Digital Commons Network^™

Molar Macrowear Reveals Neanderthal Eco-Geographic Dietary Variation, Luca Fiorenza, Stefano Benazzi, Jeremy Tausch, Ottmar Kullmer, Timothy G. Bromage, Friedemann Schrenk

Publications and Research

Neanderthal diets are reported to be based mainly on the consumption of large and medium sized herbivores, while the exploitation of other food types including plants has also been demonstrated. Though some studies conclude that early Homo sapiens were active hunters, the analyses of faunal assemblages, stone tool technologies and stable isotopic studies indicate that they exploited broader dietary resources than Neanderthals. Whereas previous studies assume taxon-specific dietary specializations, we suggest here that the diet of both Neanderthals and early Homo sapiens is determined by ecological conditions. We analyzed molar wear patterns using occlusal fingerprint analysis derived from optical 3D …

Undergraduate Neuroscience Education In The U.S.: An Analysis Using Data From The National Center For Education Statistics, Raddy L. Ramos, Georgia J. Fokas, Ankur Bhambri, Phoebe T. Smith, Brian H. Hallas, Joshua C. Brumberg

Publications and Research

Despite an apparent increase in undergraduate neuroscience programs offered by colleges and universities, there has been little effort to document this growth. In the present report we describe our analysis of the expansion of undergraduate neuroscience programs of study over more than 20 years and detail a number of institutional characteristics of colleges and universities that offer undergraduate neuroscience programs. These data reveal more than 100 institutions with undergraduate neuroscience programs as well as over 2000 college graduates that majored in neuroscience in 2008–2009. Understanding the current number as well as growth trends of undergraduate neuroscience programs found in U.S. …

Clean Image Synthesis And Target Numerical Marching For Optical Imaging With Backscattering Light, Min Xu, Yang Pu, Wubao Wang

Publications and Research

Scanning backscattering imaging and independent component analysis (ICA) are used to probe targets hidden in the subsurface of a turbid medium. A new correction procedure is proposed and used to synthesize a “clean” image of a homogeneous host medium numerically from a set of raster-scanned “dirty” backscattering images of the medium with embedded targets. The independent intensity distributions on the surface of the medium corresponding to individual targets are then unmixed using ICA of the difference between the set of dirty images and the clean image. The target positions are localized by a novel analytical method, which marches the target …

Bmp-12 Treatment Of Adult Mesenchymal Stem Cells In Vitro Augments Tendon-Like Tissue Formation And Defect Repair In Vivo, Jonathan Y. Lee, Zuping Zhou, Peter J. Taub, Melissa Ramcharan, Yonghui Li, Takintope Akinbiyi, Edward R. Maharam, Daniel J. Leong, Damien M. Laudier, Takuya Ruike, Phillip J. Torina, Mone Zaidi, Robert Majeska, Mitchell B. Schaffler, Evan L. Flatow, Hui B. Sun

Publications and Research

We characterized the differentiation of rat bone marrow-derived mesenchymal stem cells (BM-MSCs) into tenocyte-like cells in response to bone morphogenetic protein-12 (BMP-12). BM-MSCs were prepared from Sprague-Dawley rats and cultured as monolayers. Recombinant BMP-12 treatment (10 ng/ml) of BM-MSCs for 12 hours in vitro markedly increased expression of the tenocyte lineage markers scleraxis (Scx) and tenomodulin (Tnmd) over 14 days. Treatment with BMP-12 for a further 12-hour period had no additional effect. Colony formation assays revealed that ∼80% of treated cells and their progeny were Scx- and Tnmd-positive. BM-MSCs seeded in collagen scaffolds and similarly treated with a single dose …

Screening For Otologic Functional Impairments In The Elderly: Whose Job Is It Anyway?, B.E. Weinstein

Publications and Research

Among the most prevalent of chronic conditions affecting older adults globally, hearing loss prevalence is increasing and its impact on society growing. Untreated hearing loss diminishes ones ability to communicate and its strong association with depression and cognitive decline adds further to the burden of hearing loss. Hearing health care is rarely included in the traditional medical exam for older adults, it is typically not considered a risk factor for cognitive decline or falls, and it is not a condition for which routine screening has been recommended by the U.S. Preventive Services Task Force. Yet in older adults, disability typically …

