Life Sciences Commons^™

Prognostic Molecular Biomarkers In Chordomas: A Systematic Review And Identification Of Clinically Usable Biomarker Panels, Franco Rubino, Christopher Alvarez-Breckenridge, Kadir Akdemir, Anthony P Conley, Andrew J Bishop, Alexander J Lazar, Franco Demonte, Shaan M Raza

Faculty, Staff and Student Publications

INTRODUCTION AND OBJECTIVE: Despite the improvements in management and treatment of chordomas over time, the risk of disease recurrence remains high. Consequently, there is a push to develop effective systemic therapeutics for newly diagnosed and recurrent disease. In order to tailor treatment for individual chordoma patients and develop effective surveillance strategies, suitable clinical biomarkers need to be identified. The objective of this study was to systematically review all prognostic biomarkers for chordomas reported to date in order to classify them according to localization, study design and statistical analysis.

METHODS: Using the Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) …

Identifying Candidate Genes And Drug Targets For Alzheimer’S Disease By An Integrative Network Approach Using Genetic And Brain Region-Specific Proteomic Data, Nitesh Enduru, Peilin Jia, Zhongming Zhao

Faculty, Staff and Student Publications

Genome-wide association studies (GWAS) have identified more than 75 genetic variants associated with Alzheimer's disease (ad). However, how these variants function and impact protein expression in brain regions remain elusive. Large-scale proteomic datasets of ad postmortem brain tissues have become available recently. In this study, we used these datasets to investigate brain region-specific molecular pathways underlying ad pathogenesis and explore their potential drug targets. We applied our new network-based tool, Edge-Weighted Dense Module Search of GWAS (EW_dmGWAS), to integrate ad GWAS statistics of 472 868 individuals with proteomic profiles from two brain regions from two large-scale ad cohorts [parahippocampal gyrus …

Cascon 2022, College Of Arts & Sciences

SHU Faculty Publications

CASCon showcases the work of Sacred Heart University faculty from multiple disciplines. The conference emphasizes the interdisciplinary nature of faculty scholarship and reaffirms the College’s commitment to undergraduate research.

6th Annual College of Arts & Sciences Conference (CASCon) on Wednesday, September 28, 2022.

Lesion Environments Direct Transplanted Neural Progenitors Towards A Wound Repair Astroglial Phenotype In Mice., T M O'Shea, Y Ao, S Wang, A L Wollenberg, J H Kim, R A Ramos Espinoza, Anne M. Czechanski, Laura G. Reinholdt, T J Deming, M V Sofroniew

Faculty Research 2022

Neural progenitor cells (NPC) represent potential cell transplantation therapies for CNS injuries. To understand how lesion environments influence transplanted NPC fate in vivo, we derived NPC expressing a ribosomal protein-hemagglutinin tag (RiboTag) for transcriptional profiling of transplanted NPC. Here, we show that NPC grafted into uninjured mouse CNS generate cells that are transcriptionally similar to healthy astrocytes and oligodendrocyte lineages. In striking contrast, NPC transplanted into subacute CNS lesions after stroke or spinal cord injury in mice generate cells that share transcriptional, morphological and functional features with newly proliferated host astroglia that restrict inflammation and fibrosis and isolate lesions from …

Editorial: Function And Formation Of Mitochondrial Metalloproteome, Michał Wasilewski, Vishal M. Gohil, Oleh Khalimonchuk

Department of Biochemistry: Faculty Publications

No abstract provided.

Fund Behavioral Science Like The Frameworks We Endorse: The Case For Increased Funding Of Preliminary Studies By The National Institutes Of Health, Michael Beets, Christopher Pfledderer, Lauren Von Klinggraeff, Sarah Burkart, Bridget Armstrong

Faculty Publications

Innovative, groundbreaking science relies upon preliminary studies (aka pilot, feasibility, proof-of-concept). In the behavioral sciences, almost every large-scale intervention is supported by a series of one or more rigorously conducted preliminary studies. The importance of preliminary studies was established by the National Institutes of Health (NIH) in 2014/2015 in two translational science frameworks (NIH Stage and ORBIT models). These frameworks outline the essential role preliminary studies play in developing the next generation of evidence-based behavioral prevention and treatment interventions. Data produced from preliminary studies are essential to secure funding from the NIH’s most widely used grant mechanism for large-scale clinical …

Image Processing In Dense Forest Areas Using Unmanned Aerial System (Uas), Parth Bhatt, Curtis Edson, Ann Maclean

Michigan Tech Publications, Part 1

Description:

A detailed workflow using Structure from Motion (SfM) techniques for processing high-resolution Unmanned Aerial System (UAS) NIR and RGB imagery in a dense forest environment where obtaining control points is difficult due to limited access and safety issues.

