Physical Sciences and Mathematics Commons^™

Biomarkers Of Mild Cognitive Impairment And Alzheimer's Disease, Mark A. Lovell, Bert C. Lynn

Chemistry Faculty Patents

A method for quantifying a neurodegenerative disorder in a patient that includes obtaining a fluid sample from the subject; measuring a protein biomarker complex in said fluid sample and correlating the measurement with mild cognitive impairment or Alzheimer's disease status. The biomarkers include those that comprise at least one of a transthyretin protein and/or a prostaglandin-H2 D-isomerase protein, and at least one second, different protein selected from a transthyretin, prostaglandin-H2 D-isomerase, beta-2-microglobulin, cystatin C, superoxide dismutase [Cu—Zn], plasma retinol-binding protein, phosphatidylethanolamine-binding protein, carbonic anhydrase 2, prostaglandin-H2 D-isomerase, and/or serotransferrin protein.

Precatalysts Useful In Polyolefin Polymerization Reactions, Omofolami Tesileem Ladipo, Richard Eaves, Alexey Zazybin, Sean Parkin

Chemistry Faculty Patents

Compounds are provided that are useful as precatlysts in the polymerization of olefins such as ethylene and propylene. Other compounds are useful as intermediates in the production of such precatalysts.

Structure And Feedback In 30 Doradus. I. Observations, E. W. Pellegrini, J. A. Baldwin, Gary J. Ferland

Physics and Astronomy Faculty Publications

We have completed a new optical imaging and spectrophotometric survey of a 140 × 80 pc² region of 30 Doradus centered on R136, covering key optical diagnostic emission lines including Hα, Hβ, Hγ, [O III] λλ4363, 4959, 5007, [N II] λλ6548, 6584, [SII] λλ6717, 6731 [S III] λ6312, and in some locations [S III] λ9069. We present maps of fluxes and intensity ratios for these lines, and catalogs of isolated ionizing stars, elephant-trunk pillars, and edge-on ionization fronts. The final science-quality spectroscopic data products are available to the public. Our analysis of the new data finds that, while stellar …

Endothelial Cell Capture Of Heparin-Binding Growth Factors Under Flow, Bing Zhao, Changjiang Zhang, Kimberly Forsten-Williams, Jun Zhang, Michael Fannon

Ophthalmology and Visual Science Faculty Publications

Circulation is an important delivery method for both natural and synthetic molecules, but microenvironment interactions, regulated by endothelial cells and critical to the molecule's fate, are difficult to interpret using traditional approaches. In this work, we analyzed and predicted growth factor capture under flow using computer modeling and a three-dimensional experimental approach that includes pertinent circulation characteristics such as pulsatile flow, competing binding interactions, and limited bioavailability. An understanding of the controlling features of this process was desired. The experimental module consisted of a bioreactor with synthetic endothelial-lined hollow fibers under flow. The physical design of the system was incorporated …

Mapsplice: Accurate Mapping Of Rna-Seq Reads For Splice Junction Discovery, Kai Wang, Darshan Singh, Zheng Zeng, Stephen J. Coleman, Yan Huang, Gleb L. Savich, Xiaping He, Piotr Mieczkowski, Sara A. Grimm, Charles M. Perou, James N. Macleod, Derek Y. Chiang, Jan F. Prins, Jinze Liu

Computer Science Faculty Publications

The accurate mapping of reads that span splice junctions is a critical component of all analytic techniques that work with RNA-seq data. We introduce a second generation splice detection algorithm, MapSplice, whose focus is high sensitivity and specificity in the detection of splices as well as CPU and memory efficiency. MapSplice can be applied to both short (<75 bp) and long reads (≥75 bp). MapSplice is not dependent on splice site features or intron length, consequently it can detect novel canonical as well as non-canonical splices. MapSplice leverages the quality and diversity of read alignments of a given splice to increase accuracy. We demonstrate that MapSplice achieves higher sensitivity and specificity than TopHat and SpliceMap on a set of simulated RNA-seq data. Experimental studies also support the accuracy of the algorithm. Splice junctions derived from eight breast cancer RNA-seq datasets recapitulated the extensiveness of alternative splicing on a global level as well as the differences between molecular subtypes of breast cancer. These combined results indicate that MapSplice is a highly accurate algorithm for the alignment of RNA-seq reads to splice junctions. Software download URL: http://www.netlab.uky.edu/p/bioinfo/MapSplice.

