Physical Sciences and Mathematics Commons^™

How Low Can You Go? Feature Selection For Drug Discovery, Derek Jones, Sally R. Ellingson, W. A. De Jong

Commonwealth Computational Summit

The cost of bringing a drug to market depends on how quickly a candidate drug can be “discovered” and evaluated to ensure safety and effectiveness. In this work we develop a method for predicting whether a given drug and protein compound will “bind.” Our aim is to select a set of features to predict drug-protein interactions.

This study focuses on kinases. Kinase inhibitors are the largest class of new cancer therapies. Selective inhibition is difficult due to high sequence similarity, leading to off-target interactions and side-effects. Pictured here human c-SRC.

Structure-Based Drug Discovery: Computational Virtual Screening, Robert C. Monsen, Lynn Deleeuw, Jon Maguire, William L. Dean, Robert D. Gray, Jonathan B. Chaires, John O. Trent

Commonwealth Computational Summit

No abstract provided.

How Useful Is Gsv As An Environmental Observation Tool? An Analysis Of The Evidence So Far., Katherine Nesse, Leah Airt

SPU Works

Researchers in many disciplines have turned to Google Street View to replace pedestrian- or carbased in-person observation of streetscapes. It is most prevalent within the research literature on the relationship between neighborhood environments and public health but has been used as diverse as disaster recovery, ecology and wildlife habitat, and urban design. Evaluations of the tool have found that the results of GSV-based observation are similar to the results from in-person observation although the similarity depends on the type of characteristic being observed. Larger, permanent and discrete features showed more consistency between the two methods and smaller, transient and judgmental …

Healthcare It In Skilled Nursing And Post-Acute Care Facilities: Reducing Hospital Admissions And Re-Admissions, Improving Reimbursement And Improving Clinical Operations, Scott L. Hopes

USF Tampa Graduate Theses and Dissertations

Health information technology (HIT), which includes electronic health record (EHR) systems and clinical data analytics, has become a major component of all health care delivery and care management. The adoption of HIT by physicians, hospitals, post-acute care organizations, pharmacies and other health care providers has been accepted as a necessary (and recently, a government required) step toward improved quality, care coordination and reduced costs: “Better coordination of care provides a path to improving communication, improving quality of care, and reducing unnecessary emergency room use and hospital readmissions. LTPAC providers play a critical role in achieving these goals” (HealthIT.gov, 2013).

Though …

Synthesis, In Vitro Characterization And Applications Of Novel 8-Aminoquinoline Fluorescent Probes, Adonis Mcqueen

USF Tampa Graduate Theses and Dissertations

Malaria is a parasitic disease that is caused by the plasmodium parasite. Plasmodium infection has affected man for thousands of years. With advances in drug discovery over the past century, malaria has evolved to possess resistance to most mainline therapeutics. This war of drug discovery vs plasmodium evolution continues to be fought to this very day, with attempts to eradicate malaria worldwide. Frontline treatments such as chloroquine, artemisinin, and atovaquone/proguanil have all seen parasitic resistance in strains of P. vivax as well as P. falciparum. While plasmodium possesses resistance to most classes of anti-malarials, the 8-aminoquinoline (8-AQ) class has …

The Santa Clara, 2017-10-12, Santa Clara University

The Santa Clara

No abstract provided.

In Place: October 11, 2017, Place

PLACE Historical Documents

In PLACE is a newsletter designed to keep the Linfield College community apprised of information related to PLACE activities, as well as ways to bring the program into classes. Included in this issue:

• A Message to Faculty
• Spotlight On: Jonathan Rauch & Cheryl Harris
• Upcoming Events
• PLACE in the News
• Last Week in PLACE

Persistent Organic Pollutants And Mortality In The United States, Nhanes 1999-2011., Kristiann Fry, Melinda C Power

Epidemiology Faculty Publications

Background

Persistent organic pollutants (POPs) are environmentally and biologically persistent chemicals that include polybrominated diphenyl ethers (PBDEs), per- and polyfluoroalkyl substances (PFASs), polychlorinated biphenyls (PCBs), and organochlorine (OC) pesticides. Currently, data on the associations between exposure to POPs and the risk of mortality in the U.S. population is limited.

Our objective was to determine if higher exposure to POPs is associated with greater risk of all-cause, cancer, heart/cerebrovascular disease, or other-cause mortality.

Methods

Analyses included participants aged 60 years and older from the 1999–2006 National Health and Nutrition Examination Surveys (NHANES). We included 483 participants for analyses of PBDEs, 1043 …

The Dynamics Of An Epidemiological Model For Human Papillomavirus With Partial Vaccination In A Heterogeneous Population, Stefano Chiaradonna

Annual Symposium on Biomathematics and Ecology Education and Research

No abstract provided.