A Role For Amyloid In Cell Aggregation And Biofilm Formation, Melissa C. Garcia, Janis T. Lee, Caleen B. Ramsook, David Alsteens, Yves F. Dufrêne, Peter N. Lipke

Publications and Research

Cell adhesion molecules in Saccharomyces cerevisiae and Candida albicans contain amyloid-forming sequences that are highly conserved. We have now used site-specific mutagenesis and specific peptide perturbants to explore amyloid-dependent activity in the Candida albicans adhesin Als5p. A V326N substitution in the amyloid-forming region conserved secondary structure and ligand binding, but abrogated formation of amyloid fibrils in soluble Als5p and reduced cell surface thioflavin T fluorescence. When displayed on the cell surface, Als5p with this substitution prevented formation of adhesion nanodomains and formation of large cellular aggregates and model biofilms. In addition, amyloid nanodomains were regulated by exogenous peptides. An amyloid-forming …

Methamphetamine Induces Striatal Cell Death Followed By The Generation Of New Cells And A Second Round Of Cell Death In Mice, I. K. Tulloch, L Afanador, J Zhu, J. A. Angulo

Publications and Research

Our laboratory has been investigating the impact of a neurotoxic exposure to methamphetamine (METH) on cellular components of the striatum post-synaptic to the dopaminergic terminals. A systemic bolus injection of METH (30 mg/kg, ip) induces the production of new cells in the striatum during a period lasting from 24-48 hours after METH. The newly generated cells arise from dormant striatal progenitors and not from the subventricular zone. The newly generated cells display glial phenotypes and begin to die 24 hours after birth, or 2.5 days post-METH. The protracted phase of cell death lasts for at least three months post-METH at …

The Impact Of Bisphenol A And Triclosan On Immune Parameters In The U.S. Population, Nhanes 2003–2006, Erin M. Rees Clayton, Megan Todd, Jennifer B. Dowd, Allison E. Aiello

Publications and Research

Background: Exposure to environmental toxicants is associated with numerous disease outcomes, many of which involve underlying immune and inflammatory dysfunction.

Objectives: To address the gap between environmental exposures and immune dysfunction, we investigated the association of two endocrine-disrupting compounds (EDCs) with markers of immune function.

Methods: Using data from the 2003–2006 National Health and Nutrition Examination Survey, we compared urinary bisphenol A (BPA) and triclosan levels with serum cytomegalovirus (CMV) antibody levels and diagnosis of allergies or hay fever in U.S. adults and children ≥ 6 years of age. We used multivariate ordinary least squares linear regression models to examine …

Coupled Folding And Specific Binding: Fishing For Amphiphilicity, Vikas P. Jain, Raymond S. Tu

Publications and Research

Proteins are uniquely capable of identifying targets with unparalleled selectivity, but, in addition to the precision of the binding phenomenon, nature has the ability to find its targets exceptionally quickly. Transcription factors for instance can bind to a specific sequence of nucleic acids from a soup of similar, but not identical DNA strands, on a timescale of seconds. This is only possible with the enhanced kinetics provided for by a natively disordered structure, where protein folding and binding are cooperative processes. The secondary structures of many proteins are disordered under physiological conditions. Subsequently, the disordered structures fold into ordered structures …

Seropositivity To Cytomegalovirus, Inflammation, All-Cause And Cardiovascular Disease-Related Mortality In The United States, Amanda M. Simanek, Jennifer Beam Dowd, Graham Pawelec, David Melzer, Ambarish Dutta, Allison E. Aiello

Publications and Research

Background: Studies have suggested that CMV infection may influence cardiovascular disease (CVD) risk and mortality. However, there have been no large-scale examinations of these relationships among demographically diverse populations. The inflammatory marker C-reactive protein (CRP) is also linked with CVD outcomes and mortality and may play an important role in the pathway between CMV and mortality. We utilized a U.S. nationally representative study to examine whether CMV infection is associated with all-cause and CVD-related mortality. We also assessed whether CRP level mediated or modified these relationships.

