MG Holloway, CS Chen & DJ Waxman. 2007. Characterization of three growth hormone-responsive transcription factors preferentially expressed in adult female liver. Endocrinology 148: 3327-3337
  • Leeman JR, MA Weniger, TF Barth and TD Gilmore. 2008. Deletion analysis and alternative splicing define a transactivation inhibitory domain in human oncoprotein REL. Oncogene 27, 6770-6781
  • Leeman JR and TD Gilmore. 2008. Alternative splicing in the NF-kB signaling pathway. Gene, 423, 97-107
  • Liang M-C, S Bardhan, EA Pace, D Rosman, JA Beutler, JA Porco Jr & TD Gilmore. 2006. Inhibition of transcription factor NF-kB signaling proteins IKKb and p65 through specific cysteine residues by epoxyquinone A monomer: correlation with its anti-cancer cell growth activity. Biochemical Pharmacology 71: 634-645
  • Liang M-C, S Bardhan, JA Porco Jr & TD Gilmore. 2006. The synthetic epoxyquinoids jesterone dimer and epoxyquinone A monomer induce apoptosis and inhibit REL (human c-Rel) DNA binding in an IkBa-deficient diffuse large B-cell lymphoma cell line. Cancer Letters 241: 69-78
  • Lu H, CS Chen , & DJ Waxman. .2008. Potentiation of methoxymorpholinyl doxorubicin antitumor activity by P450 3A4 gene transfer. Cancer Gene Ther. Nov 14. [Epub ahead of print]
  • Ma J & DJ Waxman. 2009. Dominant effect of antiangiogenesis in combination therapy involving cyclophosphamide and axitinib. Clin Cancer Res. Jan 15;15(2):578-88.
  • Ma J & DJ Waxman. 2008.Combination of antiangiogenesis with chemotherapy for more effective cancer treatment. Mol Cancer Ther. Dec;7(12):3670-84.
  • Ma J & DJ Waxman. 2007. Collaboration between hepatic and intratumoral prodrug activation in a P450 prodrug-activation gene therapy model for cancer treatment. Molecular Cancer Therapeutics 6: 2879-2890
  • Ma J & DJ Waxman. 2008. Modulation of the antitumor activity of metronomic cyclophosphamide by the angiogenesis inhibitor axitinib. Molecular Cancer Therapeutics 7: 79-89
  • McCurley, AT & GV Callard. 2008.Characterization of housekeeping genes in zebrafish: male-female differences and effects of tissue type, developmental stage and chemical treatment. BMC Molecular Biology 9:102
  • Choi KH, V Lai, CE Foster, AJ Morris, DR Tolan & KN Allen. 2006. New superfamily members identified for Schiff-base enzymes based on verification of catalytically essential residues. Biochemistry 45: 8546-8555
  • O’Lone R, K Knorr, IZ Jaffe, ME Schaffer, PGV Martini, RH Karas, J Bienkowska, ME Mendelsohn & U Hansen. 2007. Estrogen receptors alpha and beta mediate distinct pathways of vascular gene expression, including genes involved in mitochondrial electron transport and generation of reactive oxygen species. Molecular Endocrinology 21:1281-1296
  • Park SH, CA Wiwi & DJ Waxman. 2006. Signalling cross-talk between hepatocyte nuclear factor 4alpha and growth-hormone-activated STAT5b. Biochemical Journal 397: 159-168
  • Peterson JS, BP Bass, D Jue, A Rodriguez, JM Abrams & K McCall. 2007. Non-canonical cell death pathways function in Drosophila oogenesis. Genesis 45: 396-404
  • Pezza JA, JD Stopa, EM Brunyak, KN Allen & DR Tolan. 2007. Thermodynamic analysis shows conformational coupling and dynamics confer substrate specificity in fructose-1,6-bisphosphate aldolase. Biochemistry 46: 13010-13018
  • Repetny KJ, Zhou X, Holodick NE, Rothstein TL, Hansen U. 2009. Bioding of LBP-1a to specific immunoglobulin switch regions in vivo correlates with specific repression of class switch recombination. European Journal of Immunology, 39:1387-1394.
  • Reynolds JG, SA McCalmon, JA Donaghey & FJ Naya. 2008. Deregulated PKA signaling and myospryn expression in muscular dystrophy. Journal of Biological Chemistry, 283: 8070-8074
  • Reynolds JG, SA McCalmon, T Tomczyk & FJ Naya. 2007. Identification and mapping of protein kinase A binding sites in the costameric protein myospryn. Biochimica Biophysica Acta 1773: 891-902
  • Hansen U, Owens L, Saxena UH. 2009. Transcription factors LSF and E2Fs: Tandem cyclists driving G0 to S? Cell Cycle, 8:2146-2151.
  • Saxena UH, Powell CMH, Fecko JK, Cacioppo R, Chou HS, Cooper GM, Hansen U. 2009. Phosphorylation by cyclin C/CDK2 following mitogenic stimulation of murine fibroblasts inhibits transcriptional activity of LSF during G1 progression. Molecular and Cellular Biology, 29:2335-2345.
  • Shipley JM & DJ Waxman. 2006. Aryl hydrocarbon receptor-independent activation of estrogen receptor-dependent transcription by 3-methylcholanthrene. Toxicology and Applied Pharmacology 213: 87-97
  • Starczynowski DT, H Trautman, C Pott, L Harder, N Arnold, JA Africa, JR Leeman, R Seibert & TD Gilmore. 2007. Mutation of an IKK phosphorylation site within the transactivation domain of REL in two patients with human B-cell lymphoma enhances REL’s in vitro transforming activity. Oncogene 26: 2685-2694
  • Sullivan JC, D Kalaitzidis, TD Gilmore & JR Finnerty. 2007. Rel homology domain-containing transcription factors in the cnidarian Nematostella vectensis. Development Genes and Evolution 217: 63-72
  • Sullivan JD, Wolenski FS, Reitzel AM, French CE, Traylor-Knowles N, Gilmore TD & Finnerty JR. 2009. Two alleles encoding transcription factor NF-kB in the sea anemone Nematostella vectensis are widely dispersed in natural populations and encode proteins with distinct activities. PLoS ONE, in press
  • Terragni J, JR Graham, KW Adams, MW Schaffer, JW Tullai & GM Cooper. 2008. Phosphatidylinositol 3-kinase signaling in proliferating cells maintains an anti-apoptotic transcriptional program mediated by inhibition of FOXO and non-canonical activation of NF-kB transcription factors. BMC Cell Biology 9: 6
  • Tullai JW, J Chen, ME Schaffer, E Kamenetsky, S Kasif & GM Cooper. 2007. GSK-3b mediates repression of CREB target genes in quiescent cells. Journal of Biological Chemistry 282: 9482-9491
  • Tullai JW, ME Schaffer, S Mullenbrock, G Sholder, S Kasif & GM Cooper. 2007. Immediate-early and delayed primary response genes are distinct in function and genomic architecture. Journal of Biological Chemistry 282: 23981-23995
  • Waxman DJ & C O’Connor. 2006. Growth hormone regulation of sex-dependent liver gene expression. Molecular Endocrinology 20: 2613-2629
  • Zhu N & U Hansen. 2007. HMGN1 modulates estrogen-mediated transcriptional activation through interactions with specific DNA-binding transcription factors. Molecular and Cellular Biology 27: 8859-8873