MSTP Publications
2007 MSTP Graduates
Current MSTP Students
2007 MSTP Graduates
During their tenure, University of Chicago MSTP students publish in a variety of peer-reviewed journals and other publications. Below are publications of our 2007 MSTP graduates during their MSTP tenure.
Patrick Burkett, MD, PhD, Immunology
Ma, A., Koka, R., Burkett, P. 2006. Diverse Functions of IL-2, IL-7, and IL-15 in Lymphoid Homeostasis. Ann. Rev. Immunol. 24:657-79.
Burkett, P.R., Koka, R., Chien, M., Chai, S., Boone, D.L., Ma, A. 2004. Coordinate Expression and trans Presentation of IL-15R and IL-15 supports Natural Killer Cell and Memory CD8+ T Cell Homeostasis. J. Exp. Med. 200:825-834.
Koka, R., Burkett, P.R., Chien, M., Chai, S., Boone, D.L., Ma, A. 2004. Murine Dendritic Cells Require IL-15R to Prime NK Cells. J. Immunol. 173:3594-3598.
Burkett, P.R., Koka, R., Chien, M., Boone, D.L., Ma, A. 2004. Generation, Maintenance, and Function of Memory T Cells. Adv. Immunol. 83:191-231.
Burkett, P.R., Koka, R., Chien, M., Chai, S., Chan, F., Ma, A. and Boone, D.L. 2003. IL-15R Expression on CD8+ T Cells is Dispensable for T Cell Memory. Proc. Natl. Acad. Sci. USA. 100:4724-4729.
Koka, R., Burkett, P.R., Chien, M., Chan, F., Chai, S., Lodolce, J.P., Boone, D.L., and Ma, A. 2003. IL-15R Deficient NK Cells Survive in Normal but not IL-15R Deficient Mice. J. Exp. Med. 197:977-984.
Lodolce, J., Burkett, P., Koka, R., Boone, D., Chien, M., Chan, F., Madonia, M., Chai, S., and Ma, A. 2002. Interleukin-15 and the regulation of lymphoid homeostasis. Mol. Immunol. 39:537-44.
Boone, D. L., Lee, E. G., Libby, S., Gibson, P. J., Chien, M., Chan, F., Madonia, M., Burkett, P.R., and Ma, A. 2002. Recent Advances in Understanding NF-B Regulation. Inflamm. Bowel Dis. 8:201-212.
Lodolce, J. P., Burkett, P. R., Koka, R. M., Boone, D. L., Ma, A. 2002. Regulation of Lymphoid Homeostasis by Interleukin-15. Cytokine Growth Factor Rev. 13:429-439.
Lodolce, J. P., Burkett, P. R., Boone, D. L., Chien, M., Ma, A. 2001. T Cell Independent Interleukin-15R Signals are Required for Bystander Proliferation. J. Exp. Med. 8:1187-1194.
Megan McNerney, MD, PhD, Immunology
Yi, Y, McNerney, M, and Datta, SK. (2000) Regulatory defects in Cbl and Mitogen-Activated Protein Kinase (Extracellular Signal-Related Kinase) pathways cause persistent hyperexpression of CD40 Ligand in human lupus T cells. Journal of Immunology 165: 6627-6634.
Lee, KM*, McNerney, ME*, Stepp, SE, Mathew, PA, Schatzle, JD, Bennett, M, and Kumar, V. (2004) 2B4 acts as a non-MHC binding inhibitory receptor on mouse NK cells. Journal of Experimental Medicine. 199:1245-1254. *Authors contributed equally.
Commentary: SLAM family receptors regulate immunity with and without SAP-related adaptors. Veillette, A. (2004) Journal of Experimental Medicine. 199:1175-1178.
Editor’s Choice: Seeking alternative pathways. Simpson, SJ. (2004) Science. 304:1079b.
McNerney, ME, Lee KM, and Kumar, V. (2005) 2B4 (CD244) is a non-MHC binding receptor with multiple functions on natural killer cells and CD8+ T cells. Molecular Immunology. 42:489-494.