On The Disappearance Of The Broad-Line Region In Low-Luminosity Active Galactic Nuclei, Moshe Elitzur, Luis C. Ho

Physics and Astronomy Faculty Publications

The disk-wind scenario for the broad-line region (BLR) and toroidal obscuration in active galactic nuclei (AGNs) predicts the disappearance of the BLR at low luminosities. In accordance with the model predictions, data from a nearly complete sample of nearby AGNs show that the BLR disappears at luminosities lower than 5 × 10³⁹(M/10⁷ M_⊙)^2/3 erg s^-1, where M is the black hole mass. The radiative efficiency of accretion onto the black hole is ≲10^-3 for these sources, indicating that their accretion is advection-dominated.

Trans-Excision-Splicing Ribozyme And Methods Of Use, Stephen M. Testa, Michael A. Bell

Chemistry Faculty Patents

A group I intron-derived ribozyme which binds RNA in trans, excises an internal segment from within the RNA, and splices the remaining 5′ and 3′ ends of the RNA back together (the trans-excision-splicing reaction) is disclosed. The excised segment can be as long as 28 nucleotides, or more, and as little as one nucleotide. The ribozymes of the invention are easily modified to alter their sequence specificity. Such ribozymes represent a new and potentially powerful class of generally adaptable genetic therapeutics.

Thinking Outside The Curve, Part Ii: Modeling Fetal-Infant Mortality, Richard Charnigo, Lorie W. Chesnut, Tony Lobianco, Russell S. Kirby

Statistics Faculty Publications

BACKGROUND: Greater epidemiologic understanding of the relationships among fetal-infant mortality and its prognostic factors, including birthweight, could have vast public health implications. A key step toward that understanding is a realistic and tractable framework for analyzing birthweight distributions and fetal-infant mortality. The present paper is the second of a two-part series that introduces such a framework.

METHODS: We propose estimating birthweight-specific mortality within each component of a normal mixture model representing a birthweight distribution, the number of components having been determined from the data rather than fixed a priori.

RESULTS: We address a number of methodological issues related to our …

Thinking Outside The Curve, Part I: Modeling Birthweight Distribution, Richard Charnigo, Lorie W. Chesnut, Tony Lobianco, Russell S. Kirby

Statistics Faculty Publications

BACKGROUND: Greater epidemiologic understanding of the relationships among fetal-infant mortality and its prognostic factors, including birthweight, could have vast public health implications. A key step toward that understanding is a realistic and tractable framework for analyzing birthweight distributions and fetal-infant mortality. The present paper is the first of a two-part series that introduces such a framework.

METHODS: We propose describing a birthweight distribution via a normal mixture model in which the number of components is determined from the data using a model selection criterion rather than fixed a priori.

RESULTS: We address a number of methodological issues, including how the …

White Matter Diffusion Alterations In Normal Women At Risk Of Alzheimer's Disease, Charles D. Smith, Himachandra Chebrolu, Anders H. Andersen, David A. Powell, Mark A. Lovell, Shuling Xiong, Brian T. Gold

Neurology Faculty Publications

Increased white matter mean diffusivity and decreased fractional anisotropy (FA) has been observed in subjects diagnosed with mild cognitive impairment (MCI) and Alzheimer's disease (AD). We sought to determine whether similar alterations of white matter occur in normal individuals at risk of AD. Diffusion tensor images were acquired in 42 cognitively normal right-handed women with both a family history of dementia and at least one apolipoprotein E4 allele. These were compared with images from 23 normal women without either AD risk factor. Group analyses were performed using tract-based spatial statistics. Reduced FA was observed in the fronto-occipital and inferior temporal …

A Sea Change In Eta Carinae, Andrea Mehner, Kris Davidson, Roberta M. Humphreys, John C. Martin, Kazunori Ishibashi, Gary J. Ferland, Nolan R. Walborn

Physics and Astronomy Faculty Publications

Major stellar-wind emission features in the spectrum of η Car have recently decreased by factors of order 2 relative to the continuum. This is unprecedented in the modern observational record. The simplest, but unproven, explanation is a rapid decrease in the wind density.