Dftd Age Structure And Vaccination Modeling, Christopher D. Bruno

Annual Symposium on Biomathematics and Ecology Education and Research

No abstract provided.

Drawbacks Of Utilizing The Logit Link In Propensity Score Weighting Adjustment, Evrim Oral

Annual Symposium on Biomathematics and Ecology Education and Research

No abstract provided.

The Kinetics Of Type I Interferons During Influenza A Virus Infection, Margaret A. Myers

Annual Symposium on Biomathematics and Ecology Education and Research

No abstract provided.

Handguns And Hotspots: Spatio- Temporal Models For Gun Violence In Chicago,Il, Shelby Scott

Annual Symposium on Biomathematics and Ecology Education and Research

No abstract provided.

Neglected Tools In Tropical Diseases: Lessons From Modeling Leishmaniasis, West Nile Virus, And Ebola, Anuj Mubayi

Annual Symposium on Biomathematics and Ecology Education and Research

No abstract provided.

The Role Of Intermittent Preventive Treatment For Malaria In Saving Lives And Promoting Drug Resistance, Carrie Manore

Annual Symposium on Biomathematics and Ecology Education and Research

No abstract provided.

A Stochastic Epidemiological Model Of The Response Of American Chestnut Populations To Fungal Blight, Kelsey Lieberman, Rebecca Rouleau, Anita Davelos Baines, Martin Allen

Annual Symposium on Biomathematics and Ecology Education and Research

No abstract provided.

Mathematical Medicine: Modeling Disease And Treatment, Lisette Depillis

Annual Symposium on Biomathematics and Ecology Education and Research

No abstract provided.

The Santa Clara, 2017-10-05, Santa Clara University

The Santa Clara

No abstract provided.

A Mathematical Analysis Of Drug Dissolution In The Usp Flow Through Apparatus, David Mcdonnell, Deirdre M. D'Arcy, Lawrence J. Crane, Brendan Redmond

Articles

This paper applies boundary layer theory to the process of drug dissolution in the USP (United States Pharmacopeia) Flow Through Apparatus. The mass transfer rate from the vertical planar surface of a compact within the device is examined. The theoretical results obtained are then compared with those of experiment. The paper also examines the effect on the dissolution process caused by the interaction between natural and forced convection within the apparatus and the introduction of additional boundaries.

Picture This: Using Photo-Research Exhibits As Science Outreach, Eden J.V. Hennessey, Mindi D. Foster, Shohini Ghose

Psychology Faculty Publications

Is a picture worth a thousand words? This paper discusses a unique science outreach initiative–provocative photo-research exhibits on sexism in science.

Gender imbalance in science, technology, engineering, and math (STEM) is not only a concern from a social justice perspective, but also has negative consequences for scientific innovation and the economy, given that lack of workplace gender diversity is associated with lower revenue and returns. Science outreach (i.e., public outreach by scientists) could be particularly impactful in Waterloo, Ontario – a region known as ‘Canada’s Silicon Valley’ that contributes over $30-billion annually to the global economy. Portraying complex social issues …

Studying Human Behavior For Species Conservation, Hilary Byerly, Brendan Fisher

Rubenstein School of Environment and Natural Resources Faculty Publications

No abstract provided.

Bis-Cyclic Guanidine Compound Compositions, Methods Of Use And Treatment Thereof, Lindsey Neil Shaw, Renee Fleeman, Richard A. Houghten, Marc Giulianotti, Radleigh Santos, Adel Nefzi

Mathematics Faculty Proceedings, Presentations, Speeches, Lectures

The present disclosure provides compositions including a bis-cyclic guanidine compound, pharmaceutical compositions including a bis-cyclic guanidine compound, methods of treatment of a condition {e.g., bacterial infection) or disease, methods of treatment using compositions or pharmaceutical compositions, and the like.

Regional Review: Reaching New Heights In The Region Fall 2017 (Vol.4, No.1), Heather Garcia , Editor

Regional Campuses Publications

Sections include:

Save the date Chat with the Chancellor, Campus News, and Awesome Achievements for each of the three regional campuses.