Vaidya SV, Stepp SE, McNerney ME, Lee JK, Bennett M, Lee KM, Stewart CL,
Kumar V, Mathew PA. (2005) Targeted disruption of the 2B4 gene in mice reveals an in vivo role of 2B4 (CD244) in the rejection of B16 melanoma cells. Journal of Immunology. 174:800-807.
McNerney, ME, Guzior, D, and Kumar, V. (2005) 2B4 (CD244) – CD48 interactions provide a novel MHC class I-independent system for NK cell self-tolerance in mice. Blood. 106:1337-1340.
Research Highlights: Natural killer cells – maintaining tolerance. Bell, E. (2005) Nature Reviews Immunology. 5:432.
Kumar, V and McNerney, ME. (2005) A new self: MHC class I independent NK cell self-tolerance. Nature Reviews Immunology. 5:363-374.
McNerney, ME and Kumar, V. (2006) The CD2 family of NK cell receptors. Colonna, M and Vivier, E eds. Current Topics in Microbiology and Immunology. 298:91-120.
McNerney, ME*, Lee, KM*, Zhou, P*, Molinero, L, Mashayekhi, M, Guzior, D, Sattar, H, Kuppireddi, S, Wang, CR, Kumar, V, and Alegre, ML. (2006) Role of natural killer cell subsets in cardiac allograft rejection. American Journal of Transplantation. 6:505-513. *Authors contributed equally.
Lee, KM*, Forman, J*, McNerney, ME*, Stepp, S, Kuppireddi, S, Guzior, D, Latchman, YE, Sayegh, MH, Yagita, H, Park, CK, Oh, SB, Wulfing, C, Schatzle, J, Mathew, PA, Sharpe, AH, and Kumar, V. (2006) Requirement of homotypic NK cell interactions through 2B4(CD244)/CD48 in the generation of NK effector functions. Blood. 107:3181-3188. *Authors contributed equally.
Alegre, ML and McNerney, ME. (2007) NK cell subsets in allograft rejection and tolerance. Current Opinion in Organ Transplantation. Manuscript in press.
Inessa Grinberg, MD, PhD, Human Genetics
Grinberg, I., Millen, K.J. (2005) The ZIC gene family in development and disease. Clinical Genetics; 67(4):290-6
Grinberg, I., Northrup, H., Ardinger, H., Prasad, C., Dobyns, W.B., Millen, K.J. (2004)
Heterozygous deletion of the linked genes ZIC1 and ZIC4 is involved in Dandy-Walker malformation. Nature Genetics; 36(10):1053-5.
Ramocki, M.B.*, Dowling, J.*, Grinberg, I.*, Cardoso, C., Gross, A., Chung , J., Lese, C., Kimonis, V., Ledbetter, D.H., Dobyns, W.B. and Millen, K.J. (2003)
Reciprocal fusion transcripts of two novel Zn-finger genes associated with absence of the corpus callosum in an individual with a Chr 2;9 balanced translocation. European Journal of Human Genetic; 11: 527-534. (* denotes equal contribution)
Millen, K.J., Grinberg, I., Blank, M., Dobyns, W.B. (in press) Zic1, Zic4 and the Dandy Walker Malformation. Inborn Errors of Development: The Molecular Basis of Clinical Disorders of Morphogenesis (Oxford Monographs of Medical Genetics); 2nd edition. Editors: Epstein, C.J., Erickson, R.P., Wynshaw-Boris, A.
Aalok Kacha, MD, PhD, Immunology
Brown IE, Blank C, Kline J, Kacha AK, Gajewski TF. Homeostatic proliferation as an isolated variable reverses CD8+ T cell anergy and promotes tumor rejection. Journal of Immunology, 2006, 177: in press (accepted 7/06).
Blank C, Brown I, Kacha AK, Markiewicz MA, Gajewski TF. ICAM-1 contributes to but is not essential for tumor antigen cross-priming and CD8+ T cell-mediated tumor rejection in vivo. Journal of Immunology. 2005 Mar 15;174(6):3416-20.