Methodology/Principal Findings: Data come from subjects $25 years of age who were tested for …

Micropropagation And Medium-Term Conservation Of Rosa Pulverulenta, Somayeh Kavand, Maryam Jafarkhani Kermani, Ali Haghnazari, Pegah Khosravi, Mohamad Reza Azimi

Publications and Research

In Iran, a large number of Rosa species have been exposed to extinction and therefore preservation techniques are necessary to safeguard their future. In the present investigation, the objectives were to optimize the micropropagation and medium-term conservation of one of these wild species, Rosa pulverulenta. At proliferation stage, the maximum number of new leaves (9.6) were produced on the medium containing 4 µM BAP + 0 µM GA₃, whereas the maximum number of axillary shoots (4.1) were observed in the medium containing 4 µM BAP + 3 µM GA₃. The results for rooting experiments suggested …

Circular Single-Stranded Synthetic Dna Delivery Vectors For Microrna, Christine I. Seidl, Kevin Ryan

Publications and Research

Single-stranded (ss) circular oligodeoxynucleotides were previously found to undergo rolling circle transcription (RCT) by phage and bacterial RNA polymerases (RNAPs) into tandemly repetitive RNA multimers. Here, we redesign them to encode minimal primary miRNA mimics, with the long term aim of intracellular transcription followed by RNA processing and maturation via endogenous pathways. We describe an improved method for circularizing ss synthetic DNA for RCT by using a recently described thermostable RNA ligase, which does not require a splint oligonucleotide to juxtapose the ligating ends. In vitro transcription of four templates demonstrates that the secondary structure inherent in miRNA-encoding vectors does …

Linkage Disequilibrium Based Genotype Calling From Low-Coverage Shotgun Sequencing Reads, Jorge Duitama, Justin Kennedy, Sanjiv Dinakar, Yözen Hernández, Yufeng Wu, Ion I. Măndoiu

Publications and Research

Background Recent technology advances have enabled sequencing of individual genomes, promising to revolutionize biomedical research. However, deep sequencing remains more expensive than microarrays for performing whole-genome SNP genotyping. Results In this paper we introduce a new multi-locus statistical model and computationally efficient genotype calling algorithms that integrate shotgun sequencing data with linkage disequilibrium (LD) information extracted from reference population panels such as Hapmap or the 1000 genomes project. Experiments on publicly available 454, Illumina, and ABI SOLiD sequencing datasets suggest that integration of LD information results in genotype calling accuracy comparable to that of microarray platforms from sequencing data of …

Assessing Syndromic Surveillance Of Cardiovascular Outcomes From Emergency Department Chief Complaint Data In New York City, Robert W. Mathes, Kazuhiko Ito, Thomas Matte

Publications and Research

Background Prospective syndromic surveillance of emergency department visits has been used for near-real time tracking of communicable diseases to detect outbreaks or other unexpected disease clusters. The utility of syndromic surveillance for tracking cardiovascular events, which may be influenced by environmental factors and influenza, has not been evaluated. We developed and evaluated a method for tracking cardiovascular events using emergency department free-text chief complaints. Methodology/Principal Findings There were three phases to our analysis. First we applied text processing algorithms based on sensitivity, specificity, and positive predictive value to chief complaint data reported by 11 New York City emergency departments for …

Polycationic Glycosides, Robert Engel, Ishrat Ghani, Diego Montenegro, Marie Thomas, Barbara Klaritch-Vrana, Alejandra Castaño, Laura Friedman, Jay Leb, Leah Rothman, Heidi Lee, Craig Capodiferro, Daniel Ambinder, Eve Cere, Christopher Awad, Faiza Sheikh, Jaimelee Rizzo, Lisa-Marie Nisbett, Erika Testani, Karin Melkonian

Publications and Research

Cationic lipids have long been known to serve as antibacterial and antifungal agents. Prior efforts with attachment of cationic lipids to carbohydrate-based surfaces have suggested the possibility that carbohydrate-attached cationic lipids might serve as antibacterial and antifungal pharmaceutical agents. Toward the understanding of this possibility, we have synthesized several series of cationic lipids attached to a variety of glycosides with the intent of generating antimicrobial agents that would meet the requirement for serving as a pharmaceutical agent, specifically that the agent be effective at a very low concentration as well as being biodegradable within the organism being treated. The initial …

