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Search Results: 1 - 10 of 223884 matches for " Tilton Susan C "
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Bioinformatics resource manager v2.3: an integrated software environment for systems biology with microRNA and cross-species analysis tools
Tilton Susan C,Tal Tamara L,Scroggins Sheena M,Franzosa Jill A
BMC Bioinformatics , 2012, DOI: 10.1186/1471-2105-13-311
Abstract: Background MicroRNAs (miRNAs) are noncoding RNAs that direct post-transcriptional regulation of protein coding genes. Recent studies have shown miRNAs are important for controlling many biological processes, including nervous system development, and are highly conserved across species. Given their importance, computational tools are necessary for analysis, interpretation and integration of high-throughput (HTP) miRNA data in an increasing number of model species. The Bioinformatics Resource Manager (BRM) v2.3 is a software environment for data management, mining, integration and functional annotation of HTP biological data. In this study, we report recent updates to BRM for miRNA data analysis and cross-species comparisons across datasets. Results BRM v2.3 has the capability to query predicted miRNA targets from multiple databases, retrieve potential regulatory miRNAs for known genes, integrate experimentally derived miRNA and mRNA datasets, perform ortholog mapping across species, and retrieve annotation and cross-reference identifiers for an expanded number of species. Here we use BRM to show that developmental exposure of zebrafish to 30 uM nicotine from 6–48 hours post fertilization (hpf) results in behavioral hyperactivity in larval zebrafish and alteration of putative miRNA gene targets in whole embryos at developmental stages that encompass early neurogenesis. We show typical workflows for using BRM to integrate experimental zebrafish miRNA and mRNA microarray datasets with example retrievals for zebrafish, including pathway annotation and mapping to human ortholog. Functional analysis of differentially regulated (p<0.05) gene targets in BRM indicates that nicotine exposure disrupts genes involved in neurogenesis, possibly through misregulation of nicotine-sensitive miRNAs. Conclusions BRM provides the ability to mine complex data for identification of candidate miRNAs or pathways that drive phenotypic outcome and, therefore, is a useful hypothesis generation tool for systems biology. The miRNA workflow in BRM allows for efficient processing of multiple miRNA and mRNA datasets in a single software environment with the added capability to interact with public data sources and visual analytic tools for HTP data analysis at a systems level. BRM is developed using Java and other open-source technologies for free distribution (http://www.sysbio.org/dataresources/brm.stm).
Electronic Structure Calculations Using the Thomas-Fermi Model
Gregory C. Dente,Michael L. Tilton
Physics , 2009,
Abstract: Using the Wentzel-Kramers-Brillouin method, we derive a modified form of the Thomas-Fermi approximation to electron density. This new result enables us to calculate the details of the self-consistent ion cores, as well as the ionization potentials for the first s-orbital bound to the closed-shell ion core of the Group III, IV and V elements. Next, we demonstrate a method for separating core electron densities from valence electron densities. When we calculate the valence kinetic energy density, we show that it separates into two terms: the first exactly cancels the potential energy of the ion core in the core region; the second represents the residual kinetic energy density resulting from the valence density alone. Furthermore, we show that the kinetic cancellation and the residual kinetic energy can be derived from a slowly varying envelope approximation for the valence orbitals in the core region. This kinetic cancellation in the core region and the residual valence kinetic energy term allow us to write a functional for the total valence energy dependant only on a low spatial frequency valence density. In the limit, when we can freeze the potential of the closed-shell ion cores, assuming that they are not greatly influenced by the readjustment of the valence electrons, we can minimize the total valence energy with respect to the valence density degrees of freedom. The variation of the valence total energy equation provides the starting point for a large number of atomic, molecular and solid-state electronic structure problems. Here, we use it to calculate the band structures resulting from the self-consistent valence density and potential on the zinc-blende and diamond lattices. We give band structure results for most of the Group III-V, as well as Group IV, materials.