Kacha AK, Fallarino F, Markiewicz MA, Gajewski TF. Cutting edge: spontaneous rejection of poorly immunogenic P1.HTR tumors by Stat6-deficient mice. Journal of Immunology, 2000 Dec 1;165(11):6024-8.
Andrew Philip, MD, PhD, Biochemistry & Molecular Biology
Pan D, Philip A, Hoff WD, and Mathies RA (2004) Time-resolved resonance Raman structural studies of the pB’ intermediate in the photocycle of photoactive yellow protein. Biophys. J. 86(4): 2374-82.
Sorokin A, Kozlowski P, Graves L, and Philip A. (2001) Protein-tyrosine kinase Pyk2 mediates endothelin-induced p38 MAPK activation in glomerular mesangial cells. J. Biol. Chem. 276(24): 21521-8.
Tiphanie Phillips, MD, PhD, Immunology
L. Chen, T. Wang, P. Zhou, L. Ma, D. Yin, J. Shen, L. Molinero, T. Nozaki, T. Phillips, S. Uematsu, S. Akira, C.-R. Wang, R. L. Fairchild, M.-L. Alegre and A. Chong. TLR engagement prevents transplantation tolerance. American Journal of Transplantation (2006) 6: 2282
Ni Liu, Tiphanie Phillips, Manling Zhang, Yue Wang, Joseph T. Opferman, Ramila Shah and Philip G. Ashton-Rickardt. Serine protease inhibitor 2A is a protective factor for memory T cell development. Nature Immunology (2004) 5: 919
Tiphanie Phillips, Joseph T. Opferman, Ramila Shah, Ni Liu, Christopher J. Froelich and Philip G. Ashton-Rickardt. A role for the granzyme B inhibitor serine protease inhibitor 6 in CD8+ memory cell homeostasis. Journal of Immunology (2004) 173: 3801.
David Sadava, Tiphanie Phillips, Cindy Lin and Susan E. Kane. Transferrin overcomes drug resistance to artemisinin in human small-cell lung carcinoma cells. Cancer Letters (2002) 179: 151.
Chronic blockade or constitutive deletion of the serotonin transporter reduces operant responding for food reward”. Submitted for publication, January 2006.
David VanderWeele, MD, PhD, Cancer Biology
VanderWeele DJ, Rudin CM. mTOR promotes vincristine resistance through multiple mechanisms independent of maintained glycolytic rate. Mol Cancer Res. 2005 Nov;3(11):635-44.
Brace JL, VanderWeele DJ, Rudin CM. Svf1 inhibits reactive oxygen species generation and promotes survival under conditions of oxidative stress in Saccharomyces cerevisiae. Yeast. 2005 Jun;22(8):641-52.
VanderWeele DJ, Zhou R, Rudin CM. Akt up-regulation increases resistance to microtubule-directed chemotherapeutic agents through mammalian target of rapamycin. Mol Cancer Ther. 2004 Dec;3(12):1605-13.
Rudin CM, Yang Z, Schumaker LM, VanderWeele DJ, Newkirk K, Egorin MJ, Zuhowski EG, Cullen KJ. Inhibition of glutathione synthesis reverses Bcl-2-mediated cisplatin resistance. Cancer Res. 2003 Jan 15;63(2):312-8.
Vander Heiden MG, Choy JS, VanderWeele DJ, Brace JL, Harris MH, Bauer DE, Prange B, Kron SJ, Thompson CB, Rudin CM. Bcl-x(L) complements Saccharomyces cerevisiae genes that facilitate the switch from glycolytic to oxidative metabolism. J Biol Chem. 2002 Nov 22;277(47):44870-6.
Kiera von Besser, MD, PhD, Molecular Genetics & Biology
Johnson M.A., von Besser K., Zhou Q., Smith E., Aux G., Patton D., Levin J. and Preuss D. Arabidopsis hapless mutations define essential gametophyte functions. 2004 Genetics 168(2):971-82.
von Besser K, Johnson M.A., and Preuss D. Arabidopsis HAP2 reveals a role for sperm cell-expressedgenes in pollen tube guidance and fertilization. In revision Development.
