Recent peer-reviewed publications by CUR members with undergraduate coauthors.
Glioblastoma multiforme (GBM) are aggressive and uniformly fatal primary brain tumors characterized by their diffuse invasion of normal-appearing tissue peripheral to the abnormality visible on clinical imaging. Hypoxia, a hallmark of aggressive tumor behavior often noted in GBMs, has been associated with resistance to therapy, poorer survival, and more malignant tumor phenotypes. Our biomathematical model for glioma kinetics is able to quantitatively describe its spatial and temporal evolution in terms of the net rates of proliferation and invasion of the glioma cells in individual patients. Model-determined biological aggressiveness assessed by routine magnetic resonance imaging (MRI) was found to be quantitatively linked to the hypoxic burden of the tumor assessed via 18F-fluoromisonidazole positron emission tomography (FMISO-PET) imaging. This study suggests that patient-specific modeling of growth kinetics can provide novel and valuable insight into the quantitative connections between disparate information provided by multimodality imaging. Kristin Swanson is an associate research professor of Pathology in the division of Neuropathology and holds an adjunct appointment in the department of Applied Mathematics at the University of Washington. Mindy Szeto was a Biochemistry and Sociology major at the University of Washington. Postgraduation, Mindy has continued to work on research and is currently in the process of applying to MD-PhD programs. This project was completed in 2008 as part of an independent research experience. Undergraduate co-authors also include Gargi Chakraborty (University of Washington) and visiting Amgen scholar Jennifer Hadley (Washington University). This work was supported by the National Institutes of Health, the National Science Foundation, and the James S. McDonnell Foundation. Funding for student researchers was provided by the Amgen Scholars Program (Mindy Szeto, Jennifer Hadley), Washington Research Foundation (Gargi Chakraborty, Mindy Szeto), and Mary Gates Endowment for Students (Mindy Szeto, Gargi Chakraborty).
Don GW, Muir KK, Volk GB, Walker JS. Music: Broken symmetry, geometry, and complexity. Notices of the American Mathematical Society. 2010;57:30-49. (University of Wisconsin-Eau Claire)
This paper describes the results of an interdisciplinary collaboration between two faculty and two undergraduate students on mathematics and music. The mathematical methods of short-time Fourier transforms (aka Gabor transforms, or spectrograms, or sonograms) were used to analyze a wide variety of music by Beethoven, Goodman, Hendrix, and many others. These methods were also applied to the synthesis of new music. An initial study of rhythmic complexity using two different types of entropy measures was carried out as well. Gary W. Don is an associate professor in the Department of Music and Theatre Arts. James S. Walker is a professor in the Department of Mathematics. Karyn K. Muir is a senior mathematics major at SUNY-Geneseo. Gordon B. Volk is a senior mathematics major at the University of Wisconsin-Eau Claire. This research was supported by the University of Wisconsin-Eau Claire Center of Excellence for Faculty and Undergraduate Student Research Collaboration.
Gross DS, Atlas R, Rzeszotarski J, Turetsky E, Christensen J, Benzaid S, Olson J, Smith T, Steinberg L, Sulman J, Ritz A, Anderson B, Nelson C, Musicant DR, Chen L, Snyder DC, Schauer JJ. Environmental chemistry through intelligent atmospheric data analysis. Environmental Modeling & Software. 2010;25:760769. (Carleton College)
The authors of this paper developed a new open-source software package designed to facilitate the analysis of atmospheric data, with emphasis on data mining applications applied to single-particle mass spectrometry data from aerosol particles. The software package, Enchilada (Environmental Chemistry through Intelligent Atmospheric Data Analysis), is designed to seamlessly handle large datasets, to allow for temporal aggregation of data from many instruments, and to integrate techniques such as clustering (K-means, K-medians, and Art-2a), labeling of peaks in mass spectra, and temporal correlations of multiple datasets from multiple instrument types. Deborah Gross is an associate professor of chemistry, and David Musicant is an associate professor of computer science. Robert Atlas is currently employed with EPIC Corporation; Jeffrey Rzeszotarski is a senior undergraduate who will begin graduate school at Carnegie
Mellon University this fall; Emma Turetsky is in graduate school at University of Wisconsin-Madison; Janara Christensen is in graduate school at University of Washington; Sami Benzaid is in graduate school at University of North Carolina, Chapel Hill; Jamie Olson is in graduate school at Carnegie Mellon University; Thomas Smith is employed with Indiana University; Leah Steinberg is employed by Ultralingua, Inc.; Jon Sulman is employed by University of Minnesota; Anna Ritz is in graduate school at Brown University; Benjamin Anderson is employed by Microsoft Corporation; and Catherine Nelson is employed by Oregon Health and Science University. This recently published paper incorporates work done by a number of undergraduates at Carleton College over a span of about five years, all of whom did the work for credit as part of an independent study or were paid via an NSF grant.