Herschel Photometry Of Brightest Cluster Galaxies In Cooling Flow Clusters, A. C. Edge, J. B. R. Oonk, R. Mittal, S. W. Allen, S. A. Baum, H. Böhringer, J. N. Bregman, M. N. Bremer, F. Combes, C. S. Crawford, M. Donahue, E. Egami, A. C. Fabian, Gary J. Ferland, S. L. Hamer, N. A. Hatch, W. Jaffe, R. M. Johnstone, B. R. Mcnamara, C. P. O'Dea, P. Popesso, A. C. Quillen, P. Salomé, C. L. Sarazin, G. M. Voit, R. J. Wilman, M. W. Wise

Physics and Astronomy Faculty Publications

The dust destruction timescales in the cores of clusters of galaxies are relatively short given their high central gas densities. However, substantial mid-infrared and sub-mm emission has been detected in many brightest cluster galaxies. In this letter we present Herschel PACS and SPIRE photometry of the brightest cluster galaxy in three strong cooling flow clusters, A1068, A2597 and Zw3146. This photometry indicates that a substantial mass of cold dust is present (> 3×10⁷ M⊙) at temperatures significantly lower (20–28 K) than previously thought based on limited MIR and/or sub-mm results. The mass and temperature of the dust appear …

Herschel Observations Of Fir Emission Lines In Brightest Cluster Galaxies, A. C. Edge, J. B. R. Oonk, R. Mittal, S. W. Allen, S. A. Baum, H. Böhringer, J. N. Bregman, M. N. Bremer, F. Combes, C. S. Crawford, M. Donahue, E. Egami, A. C. Fabian, Gary J. Ferland, S. L. Hamer, N. A. Hatch, W. Jaffe, R. M. Johnstone, B. R. Mcnamara, C. P. O'Dea, P. Popesso, A. C. Quillen, P. Salomé, C. L. Sarazin, G. M. Voit, R. J. Wilman, M. W. Wise

Physics and Astronomy Faculty Publications

The question of how much gas cools in the cores of clusters of galaxies has been the focus of many, multiwavelength studies in the past 30 years. In this letter we present the first detections of the strongest atomic cooling lines, [Cii], [Oi] and [Nii] in two strong cooling flow clusters, A1068 and A2597, using Herschel-PACS. These spectra indicate that the substantial mass of cold molecular gas (> 10⁹ M_⊙) known to be present in these systems is being irradiated by intense UV radiation, most probably from young stars. The line widths of these FIR lines …

Herschel Images Of Ngc 6720: H2 Formation On Dust Grain, P. A. M. Van Hoof, G. C. Van De Steene, M. J. Barlow, K. M. Exter, B. Sibthorpe, T. Ueta, V. Peris, M. A. T. Groenewegen, J. A. D. L. Blommaert, M. Cohen, W. De Meester, Gary J. Ferland, W. K. Gear, H. L. Gomez, P. C. Hargrave, E. Huygen, R. J. Ivison, C. Jean, S. J. Leeks, T. L. Lim, G. Olofsson, E. T. Polehampton, S. Regibo, P. Royer, B. M. Swinyard, B. Vandenbussche, H. Van Winckel, C. Waelkens, H. J. Walker, R. Wesson