A Network Integration Approach to Predict Conserved Regulators Related to Pathogenicity of Influenza and SARS-CoV Respiratory Viruses
Hugh D. Mitchell, Amie J. Eisfeld, Amy C. Sims, Jason E. McDermott, Melissa M. Matzke, Bobbi-Jo M. Webb-Robertson, Susan C. Tilton, Nicolas Tchitchek, Laurence Josset, Chengjun Li, Amy L. Ellis, Jean H. Chang, Robert A. Heegel, Maria L. Luna, Athena A. Schepmoes, Anil K. Shukla, Thomas O. Metz, Gabriele Neumann, Arndt G. Benecke, Richard D. Smith, Ralph S. Baric, Yoshihiro Kawaoka, Michael G. Katze, Katrina M. Waters
PLOS ONE , 2013, DOI: 10.1371/journal.pone.0069374
Abstract: Respiratory infections stemming from influenza viruses and the Severe Acute Respiratory Syndrome corona virus (SARS-CoV) represent a serious public health threat as emerging pandemics. Despite efforts to identify the critical interactions of these viruses with host machinery, the key regulatory events that lead to disease pathology remain poorly targeted with therapeutics. Here we implement an integrated network interrogation approach, in which proteome and transcriptome datasets from infection of both viruses in human lung epithelial cells are utilized to predict regulatory genes involved in the host response. We take advantage of a novel “crowd-based” approach to identify and combine ranking metrics that isolate genes/proteins likely related to the pathogenicity of SARS-CoV and influenza virus. Subsequently, a multivariate regression model is used to compare predicted lung epithelial regulatory influences with data derived from other respiratory virus infection models. We predicted a small set of regulatory factors with conserved behavior for consideration as important components of viral pathogenesis that might also serve as therapeutic targets for intervention. Our results demonstrate the utility of integrating diverse ‘omic datasets to predict and prioritize regulatory features conserved across multiple pathogen infection models.
Virtual polling data: A social network analysis on a student government election
Shane Tilton
Webology , 2008,
Abstract: This paper will look at the ability of online social networks to predict election outcomes of a connected society, in this case a university. Facebook represents a new phenomenon in networking within a university. These network constructs allow for communication to occur rapidly and can influence the opinion of the student body. It is the conglomeration of previous information and communication technologies (ICTs) wrapped up under a simple graphical user interface (GUI) that allows the student body to communicate quickly and has allowed online social networks to dominate collegiate culture. Collegiate culture exists in a duality of the real world and this new online social network. Student governance is reflected in both of these realms. Student governance is as close to political power as most students get within the confines of the university and just as complex as the network structure present in Facebook. Like Facebook, the students within the collegiate experience must successfully navigate within the internal network to survive and become leaders in the community. With these similarities, the research question that will framed the rest of the paper will be "could Facebook be used to estimate the results of a student election?" The research used a hierarchical linear matrix, which was developed for the work of Raudenbush & Bryk, to develop a model that could answer this question. The final analysis of the matrix showed it was able to predict what place the candidates came in 21 out of 27 times for all of the candidates in a given election. In terms of predicting the candidate's final percentage of votes received (within half the standard deviation of the Estimated Polling Percentage, which was .072722) during the election 12 out of 27 times for all of the candidates in a given election.
Impact of Adaptive Quizzing as a Practice and Remediation Strategy to Prepare for the NCLEX-RN  [PDF]
Susan Malkemes, Julia C. Phelan
Open Journal of Nursing (OJN) , 2017, DOI: 10.4236/ojn.2017.711093

National Council Licensure Examination-Registered Nurse (NCLEX-RN) outcomes are extremely important to nursing institutions and students for myriad reasons. For students, the NCLEX-RN represents one of the final milestones to conquer before entering a nursing career. Nursing programs monitor NCLEX-RN pass rates as an important gauge of program quality and minimum levels frequently must be met. This study explored the implementation of an adaptive quizzing and learning system as part of an NCLEX-RN preparation strategy designed to increase student engagement and subsequent success on the NCLEX-RN. The adaptive quizzing system was used as part of an ongoing, proactive strategy to student preparation. This strategy is in contrast to the practice of using high-stakes exams scores to try and predict student NCLEX-RN outcomes. In the latter case there is mixed evidence on how scores relate to remediation and moving students toward success based on evidence of need. The study school required students (N = 54) to take regular, adaptive practice quizzes throughout their final year in the nursing program. Students were also given the HESI E2 in their final semester and all but one student achieved the target threshold with a range of scores (772 to 1028). Despite this variability, 90.7% of the students in the study group passed the NCLEX-RN on their first attempt, with a pass rate of 98% when considering those who passed on the second attempt. NCLEX-RN pass rates at the study school increased by 11.55% following the implementation of the system and in the second year of implementation (the data analyzed for this study) increased an additional 3.95% from the previous year. With many factors to consider, we cannot say, unequivocally, that using the AQS resulted in an increase in NCLEX-RN pass rates at the study school. Findings from this retrospective study do, however, support the use of an adaptive quizzing system as a component of the NCLEX-RN preparation strategy. Implications of these findings are discussed.