Abstract:

Imagery collected via Unmanned Aerial System (UAS) platforms has become popular in recent years due to improvements in a Digital Single-Lens Reflex (DSLR) camera (centimeter and sub-centimeter), lower operation costs as compared to human piloted aircraft, and the ability to collect data over areas with limited ground access. Many different application (e.g., forestry, agriculture, geology, archaeology) are already using and …

Data Supporting A Saturation Mutagenesis Assay For Tat-Driven Transcription With The Gigaassay, Ronald Benjamin, Christopher J. Giacoletto, Zachary T. Fitzhugh, Danielle Eames, Lindsay Buczek, Xiaogang Wu, Jacklyn Newsome, Mira V. Han, Tony Pearson, Zhi Wei, Atoshi Banerjee, Lancer Brown, Liz J. Valente, Shirley Shen, Hong-Wen Deng, Martin R. Schiller

Life Sciences Faculty Research

The data in this article are associated with the research paper “GigaAssay – an adaptable high-throughput saturation mutagenesis assay". The raw data are sequence reads of HIV-1 Tat cDNA amplified from cellular genomic DNA in a new single-pot saturation mutagenesis assay designated the “GigaAssay”. A bioinformatic pipeline and parameters used to analyze the data. Raw, processed, analyzed, and filtered data are reported. The data is processed to calculate the Tat-driven transcription activity for cells with each possible single amino acid substitution in Tat. This data can be reused to interpret Tat intermolecular interactions and HIV latency. This is one of …

Effects Of Early‑Life Experience On Innovation And Problem‑Solving In Captive Coyotes, Andrew C. Garcia, Mitchell A. Parsons, Julie K. Young

United States Department of Agriculture Wildlife Services: Staff Publications

Early-life experience often shapes behaviors like innovation and exploration. These behaviors are important to animals encountering novel food resources in diverse habitats, such as mesocarnivores in urban areas. To understand if early-life experiences impact later-life behavior, we examined how coyotes (Canis latrans) responded to a multi-access puzzle box at two life stages: pup (~ 7 weeks) and dispersal (~ 10 months). We first exposed pups, still living with their parents and littermates, to a baited puzzle box. At dispersal age, we again tested both these pups and an age-matched control group that was not exposed to the puzzle …

The Storm In World Fertilizer Markets Continues, John C. Beghin

Cornhusker Economics

This article updates the recent article on world fertilizer markets by Beghin and Nogueira (2021), which noted the perfect storm affecting global fertilizer markets through high demand, droughts affecting fertilizer supply, high fossil energy prices, COVID 19-related supply-chain disruptions, and trade policies, all conspiring to elevate fertilizer nominal prices to levels not seen since 2008. In the last 10 months, the Ukraine-Russia war and associated trade sanctions have exacerbated the disruptions in fossil energy, grain, vegetable oil, and fertilizer markets already present in 2021. On the more hopeful side, some United States trade policy developments will help reduce US fertilizer …

Mapping Natural Genetic Variants Associated With Nutrient Response, Kenneth Wilson

Natural Sciences and Mathematics | Biological Sciences Master's Theses

Phenotypic responses to dietary intake affect every individual, yet individuals consuming similar diets frequently display a myriad of different responses. As diet-related disorders are abundant in humans, understanding the means by which an individual’s genetics dictate these physiological responses is essential. Furthermore, dietary restriction has been shown to dramatically increase the length of lifespan in Drosophila melanogaster, but the exact genetic mechanisms governing this response are still not fully understood. In this study, I have used the Drosophila melanogaster Genetic Reference Panel (DGRP) to pinpoint specific quantitative trait loci associated with a number of diet-induced complex traits so as to …

Water Banking Can Help Great Salt Lake, Sarah E. Null

Watershed Sciences Faculty Publications

Utah’s Great Salt Lake is a treasured resource, yet dedicated flows have not been established to preserve the economic, ecological, and cultural values that the lake provides. Utah’s prior appropriation law allocates water rights based on time of first use, meaning agricultural water uses typically have senior rights. Utah’s Water Banking Act, which was adopted in 2020, presents an opportunity to reallocate some water to the environment within existing appropriative rights water law.