Bradley SE, Johnson AE, Le IP, Oosterhouse E, Hledin MP, Marquez GA, Burntowska-Hledin M. Phosphorylation of VACM-1/Cul5 by Protein Kinase A regulates its neddylation and antiproliferative effect. J. Biol. Chem. 2010;7:48834895. (Hope College)
This study examined the expression of VACM-1/cul5 in endothelial cells. The aim of this study was to determine if PKA-dependent phosphorylation of VACM-1/Cul5 controls its neddylation status, phosphorylation by PKC, and ultimately growth. These results suggest that the antiproliferative effect of VACM-1/Cul5 is dependent on its posttranslational modifications and will help in the design of new anticancer therapeutics that target the Nedd8 pathway. Dr. Maria Burnatowska-Hledin is a Frederich Garrett and Helen Floor Dekker Professor of Biomedicine and Chemistry Professor. Johnson (now at Vanderbilt University for graduate school), Le (now at Washington University in St. Louis), Oosterhouse (now in Washington) did research during the years of 2006-07, including summer research projects. Hledin MP (now at DePauw University for undergrad), and Marquez (currently working and attending Grand Rapids Community College) did research during summer of 2006 through a summer research program. Bradley (graduating from Hope College and has accepted a position at Mayo Graduate School) did research during the years of 2006-2009 during both academic semesters and the summer. This work was supported by NIH Grant RO1DK47199 and NIH, NCI, Grant R15CA104014. This work was also supported by a Beckman Foundation Award (to Bradley), a Research Experience Across Cultures at Hope program award to high school student (Marquez), and a Merck/American Association for the Advancement of Science Undergraduate Science Research Program Award from the Merck Institute for Science Education.
Hubbard J, Rogers RL. Cultural factors influencing HIV-related attitudes and behaviors in the Third World: Ethnicity and religion in Guyana Race/Ethnicity: Multidisciplinary Global Contexts 2009;3:97-114. (Southern Wesleyan University) The study addressed the debate over whether cultural factors can deter the spread of the HIV virus. The relationship of risky sexual behaviors with ethnicity and religion in Guyana is examined among individuals 15 to 49 years of age using the 2005 Guyana HIV/AIDS Indicator Study. The research finds that ethnicity is the most consistent cultural factor, with East Indians more likely to avert risk and Africans less likely, and religion is less consistent, though Muslims and Hindus engage in less risk than Africans. Richard Lee Rogers is associate professor of sociology. Jessica Hubbard is an education major who conducted research on AIDS prevention and education in Guyana as part of her honors thesis. Jessica is currently teaching at the Georgetown International Academy in Georgetown, Guyana, and has been accepted into the doctoral program of the Peabody College of Education and Human Development at Vanderbilt University. The student's research included support from the Southern Wesleyan Honors Program and private contributions.
Predoi-Cross A, Liu W, Murphy R, Povey C, Gamache RR, Laraia AL, McKellar ARW, Hurtmans DR, Malathy Devi V. Measurement and computations for temperature dependences of self-broadened carbon dioxide transitions in the 30012 f 00001 and 30013 f 00001 bands. J. Quant. Spectrosc. Radiat. Transfer. 2010;111:1065-1079. (University of Massachusetts Lowell) Using a Fourier transform spectrometer setup we have measured the self-broadened half width, pressure shift, and line asymmetry coefficients for transitions in the 30012 f 00001 and 30013 f 00001 vibrational bands of carbon dioxide for four different temperatures. A total of 46 pure CO2 spectra were recorded at 0.008 and 0.009 cm1 resolution and at pressures varying from a few Torr to nearly an atmosphere. The self-broadening and self-shift coefficients are compared to semiclassical calculations based on the Robert-Bonamy formalism and were found to be in good agreement. Robert R. Gamache is a Professor in the Department of Environmental, Earth, and Atmospheric Sciences and Dean of the University of Massachusetts School of Marine Sciences. Anne L. Laraia is a senior in the Atmospheric Science option of DEEAS. This work was started between Anne's sophomore and junior year. This work was supported by the National Science Foundation through Grant no. ATM-0803135.