Cognitive Control In Majority Search: A Computational Modeling Approach, Hongbin Wang, Xun Liu, Jin Fan

Publications and Research

Despite the importance of cognitive control in many cognitive tasks involving uncertainty, the computational mechanisms of cognitive control in response to uncertainty remain unclear. In this study, we develop biologically realistic neural network models to investigate the instantiation of cognitive control in a majority function task, where one determines the category to which the majority of items in a group belong. Two models are constructed, both of which include the same set of modules representing task-relevant brain functions and share the same model structure. However, with a critical change of a model parameter setting, the two models implement two different …

High Prevalence Of Obesity Among Inner-City Adolescent Boys In The Bronx, New York: Forgetting Our Boys, Carmen R. Isasi, Amy Whiffen, Yolanda Florez, Katherine Freeman, Judith Wylie-Rosett, Eleanor Campbell

Publications and Research

We examined sex differences in overweight and obesity in a sample of 1,619 inner-city adolescents. Participants were enrolled from 11 public schools in the Bronx, New York. The prevalence of overweight and obesity was 21.7% and 22.5%, respectively; prevalence of obesity was significantly higher among adolescent boys than adolescent girls (24.9 vs 20.1%). Childhood obesity is a public health concern in the United States, and the higher prevalence of obesity in adolescent boys requires additional attention.

Cytomegalovirus Antibodies In Dried Blood Spots: A Minimally Invasive Method For Assessing Stress, Immune Function, And Aging, Jennifer B. Dowd, Allison E. Aiello, Laura Chyu, Yuan-Yen Huang, Thomas W. Mcdade

Publications and Research

Background Cytomegalovirus (CMV) is a prevalent herpesvirus with links to both stress and aging. This paper describes and validates a minimally invasive method for assessing antibodies against CMV in finger stick whole blood spot samples for use as an indirect marker of an aspect of cell-mediated immunity. Results Analysis of CMV in dried blood spot samples (DBS) was based on modifications of a commercially available protocol for quantifying CMV antibodies in serum or plasma. The method was evaluated through analysis of precision, reliability, linearity, and correlation between matched serum and DBS samples collected from 75 volunteers. Correlation between DBS and …

Reactome: A Database Of Reactions, Pathways And Biological Processes, David Croft, Gavin O’Kelly, Guanming Wu, Robin Haw, Marc Gillespie, Lisa Matthews, Michael Caudy, Phani Garapati, Gopal Gopinath, Bijay Jassal, Steven Jupe, Irina Kalatskaya, Shahana S. Mahajan, Bruce May, Nelson Ndegwa, Esther Schmidt, Veronica Shamovsky, Christina Yung, Ewan Birney, Henning Hermjakob, Peter D’Eustachio, Lincoln Stein

Publications and Research

Reactome (http://www.reactome.org) is a collaboration among groups at the Ontario Institute for Cancer Research, Cold Spring Harbor Laboratory, New York University School of Medicine and The European Bioinformatics Institute, to develop an open source curated bioinformatics database of human pathways and reactions. Recently, we developed a new web site with improved tools for pathway browsing and data analysis. The Pathway Browser is an Systems Biology Graphical Notation (SBGN)-based visualization system that supports zooming, scrolling and event highlighting. It exploits PSIQUIC web services to overlay our curated pathways with molecular interaction data from the Reactome Functional Interaction Network and external interaction …

Heparan Sulfate Proteoglycans Mediate Interstitial Flow Mechanotransduction Regulating Mmp-13 Expression And Cell Motility Via Fak-Erk In 3d Collagen, Zhong-Dong Shi, Hui Wang, John M. Tarbell

Publications and Research

Background Interstitial flow directly affects cells that reside in tissues and regulates tissue physiology and pathology by modulating important cellular processes including proliferation, differentiation, and migration. However, the structures that cells utilize to sense interstitial flow in a 3-dimensional (3D) environment have not yet been elucidated. Previously, we have shown that interstitial flow upregulates matrix metalloproteinase (MMP) expression in rat vascular smooth muscle cells (SMCs) and fibroblasts/myofibroblasts via activation of an ERK1/2-c-Jun pathway, which in turn promotes cell migration in collagen. Herein, we focused on uncovering the flow-induced mechanotransduction mechanism in 3D. Methodology/Principal Findings Cleavage of rat vascular SMC surface …

Connections Between Classical And Parametric Network Entropies, Matthias Dehmer, Abbe Mowshowitz, Frank Emmert-Streib

Publications and Research

This paper explores relationships between classical and parametric measures of graph (or network) complexity. Classical measures are based on vertex decompositions induced by equivalence relations. Parametric measures, on the other hand, are constructed by using information functions to assign probabilities to the vertices. The inequalities established in this paper relating classical and parametric measures lay a foundation for systematic classification of entropy-based measures of graph complexity.