Under the act, water users can create local water banks to temporarily lease water. Leased water can be used for various purposes, including environmental or agricultural uses. …

Access To Online Formative Assessments In Lower-Division Undergraduate Biology Courses: Investigating Barriers To Student Engagement, Allison M. Upchurch, Dana L. Kirkwood-Watts, Kathleen R. Brazeal, Lorey A. Wheeler, Brian A. Couch, Gabrielle B. Johnson, Sarah K. Spier

School of Biological Sciences: Faculty Publications

Instructors use a variety of online formative assessment (FA) activities to support learning outside class. Previous studies have revealed barriers for students in online courses, but little is known about the barriers students experience when completing online FA assignments. Understanding these barriers to access is critical to fostering more inclusive learning for all students. Using a framework from previous work in online learning, we examined student perceptions of online FA access with respect to five barrier categories: technical resources, instructor organization, social interactions, personal engagement, and learning environment. We developed and administered a survey to more than 1,200 undergraduate biology …

The Ecology And Epidemiology Of Malaria Parasitism In Wild Chimpanzee Reservoirs, Erik J. Scully, Weimin Liu, Yingying Li, Jean-Bosco N. Ndjango, Martine Peeters, Shadrack Kamenya, Anne E. Pusey, Elizabeth V. Lonsdorf, Crickette M. Sanz, David B. Morgan, Alex K. Piel, Fiona A. Stewart, Mary K. Gonder, Nicole Simmons, Caroline Asiimwe, Klaus Zuberbuehler, Kathelijne Koops, Colin A. Chapman, Rebecca Chancellor, Aaron S. Rundus, Michael A. Huffman, Nathan D. Wolfe, Manoj T. Duraisingh, Beatrice H. Hahn, Richard W. Wrangham

Anthropology & Sociology Faculty Publications

Chimpanzees (Pan troglodytes) harbor rich assemblages of malaria parasites, including three species closely related to P. falciparum (sub-genus Laverania), the most malignant human malaria parasite. Here, we characterize the ecology and epidemiology of malaria infection in wild chimpanzee reservoirs. We used molecular assays to screen chimpanzee fecal samples, collected longitudinally and cross-sectionally from wild populations, for malaria parasite mitochondrial DNA. We found that chimpanzee malaria parasitism has an early age of onset and varies seasonally in prevalence. A subset of samples revealed Hepatocystis mitochondrial DNA, with phylogenetic analyses suggesting that Hepatocystis appears to cross species barriers more easily than Laverania. …

Recent Emergence Of Bovine Coronavirus Variants With Mutations In The Hemagglutinin-Esterase Receptor Binding Domain In U.S. Cattle, Aspen M. Workman, Tara G. Mcdaneld, Gregory P. Harhay, Subha Das, John Dustin Loy, Benjamin M. Hause

School of Veterinary and Biomedical Sciences: Faculty Publications

Bovine coronavirus (BCoV) has spilled over to many species, including humans, where the host range variant coronavirus OC43 is endemic. The balance of the opposing activities of the surface spike (S) and hemagglutinin-esterase (HE) glycoproteins controls BCoV avidity, which is critical for interspecies transmission and host adaptation. Here, 78 genomes were sequenced directly from clinical samples collected between 2013 and 2022 from cattle in 12 states, primarily in the Midwestern U.S. Relatively little genetic diversity was observed, with genomes having >98% nucleotide identity. Eleven isolates collected between 2020 and 2022 from four states (Nebraska, Colorado, California, and Wisconsin) contained a …

Eastern White Pine Management In Western North Carolina, Jim Phillips

UNH Cooperative Extension

No abstract provided.

Recent Emergence Of Bovine Coronavirus Variants With Mutations In The Hemagglutinin-Esterase Receptor Binding Domain In U.S. Cattle, Aspen M. Workman, Tara G. Mcdaneld, Gregory P. Harhay, Subha Das, John Dustin Loy, Benjamin M. Hause

School of Veterinary and Biomedical Sciences: Faculty Publications

Bovine coronavirus (BCoV) has spilled over to many species, including humans, where the host range variant coronavirus OC43 is endemic. The balance of the opposing activities of the surface spike (S) and hemagglutinin-esterase (HE) glycoproteins controls BCoV avidity, which is critical for interspecies transmission and host adaptation. Here, 78 genomes were sequenced directly from clinical samples collected between 2013 and 2022 from cattle in 12 states, primarily in the Midwestern U.S. Relatively little genetic diversity was observed, with genomes having >98% nucleotide identity. Eleven isolates collected between 2020 and 2022 from four states (Nebraska, Colorado, California, and Wisconsin) contained a …

Eastern White Pine In Wisconsin, Gregory Edge

UNH Cooperative Extension

No abstract provided.

Caliciopsis Canker And White Pine Needle Damage, Isabel Munck

UNH Cooperative Extension

No abstract provided.