Increased Birth Weight Is Associated With Altered Gene Expression In Neonatal Foreskin, Leryn J. Reynolds, Rebecca I. Pollack, Richard J. Charnigo, Cetewayo S. Rashid, Arnold J. Stromberg, Shu Shen, John O'Brien, Kevin J. Pearson

Pharmacology and Nutritional Sciences Faculty Publications

Elevated birth weight is linked to glucose intolerance and obesity health-related complications later in life. No studies have examined if infant birth weight is associated with gene expression markers of obesity and inflammation in a tissue that comes directly from the infant following birth. We evaluated the association between birth weight and gene expression on fetal programming of obesity. Foreskin samples were collected following circumcision, and gene expression analyzed comparing the 15% greatest birth weight infants (n = 7) v. the remainder of the cohort (n = 40). Multivariate linear regression models were fit to relate expression levels on differentially …

A Retinal Vessel Detection Approach Based On Shearlet Transform And Indeterminacy Filtering On Fundus Images, Florentin Smarandache, Yanhui Guo, Umit Budak, Abdulkadir Sengur

Branch Mathematics and Statistics Faculty and Staff Publications

A fundus image is an effective tool for ophthalmologists studying eye diseases. Retinal vessel detection is a significant task in the identification of retinal disease regions. This study presents a retinal vessel detection approach using shearlet transform and indeterminacy filtering. The fundus image’s green channel is mapped in the neutrosophic domain via shearlet transform. The neutrosophic domain images are then filtered with an indeterminacy filter to reduce the indeterminacy information. A neural network classifier is employed to identify the pixels whose inputs are the features in neutrosophic images. The proposed approach is tested on two datasets, and a receiver operating …

Systems Biology Approach To Late-Onset Alzheimer's Disease Genome-Wide Association Study Identifies Novel Candidate Genes Validated Using Brain Expression Data And Caenorhabditis Elegans Experiments, Shubhabrata Mukherjee, Joshua C. Russell, Daniel T. Carr, Jeremy D. Burgess, Mariet Allen, Daniel J. Serie, Kevin L. Boehme, John S. K. Kauwe, Adam C. Naj, David W. Fardo, Dennis W. Dickson, Thomas J. Montine, Nilufer Ertekin-Taner, Matt R. Kaeberlein, Paul K. Crane

Biostatistics Faculty Publications

Introduction—We sought to determine whether a systems biology approach may identify novel late-onset Alzheimer's disease (LOAD) loci.

Methods—We performed gene-wide association analyses and integrated results with human protein-protein interaction data using network analyses. We performed functional validation on novel genes using a transgenic Caenorhabditis elegans Aβ proteotoxicity model and evaluated novel genes using brain expression data from people with LOAD and other neurodegenerative conditions.

Results—We identified 13 novel candidate LOAD genes outside chromosome 19. Of those, RNA interference knockdowns of the C. elegans orthologs of UBC, NDUFS3, EGR1, and ATP5H were associated with Aβ …

Graduate Studies Newsletter, Graduate Studies Office

Newsletters

Pg. 2 & 3 - Faculty Spotlight: Dr. Marisol Cortes Rincon

Pg. 5 - Important Dates and Deadlines

Pg. 6 - Graduate Student Orientation Recap

Pg. 7 - Thesis & Project Submission Process Guide

Pg. 8 - Graduate Student & Alumni Profiles

How I Learned To Communicate My Inner Life With Asperger’S: Ted Talk Annotated Resource List, Meghan Rice

Undergraduate Research Award

No abstract provided.

Santa Clara Magazine, Volume 58 Number 4, Fall 2017, Santa Clara University

Santa Clara Magazine

18 - TIME FOR A BIG SHIFT We work and save for decades. And then what? A behavioral finance expert writes about the tough transition many face. By Meir Statman. Illustrations by Hanna Barczyk.

22 - WHAT WE OWE At the very least: stories that capture the contour of a life. A Pulitzer Prize– winning reporter on tales of human strife and resilience. By Tatiana Sanchez ’10.

28 - THE MOST IMPORTANT Lawsuit on the Planet It was first filed against the Obama administration and draws on decades of government records. It seeks no monetary damages. But advocates and critics …

Healthcare Outcomes And Resource Utilization Associated With Neonatal Hypoglycemia: Analysis Of Data From The Hcup Kid’S Inpatient Database, Brook T. Alemu

Health Services Research Dissertations

Neonatal hypoglycemia is the most common metabolic abnormality in infants and is associated with neurological damage and death. The risk of developing hypoglycemia among infants born from diabetic mothers is even higher. Although much work has been performed addressing issues for treatment and care, research related to neonatal hypoglycemia has been focused on the clinical or individual level risk factors. Contextual risk factors such as hospital characteristics, neighborhood economic status, and regional variations were not considered in earlier studies. Additionally, although healthcare resources utilization of hypoglycemia has been adequately addressed in the adult population, this topic has not been studied …