Physics and Astronomy Faculty Publications

Herschel PACS and SPIRE images have been obtained of NGC 6720 (the Ring nebula). This is an evolved planetary nebula with a central star that is currently on the cooling track, due to which the outer parts of the nebula are recombining. From the PACS and SPIRE images we conclude that there is a striking resemblance between the dust distribution and the H₂ emission, which appears to be observational evidence that H₂ forms on grain surfaces. We have developed a photoionization model of the nebula with the Cloudy code which we used to determine the physical conditions of …

A Bright Molecular Core In A Crab Nebula Filament, E. D. Loh, J. A. Baldwin, Gary J. Ferland

Physics and Astronomy Faculty Publications

In a sub-arcsec near-infrared survey of the Crab Nebula using the new Spartan Infrared Camera, we have found several knots with high surface brightness in the H2 2.12 μm line and a very large H₂ 2.12 μm to Brγ ratio. The brightest of these knots has an intensity ratio I(H₂ 2.12 μm)/I(Brγ) = 18 ± 9, which we show sets a lower limit on the ratio of masses in the molecular and recombination (i.e., ionized) zones M _mol/M _rec ≥ 0.9, and a total molecular mass within this single knot M _mol ≥ …

A Bare Molecular Cloud At Z ~ 0.45*, Therese M. Jones, Toru Misawa, Jane C. Charlton, Andrew C. Mshar, Gary J. Ferland

Physics and Astronomy Faculty Publications

Several neutral species (Mg I, Si I, Ca I, Fe I) have been detected in a weak Mg II absorption line system (W_r (2796) ~ 0.15 Å) at z ~ 0.45 along the sightline toward HE0001-2340. These observations require extreme physical conditions, as noted in D'Odorico. We place further constraints on the properties of this system by running a wide grid of photoionization models, determining that the absorbing cloud that produces the neutral absorption is extremely dense (~100-1000 cm^-3), cold (< 100 K), and has significant molecular content (~72%-94%). Structures of this size and temperature have been detected in Milky Way CO surveys and have been predicted in hydrodynamic simulations of turbulent gas. In order to explain the observed line profiles in all neutral and singly ionized chemical transitions, the lines must suffer from unresolved saturation and/or the absorber must partially cover the broad emission line region of the background quasar. In addition to this highly unusual cloud, three other ordinary weak Mg II clouds (within densities of ~0.005 cm^-3 and temperatures of ~10, 000 K) lie within 500 km s^-1 along the …

Luminosity-Variation Independent Location Of The Circum-Nuclear, Hot Dust In Ngc 4151, Jorg-Uwe Pott, Matt A. Malkan, Moshe Elitzur, Andrea M. Ghez, Tom M. Herbst, Rainer Schödel, Julien Woillez

Physics and Astronomy Faculty Publications

After recent sensitivity upgrades at the Keck Interferometer (KI), systematic interferometric 2 μm studies of the innermost dust in nearby Seyfert nuclei are within observational reach. Here, we present the analysis of new interferometric data of NGC 4151, discussed in context of the results from recent dust reverberation, spectro-photometric, and interferometric campaigns. The complete data set gives a complex picture, in particular the measured visibilities from now three different nights appear to be rather insensitive to the variation of the nuclear luminosity. KI data alone indicate two scenarios: the K-band emission is either dominated to ~90% by size …

Scalable Object Recognition Using Hierarchical Quantization With A Vocabulary Tree, David Nistér, Henrik Stewénius

Center for Visualization and Virtual Environments Faculty Patents

An image retrieval technique employing a novel hierarchical feature/descriptor vector quantizer tool—‘vocabulary tree’, of sorts comprising hierarchically organized sets of feature vectors—that effectively partitions feature space in a hierarchical manner, creating a quantized space that is mapped to integer encoding. The computerized implementation of the new technique(s) employs subroutine components, such as: A trainer component of the tool generates a hierarchical quantizer, Q, for application/use in novel image-insertion and image-query stages. The hierarchical quantizer, Q, tool is generated by running k-means on the feature (a/k/a descriptor) space, recursively, on each of a plurality of nodes of a resulting quantization level …

Poster Session, Kentucky Water Resources Research Institute, University Of Kentucky