Molecular Pathways Enhance Drug Response Prediction Using Transfer Learning From Cell Lines To Tumors And Patient-Derived Xenografts

Faculty, Staff and Student Publications

Computational models have been successful in predicting drug sensitivity in cancer cell line data, creating an opportunity to guide precision medicine. However, translating these models to tumors remains challenging. We propose a new transfer learning workflow that transfers drug sensitivity predicting models from large-scale cancer cell lines to both tumors and patient derived xenografts based on molecular pathways derived from genomic features. We further compute feature importance to identify pathways most important to drug response prediction. We obtained good performance on tumors (AUROC = 0.77) and patient derived xenografts from triple negative breast cancers (RMSE = 0.11). Using feature importance, …

Shallots In The Garden, Emmalee Rolfe, Dan Drost

All Current Publications

This fact sheet provides information about growing shallots, a cool-season vegetable that grows best in full sun and fertile, well-drained soil. The fact sheet offers reliable information about varieties, soil preparation, planting and spacing, fertilization, harvesting and storage, nutrition facts, and problems like weeds and insects and diseases that affect shallots.

Lamb's Lettuce In The Garden, Evan Christensen, Dan Drost

All Current Publications

This fact sheet provides information on lamb's lettuce, also known as mâche, corn salad, fetticus, and Nüssli salat. It is native to southern Europe and a cool-season vegetable grown for edible leaves that add a mild, nutty flavor to any salad. This fact sheet offers reliable information about recommended varieties, how to grow lamb's lettuce, harvesting and storage, nutrition facts, and problems such as weeds, pests, and diseases.

Developing The Egyptian Village As A Smart Village In Implementation Of The Sustainable Development Goals) Review Of The Executive Plan For The "Hayah Karima" Initiative – Egypt), Aliaa Elsaied Kamel Elmallah, Rasha El Saied Mohamed Mohamed

Mansoura Engineering Journal

There are about 80 percent of the world's poor living in rural areas, so villages should achieve the sustainable development goals (SDGs) through digital transformation, So the research problem is how does the concept of a smart village affect sustainable development and achieve quality of life, that improve the efficiency of resource use, local autonomy, access to facilities and responsibility to build a good society. The research assumes access to the sustainable development of the Egyptian village through the concept of the smart village. The research studied cases of Egyptian and international villages to monitor good practices for smart sustainable …

Updates On Insect Pests Of Eastern White Pine, William H. Livingston

UNH Cooperative Extension

No abstract provided.

Eastern White Pine Symposium: Management Trends, William H. Livingston

UNH Cooperative Extension

No abstract provided.

Eastern White Pine Past Present And Future, William H. Livingston

UNH Cooperative Extension

No abstract provided.

White Pine In New Hampshire, Karen P. Bennett, Steven S. Roberge

UNH Cooperative Extension

No abstract provided.

Drought And Eastern White Pine, Cameron Mcintire

UNH Cooperative Extension

No abstract provided.

Integration Of Mouse Ovary Morphogenesis With Developmental Dynamics Of The Oviduct, Ovarian Ligaments, And Rete Ovarii, Jennifer Mckey, Dilara N Anbarci, Corey Bunce, Alejandra E Ontiveros, Richard R Behringer

Faculty, Staff and Student Publications

Morphogenetic events during the development of the fetal ovary are crucial to the establishment of female fertility. However, the effects of structural rearrangements of the ovary and surrounding reproductive tissues on ovary morphogenesis remain largely uncharacterized. Using tissue clearing and lightsheet microscopy, we found that ovary folding correlated with regionalization into cortex and medulla. Relocation of the oviduct to the ventral aspect of the ovary led to ovary encapsulation, and mutual attachment of the ovary and oviduct to the cranial suspensory ligament likely triggered ovary folding. During this process, the rete ovarii (RO) elaborated into a convoluted tubular structure extending …

Impad1 And Syt11 Work In An Epistatic Pathway That Regulates Emt-Mediated Vesicular Trafficking To Drive Lung Cancer Invasion And Metastasis, Rakhee Bajaj, B Leticia Rodriguez, William K Russell, Amanda N Warner, Lixia Diao, Maria G Raso, Khaja Khan, Luisa S Solis, Harsh Batra, Ximing Tang, Jared F Fradette, Samrat T Kundu, Don L Gibbons

Faculty, Staff and Student Publications

Lung cancer is a highly aggressive and metastatic disease responsible for approximately 25% of all cancer-related deaths in the United States. Using high-throughput in vitro and in vivo screens, we have previously established Impad1 as a driver of lung cancer invasion and metastasis. Here we elucidate that Impad1 is a direct target of the epithelial microRNAs (miRNAs) miR-200 and miR∼96 and is de-repressed during epithelial-to-mesenchymal transition (EMT); thus, we establish a mode of regulation of the protein. Impad1 modulates Golgi apparatus morphology and vesicular trafficking through its interaction with a trafficking protein, Syt11. These changes in Golgi apparatus dynamics alter …