Enhanced Archaeological Predictive Modelling in Space Archaeology
Li Chen,Carey E. Priebe,Daniel L. Sussman,Douglas C. Comer,Will P. Megarry,James C. Tilton
Statistics , 2013,
Abstract: Identifying and preserving archaeological sites before they are destroyed is a very important issue. In this paper, we develop a greatly improved archaeological predictive model $APM_{enhanced}$ that predicts where archaeological sites will be found. This approach is applied to remotely-sensed multispectral bands and a single topographical band obtained from advanced remote sensing technologies such as satellites and Airborne Laser Scanning (ALS). Our $APM_{enhanced}$ is composed of band transformation, image analysis, feature extraction and classification. We evaluate our methodology on the sensor bands over Ft.Irwin, CA, USA. A nested bi-loop cross-validation and receiver operating characteristics curves are used to assess the performance of our algorithm. We first validate our method on the east swath of Ft.Irwin and then test on a separate dataset from the west swath of Ft.Irwin. A convex combination of two methodologies: $APM_{conventional}$, which has been used among archaeologists for many years, and our $APM_{enhanced}$, is demonstrated to yield superior classification performance compared to either alone at low false negative rates. We compare the performance of our methodology on different band combinations, chosen based on the archaeological importance for these sensor bands. We also compare the two types of $APM$s in the aspects of input data, output values, practicality and transferability.
Experiments in Housing Vespine Colonies, With Notes on the Homing and Toleration Instincts of Certain Species
Albro Tilton Gaul
Psyche , 1941, DOI: 10.1155/1941/48582
International Journal of Education Policy and Leadership , 2009,
Abstract: In this experimental study, a national random sample of high school principals (stratified by gender) were asked to evaluate hypothetical applicants whose resumes varied by religion (Jewish, Catholic, nondenominational) and gender (male, female) for employment as assistant principals. Results reveal that male principals rate all applicants higher than female principals and that the gender and religion of applicants failed to negatively or positively affect principals’ evaluations. These results suggest that discrimination based on an applicant’s gender and religion failed to be manifested during the pre-interview stage of the selection process. The paper concludes with a theoretical discussion of the distinction between explicit and implicit prejudice, and encourages future researchers to investigate the potential impact of prejudice on employment selection decisions and to consider whether schools should promote diversity in leadership positions.
Updated List of Taxa for Vascular Plants of the Gypsum Hills and Redbed Plains Area of Southwestern Oklahoma
Susan C. Barber
Oklahoma Native Plant Record , 2008,
Abstract: The following is a list of vascular plants of the redbed plains and gypsum areas of southwestern Oklahoma based on specimens collected by the author and deposited in the Oklahoma State Herbarium and the Bebb Herbarium of the University of Oklahoma. In addition, 26 taxa collected by previous workers and four observed, but not collected, are included and so indicated. Each taxon is listed alphabetically within its family and families are listed in order according to the Engler-Prantl classification scheme. Nomenclature originally followed that of Correll and Johnston (1970) and Waterfall (1969), but has been updated by Bruce Hoagland of the Oklahoma Biological Survey according to the National Plant Data Center, Baton Rouge, LA accessed January 2009.
A Floristic Study of the Vascular Plants of the Gypsum Hills and Redbed Plains Area of Southwestern Oklahoma
Susan C. Barber
Oklahoma Native Plant Record , 2008,
Abstract: The vascular floras of gypsum and redbed soils in southwestern Oklahoma were collected and studied during the growing season (April-October) of 1975. A total of 359 taxa and 230 genera and 63 families were included in the study. Thirteen taxa are considered to be gypsophiles and indicators of gypsum soils in Oklahoma. Nine taxa are considered calicoles occurring only on gypsum and limestone derived soils. Two introduced species, Bromus catharticus Vahl (syn. = Bromus willdenowii) and Caesalpinia gilliesii, are believed to be new additions to Oklahoma’s flora.
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