Kentucky Water Resources Annual Symposium

• River Basins of Kentucky, Dan Carey, Kentucky Geological Survey
• An Initial Prioritization Approach for Potential Agricultural Best Management Practice Implementation Based on Subwatershed Indicators and Expert Knowledge, Brian Lee and Corey Wilson, Dept Landscape Architecture, UK
• Locating Karst Conduits in Cane Run Watershed of Central Kentucky Using Electrical Resistivity Methods, Junfeng Zhu and others, Kentucky Geological Survey
• Identification of DNA Biomarkers for Determining Sources of Fecal Pollution in Water, Rick Fowler and others, WATERS Laboratory, WKU
• Integrating Participatory Communication and Structured Public Involvement Processes to Better Address Superfund Issues: The Paducah Gaseous Diffusion Plant Future State …

Session 2c, Kentucky Water Resources Research Institute, University Of Kentucky

Kentucky Water Resources Annual Symposium

• A Field Protocol for Measuring the Hydrogeomorphic Effects of Land-Use Conversion in Northern Kentucky Streams, Robert Hawley, Sustainable Streams, LLC, Louisville
• Subwatershed Clustering Based on Geomorphic and Human Induced Landscape Modifications: The Licking River Basin, Brian Lee and Corey Wilson, Dept Landscape Architecture, UK, and others
• Updating the National Hydrography Dataset in a Dynamic Land Cover Change Environment: The Case of the Elusive Water Bodies in Kentucky’s Eastern Coal Field Region, Demetrio Zourarakis, KY Div of Geographic Info, Frankfort
• Relationships Associated with Land Cover and the Macroinvertebrate Community of Northern Kentucky Watersheds, Matthew Wooten, SD1 and …

Session 2b, Kentucky Water Resources Research Institute, University Of Kentucky

Kentucky Water Resources Annual Symposium

• Outer Scaling Method for Velocity Profile Collapse in Gravel-Bed Rivers, Brian Belcher, Beaver Creek Hydrology, LLC and James Fox, Civil Engineering, UK
• Water Availability Tool for Environmental Resources (WATER), Jeremy Newson, USGS Kentucky Water Science Center
• Methods for Estimating Low-Flow Frequencies of Unregulated Streams in Kentucky, Gary Martin and Leslie Arihood, USGS Kentucky Water Science Center
• Investigation of the Surface Fine Grained Laminae Using a Watershed Scale Sediment Transport Model, Joseph Russo and Jimmy Fox, Dept of Civil Engineering, UK

Session 2a, Kentucky Water Resources Research Institute, University Of Kentucky

Kentucky Water Resources Annual Symposium

• Millcreek Elementary Stream & Wetlands Restoration Project & Outdoor Classroom, Carol Hanley, Tracy Farmer Institute for Sustainability & the Environment, UK
• Southern Region 4-H₂O Ambassador Program, Ashley Osborne, Cooperative Extension Service, UK
• Oldham County Fiscal Court Leads Watershed Planning Effort, Beth Stuber and others, Oldham County Fiscal Court
• Update on Lexington’s Consent Decree, Richard Walker and others, Tetra Tech

Session 1c, Kentucky Water Resources Research Institute, University Of Kentucky

Kentucky Water Resources Annual Symposium

• Quantifying the Soil Carbon Uptake Rate in Reclaimed Appalachia Mine Soil, Peter Acton and others, Dept of Civil Engineering, UK
• Modeling of CO₂-Water-Rock Interactions in Mississippian Sandstone and Carbonate Reservoirs of Kentucky, Anne Schumacher and others, Dept Earth and Environmental Sciences, UK
• Brine Chemistry in the Illinois and Appalachian Basins of Kentucky – Implications for Geologic Carbon Sequestration, Marty Parris and others, KGS
• Reconnaissance of Selenium Occurrence and Bioaccumulation in the Eastern Kentucky Coal Field, Alex Fogle, KGS