Waraczynski M, Salemme J, Farral B. Brain stimulation reward is affected by D2 dopamine receptor manipulations in the extended amygdala but not the nucleus accumbens. Behavioural Brain Research. 2010;1:626-635. (University of Wisconsin--Whitewater)
This work examines the effects on brain stimulation reward (BSR) of D1 and D2 dopamine receptor manipulations in the sublenticular central extended amygdala (SLEAc) and the nucleus accumbens shell (NAc). Fifty-three male Long Evans rats received medial forebrain bundle stimulation electrodes and bilateral injection guide cannulae aimed at either the SLEAc or the NAc. When injected into the NAc none of the drugs affected either the frequency required to maintain half-maximal responding or maximum response rate. D2 receptor blockade in the SLEAc contralateral to the stimulation site significantly but modestly enhanced both the stimulation's reward effectiveness and response rate while D2 receptor agonism decreased responding. Injections into the SLEAc ipsilateral to the stimulation site were ineffective. These results suggest that dopaminergic neurotransmission in the SLEAc is more important to reward processes than is dopamine in the NAc. Meg Waracynzski is Professor of Psychology at the University of Wisconsin - Whitewater. Biology major Jennifer Salemme and Psychology major Ben Farral participated in this research from 2005-2009 as lab researchers and for their thesis work. Salemme is now conducting post-baccalaureate work at the National Institute of Mental Health and will apply to a Ph.D. program. Farral is enrolled in an M.A. program at the University of Wisconsin-Madison and also works at a drug research firm. Both students conducted the research with grants from the University of Wisconsin -Whitewater Undergraduate Research Program, and Salemme received additional support from the Roger Ganser Scholarship Fund.
Ritch JJ, Davidson SM, Sheehan JJ, Austriaco N. The Saccharomyces SUN gene, UTH1, is involved in cell wall biogenesis. FEMS Yeast Res. 2010;18:168-176. (Providence College)
In this study, we showed that budding yeast cells lacking the aging gene, UTH1, have more robust cell walls. Surprisingly, our data also suggested that several of the enhanced growth properties of yeast mutants lacking UTH1, including their resistance to the pro-apoptotic gene, BAX, arise from a strengthened cell wall. Therefore, we proposed that UTH1's role at the cell wall and not at the mitochondria--as another lab had proposed--may better explain many of its effects on yeast physiology and programmed cell death. Nicanor Austriaco, O.P., is an assistant professor of biology and an instructor of theology at Providence College. James Ritch, Shawn Davidson, and Jared Sheehan undertook this work for credit and as research interns. James is a technician at the Massachusetts General Hospital. He will begin his doctoral studies in biology at the University of Massachusetts School of Medicine in Worchester this fall. Shawn is graduating this year and will pursue his Ph.D. in biology at the Massachusetts Institute of Techology in Cambridge, MA. Jared is a technician at the Dana Farber Cancer Institute in Boston and is pursuing his master 's degree in biotechnology at Harvard University. Our laboratory is supported by Rhode Island INBRE Grant P20RR016457 from the National Center for Research Resources (NCRR) of the National Institutes of Health (NIH) and a CAFR faculty development grant from Providence College.
Iyer SV, Hansen EC. Light's bending angle in the equatorial plane of a Kerr black hole. Phys Rev D. 2009;80:1240231-1240238. (State University of New York at Geneseo)
A detailed derivation of an explicit spin-dependent expression for the bending angle of light as it traverses in the equatorial plane of a spinning black hole. We show that the deflection produced in the presence of the black hole angular momentum explicitly depends on whether the motion of the light ray is in the direction, or opposite to the spin, resulting in a 'whirlpool effect.' A direct consequence of this effect is a shift in image positions in strong gravitational lensing. Savi Iyer is an associate professor of physics. Eddie Hansen is a graduating senior at SUNY Geneseo. This research was carried out as a summer research project in 2009. Eddie will be pursuing graduate work in physics. This project was funded by the Jerry D. Reber Faculty/Student research fund at Geneseo.
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|Title Annotation:||UNDERGRADUATE: RESEARCH Highlights|
|Publication:||Council on Undergraduate Research Quarterly|
|Article Type:||Recommended readings|
|Date:||Jun 22, 2010|
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