Current MSTP Students
MSTP trainees produced over 43 peer reviewed publications and invited reviews and book chapters during the 2006-07 academic year. The below listing is not inclusive but a selected sample. Of those, MSTP trainees were first or second author in 80% of those cited.
Peer Reviewed Journals
Markus Boos, Immunology
Boos, M., K. Ramirez and B. Kee. 2007. Extrinsic and Intrinsic Regulation of Early Natural Killer Cell Development. Immunologic. Rev. In press.
Boos, M., Y. Yokota, G. Eberl and B. Kee. 2007. Mature Natural Killer Cell and Lymphoid Tissue Inducing Cell Development Requires Id2-Mediated Suppression of E-protein Activity. J. Exp. Med. 204:1119-1130.
Jonathan Budzik, Microbiology
Budzik JM, Marraffini LM, Schneewind O.Assembly of pili on the surface of Bacillus cereus vegetative cells Mol. Microbiol. 2007. In press
Daniel Clayburgh, Pathology
Clayburgh DR, Musch MW, Leitges M, Fu YX, Turner JR. (2006) Coordinated epithelial NHE3 inhibition and barrier dysfunction are required for TNF-mediated diarrhea in vivo. J Clin Invest. 116(10):2682-94
Graham WV, Wang F, Clayburgh DR, Cheng JX, Yoon B, Wang Y, Lin A, Turner JR. (2006) Tumor necrosis factor-induced long myosin light chain kinase transcription is regulated by differentiation-dependent signaling events. Characterization of the human long myosin light chain kinase promoter. J Biol Chem. 281(36):26205-15
Blair SA, Kane SV, Clayburgh DR, Turner JR. (2006) Epithelial myosin light chain kinase expression and activity are upregulated in inflammatory bowel disease. Lab Invest. 86(2):191-201.
Stephanie Graves, Cancer Biology
El Andaloussi A, Graves S, Meng F, Mandal M, Mashayekhi M, Aifantis I. Hedgehog signaling controls thymocyte progenitor homeostasis and differentiation in the thymus. Nat Immunol. 2006 Apr;7(4):418-26.
Robert Guzy, Cell Physiology
Guzy R.D., Mack M.M., Schumacker P.T. Mitochondrial Complex III is required for hypoxia-induced ROS production and gene transcription in yeast. Antioxid Redox Signal. (2007) Sep;9(9):1317-28.
Iwase H., Robin E., Guzy R.D., Mungai P.T., Vanden Hoek T.L., Chandel N.S., Levraut J., Schumacker P.T. Nitric oxide during ischemia attenuates oxidant stress and cell death during ischemia and reperfusion in cardiomyocytes. Free Radic Biol Med. (2007) Aug 15;43(4):590-9.
Robin E., Guzy R.D., Loor G., Iwase H., Waypa G.B., Marks J.D., Vanden Hoek T.L., Schumacker P.T. Oxidant stress during simulated ischemia primes cardiomyocytes for cell death during reperfusion. J Biol Chem. (2007) Jun 29;282(26):19133-43.
Waypa G.B., Guzy R., Mungai P.T., Mack M.M., Marks J.D., Roe M.W., Schumacker P.T. Increases in mitochondrial reactive oxygen species trigger hypoxia-induced calcium responses in pulmonary artery smooth muscle cells. Circ Res. (2006) Oct 27;99(9):970-8.
Guzy R.D. and Schumacker P.T. Oxygen sensing by mitochondria at complex III: the paradox of increased reactive oxygen species during hypoxia. Experimental Physiology (2006) Sep;91(5):807-19. Review.
Robert Hsieh, Biochemistry & Molecular Biology
Molecular Characterization of a B-ring Unsaturated Estrogen: Implications for Conjugated Equine Estrogen Components of Premarin. Robert W. Hsieh, Shyamala S. Rajan, Sanjay K. Sharma and Geoffrey L. Greene. Steroids, 2007, (In Press).