Session 1b, Kentucky Water Resources Research Institute, University Of Kentucky

Kentucky Water Resources Annual Symposium

• A Nutrient Monitoring Project for the Pennyroyal Ecoregion of Kentucky, Justin Smith, Center for Water Resource Studies, WKU
• Feature Correction Tools Developed for Rural Water District Map Correction, Karla Andrew, Center for Water Resource Studies, WKU
• Bridging the Gap into the Water Industry, Christal Wade, Center for Water Resource Studies, WKU
• Deployment of Sensor Networks for Monitoring Water Quality Using Rule-Based Expert Systems in GIS, Paige Davenport and others, Center for Water Resource Studies, WKU

Session 1a, Kentucky Water Resources Research Institute, University Of Kentucky

Kentucky Water Resources Annual Symposium

• The Western Deeps – 3D Graphic Models of Deep Aquifers in the Western Coal Field, Andrew Kellie, Dept Industrial & Engineering Technology, Murray State University
• Locating Karst Conduits in Cane Run Watershed of Central Kentucky Using Electrical Resistivity Methods, Junfeng Zhu and others, KGS
• New Groundwater Resources Map for Kentucky, Bart Davidson and Alex Fogle, KGS
• Impact of Rainfall Amount, Intensity, and Time Lag on Leaching Behavior of a Surface-Applied Bromide Tracer, Ole Wendroth and others, Dept. of Plant and Soil Sciences, UK

Plenary Session, Kentucky Water Resources Research Institute, University Of Kentucky

Kentucky Water Resources Annual Symposium

• Evaluating the Impact of Hemlock Woolly Adelgid Invasion on Headwater Streams, Joshua Adkins and Lynne Reiske-Kinney, Dept of Entomology, UK
• Effects of Roundup^® Exposure on Behavior and Reproductive Function in a Pond-Breeding Salamander, Catherine Aubee and Howard Whiteman, Dept of Biological Sciences, Murray State University

Proceedings Of 2010 Kentucky Water Resources Annual Symposium, Kentucky Water Resources Research Institute, University Of Kentucky

Kentucky Water Resources Annual Symposium

This conference was planned and conducted as part of the state water resources research annual program with the support and collaboration of the Department of the Interior, U.S. Geological Survey and the University of Kentucky Research Foundation, under Grant Agreement Number 06HQGR0087.

The views and conclusions contained in this document and presented at the symposium are those of the abstract authors and presenters and should not be interpreted as necessarily representing the official policies, either expressed or implied, of the U.S. Government or other symposium organizers and sponsors.

Effects Of Uvb-Induced Oxidative Stress On Protein Expression And Specific Protein Oxidation In Normal Human Epithelial Keratinocytes: A Proteomic Approach, Marzia Perluigi, Fabio Di Domenico, Carla Blarzino, Cesira Foppoli, Chiara Cini, Alessandra Giorgi, Caterina Grillo, Federico De Marco, D. Allan Butterfield, Maria E. Schininà, Raffaella Coccia

Chemistry Faculty Publications

BACKGROUND: The UVB component of solar ultraviolet irradiation is one of the major risk factors for the development of skin cancer in humans. UVB exposure elicits an increased generation of reactive oxygen species (ROS), which are responsible for oxidative damage to proteins, DNA, RNA and lipids. In order to examine the biological impact of UVB irradiation on skin cells, we used a parallel proteomics approach to analyze the protein expression profile and to identify oxidatively modified proteins in normal human epithelial keratinocytes.

RESULTS: The expression levels of fifteen proteins - involved in maintaining the cytoskeleton integrity, removal of damaged proteins …

Kentucky River Watershed Watch: A Summary Of Volunteer Water Quality Sampling Efforts In The Kentucky River Basin From 1999 To 2009, Malissa Mcalister, Madhu Akasapu, Ben Albritton, Lindell Ormsbee, Dan Carey

Kentucky River Watershed Watch

No abstract provided.

Photo Highlights Of The 30th Kentucky Alfalfa Conference, Kentucky Alfalfa Conference

Kentucky Alfalfa and Stored Forage Conference

No abstract provided.