Antibodies Elicited In Response To Ebna-1 May Cross- React With Dsdna, Pragya Yadav, Hoa Tran, Roland Ebegbe, Paul Gottlieb, Hui Wei, Rita H. Lewis, Alice Mumbey-Wafula, Atira Kaplan, Elina Kholdarova, Linda Spatz

Publications and Research

Background:Several genetic and environmental factors have been linked to Systemic Lupus Erythematosus (SLE). One environmental trigger that has a strong association with SLE is the Epstein Barr Virus (EBV). Our laboratory previously demonstrated that BALB/c mice expressing the complete EBNA-1 protein can develop antibodies to double stranded DNA (dsDNA). The present study was undertaken to understand why anti-dsDNA antibodies arise during the immune response to EBNA-1.

Methodology/Principal Findings: In this study, we demonstrated that mouse antibodies elicited in response to EBNA-1 cross-react with dsDNA. First, we showed that adsorption of sera reactive with EBNA-1 and dsDNA, on dsDNA cellulose …

Mtml-Msbayes: Approximate Bayesian Comparative Phylogeographic Inference From Multiple Taxa And Multiple Loci With Rate Heterogeneity, Wen Huang, Naoki Takebayashi, Yan Qi, Michael J. Hickerson

Publications and Research

Background MTML-msBayes uses hierarchical approximate Bayesian computation (HABC) under a coalescent model to infer temporal patterns of divergence and gene flow across codistributed taxon-pairs. Under a model of multiple codistributed taxa that diverge into taxon-pairs with subsequent gene flow or isolation, one can estimate hyper-parameters that quantify the mean and variability in divergence times or test models of migration and isolation. The software uses multi-locus DNA sequence data collected from multiple taxon-pairs and allows variation across taxa in demographic parameters as well as heterogeneity in DNA mutation rates across loci. The method also allows a flexible sampling scheme: different numbers …

Very Preterm Birth Is Reduced In Women Receiving An Integrated Behavioral Intervention: A Randomized Controlled Trial, Ayman El-Mohandes, Michele Kiely, Marie G. Gantz, M. Nabil El-Khorazaty

Publications and Research

Background This study examines whether an integrated behavioral intervention with proven efficacy in reducing psycho-behavioral risks (smoking, environmental tobacco smoke exposure (ETSE), depression, and intimate partner violence (IPV)) in African-Americans is associated with improved pregnancy outcomes

Methods A randomized controlled trial targeting risks during pregnancy was conducted in the District of Columbia. African-American women were recruited if reporting at least one of the risks mentioned above. Randomization to intervention or usual care was site and risk specific. Sociodemographic, health risk and pregnancy outcome data were collected. Data on 819 women, and their singleton live born infants were analyzed using an …

Religion, Feminism And Abortion: The Regulation Of Assisted Reproduction In Two Catholic Countries, Richard Storrow

Publications and Research

No abstract provided.

Improving Clinical Judgment In Lawyering With Multidisciplinary Knowledge About Brain Function And Human Behavior: What Should Law Students Learn About Human Behavior For Effective Lawyering?, Beryl Blaustone

Publications and Research

No abstract provided.

What The Mississippi Personhood Amendment Tells Us About "Life", Caitlin Borgmann

Publications and Research

No abstract provided.

Sustainability: Can Law Meet The Challenge?, Rebecca Bratspies

Publications and Research

No abstract provided.

Dr. Faith Liebl Works To Explain What Cells Do, Aldemaro Romero Jr.

Publications and Research

No abstract provided.

Science Fiction And Lyric Poetry, Seo-Young J. Chu

Publications and Research

This piece explores connections between science fiction and lyric poetry.