Identification of Ligands with Bicyclic Scaffolds Provides Insights into Mechanisms of Estrogen Receptor Subtype Selectivity. Robert W. Hsieh, Shyamala S. Rajan, Sanjay K. Sharma, Yuee Guo, Eugene R. DeSombre, Milan Mrksich and Geoffrey L. Greene. Journal of Biological Chemistry, 281(26), 17909-19, (2006).
Ali Javaheri, Molecular Genetics & Cell Biology
McSherry T, Kitazono A, Javaheri A, Kron SJ, Mueller P. "Non-catalytic Function for ATR in the Checkpoint Response." Cell cycle . (In press).
Wysocki R*, Javaheri A*, Kristjansdottir K, Sha F, Kron SJ. "CDK Pho85 targets CDK inhibitor Sic1 to relieve yeast G1 checkpoint arrest after DNA damage." Nature Structural & Molecular Biology - 13, 908 - 914 (2006)
*These authors contributed equally to this work
Javaheri A, Wysocki R, Jobin-Robitaille O, Altaf M, Côté J, Kron SJ. "Yeast G1 DNA damage checkpoint regulation by H2A phosphorylation is independent of chromatin remodeling. Proc Natl Acad Sci USA 103, 13771–13776 (2006)
Kao J, Milano MT, Javaheri A, Garofalo MC, Chmura SJ, Weichselbaum RR, Kron SJ. "gamma-H2AX as a therapeutic target for improving the efficacy of radiation therapy." Curr Cancer Drug Targets 3, 197-205 (2006)
Martin King, Medical Physics
M King, X Pan, L Yu, and M Giger, “Region-of-interest reconstruction of motion-contaminated data using a weighted backprojection filtration algorithm”, Med. Phys., 33 (2006) 1222-1238.
M King, M Giger, K Suzuki, and X Pan, “Feature-based characterization of motion-contaminated calcified plaques in cardiac multidetector CT”, Med Phys (accepted).
M King, M Giger, K Suzuki, D Bardo, B Greenberg, L Lan, and X Pan, “Computerized assessment of motion-contaminated calcified plaques in cardiac multidetector CT”, Med Phys (In press).
Jennifer Lanning, Pathology
Qahwash IM, Boire A, Lanning J, Krausz T, Pytel P, Meredith SC. Site-specific effects of peptide lipidation on beta -amyloid aggregation and cytotoxicity. J Biol Chem. 2007 Aug 9. (In press).
Atul Mallik, Neurobiology
Zhang JX, Rosenberg A, Mallik AK, Husson TR, Issa NP. The representation of complex images in spatial frequency domains of primary visual cortex. J Neurosci. 2007 Aug 29;27(35):9310-8.
Husson TR, Mallik AK, Zhang JX, Issa NP. Functional imaging of primary visual cortex using flavoprotein autofluorescence. J Neurosci. 2007 Aug 8;27(32):8665-75.
Ken Mouw, Biochemistry& Molecular Biology
Mouw, K.W., Rice, P.A. “Shaping the Borrelia burgdorferi genome: crystal structure and binding properties of the DNA-bending protein Hbb”. Mol Micro. 65, 1319-1330.
Jennifer Pogoriler, Cancer Biology
Pogoriler J, Millen K, Utset M, Du W. (2006) Loss of cyclin D1 impairs cerebellar development and suppresses medulloblastoma formation. Development. Oct; 133(19):3929- 37.
Du, W, Pogoriler, J. (2006) Retinoblastoma family genes. Oncogene. Aug 28;25(38):5190-200.
Cara Rabik, Molecular Genetics & Cell Biology
Rabik, C.A. and M.E. Dolan. Molecular mechanisms of resistance and toxicity associated with platinating agents. Cancer Treatment Reviews, 33(1): 9-23, 2007.
Rabik, C.A., Njoku, M.C., Dolan, M.E. Inactivation of O6-alkylguanine DNA alkyltransferase as a means to enhance cancer chemotherapy. Cancer Treatment Reviews, 32(4): 261-276, 2006.
Fishel, M.L., Rabik, C.A., Bleibel, W.K., Li, X., Moschel, R.C., Dolan, M.E. Role of GADD34 in Modulation of Cisplatin Cytotoxicity. Biochemical Pharmacology, 71(3): 239-47, 2006.
Kelly Riordan, Microbiology
Bill Blaylock, Kelly E. Riordan, Dominique M. Missiakas, Olaf Schneewind. Characterization of the Yersinia enterocolitica type III secretion ATPase YscN and its regulator, YscL. Bacteriol. 2006 May;188(10):3525-34
Talya Salant, History of Culture
Salant T, Lauderdale DS. Impact of incidental bilateral salpingo-oophorectomy in a family member on breast cancer risk assessment: clinical considerations. Cancer Detect Prev. 2006;30(4):329-32.
Salant T, Ganschow PS, Olopade OI, Lauderdale DS. "Why take it if you don't have anything?" breast cancer risk perceptions and prevention choices at a public hospital. J Gen Intern Med. 2006 Jul;21(7):779-85.
Salant T, Santry HP. Internet marketing of bariatric surgery: contemporary trends in the medicalization of obesity. Soc Sci Med. 2006 May;62(10):2445-57.
Douglas Stoller, Cell Physiology
Stoller, DA, R Kakkar, M Smelley, K Chalupsky, JU Earley, NQ Shi, JC Makielski, EM McNally. Mice lacking sulfonylurea receptor 2 (SUR2) ATP-sensitive potassium channels are resistant to acute cardiovascular stress. Journal of Molecular and Cellular Cardiology . (In Press).
Kakkar, R, B Ye, DA Stoller, M Smelley, NQ Shi, K Galles, M Hadhazy, JC Makielski, and EM McNally. Spontaneous coronary vasospasm in KATP mutant mice arises from a smooth muscle extrinsic process. Circulation Research March 17, 2006. 98(5):682-9.
Benjamin Thompson, Immunology
Thompson BJ, Buonamici S, Sulis ML, Palomero T, Vilimas T, Basso G, Ferrando A, Aifantis I. The SCFFBW7 ubiquitin ligase complex as a tumor suppressor in T cell leukemia. J Exp Med. 2007 Aug 6;204(8):1825-35.
Emre Turer, Immunology
Ma A, Turer E.E2 enzymes: expanding the 'ubi-verse' of immune signaling.Nat Immunol. 2006 Sep;7(9):903-4.
Paul VanderLaan, Pathology
VanderLaan PA, Reardon CA, Sagiv Y, Blachowicz L, Lukens J, Nissenbaum M, Wang CR, Getz GS. Characterization of the natural killer T-cell response in an adoptive transfer model of atherosclerosis. Am J Pathol. 2007;170:1100-1107.
Gregory Vlacich, Molecular Genetics & Cell Biology
Vlacich G, Roe C, Webb GC. Technology insight: microarrays-- research and clinical applications. Nat Clin Pract Endocrinol Metab. 2007 Aug;3(8):594-605
Invited Review and Book Chapters
Eric Vikingstad, Medical Physics
George KP, Vikingstad EM, Silbergleit R, Cao Y. Brain imaging in aphasia. In: Medical Speech-Language Pathology: A Practitioner's Guide, 2nd Edition. Johnson AF, Jacobson BH, editors. New York: Thieme; 2007.
Amber Martell, Computational Neuroscience
Van Drongelen, W., Martell, A., Lee, H.C. Neocortical Epileptiform Activity in Neuronal Models with Biophysically Realistic Ion Channels. In Computational Neuroscience in Epilepsy (2007). Soltesz, I. and Staley, K. (Eds.) Elsevier in review.
Selene Koo, Structural Biology
Koo, S., Novak, T., Piccirilli, J.A. Catalytic Mechanism of the HDV Ribozyme. In Ribozymes and RNA Catalysis; Lilley, D. and Eckstein, F., Eds.; Royal Society of Chemistry: Cambridge; 92-122 (In press).
