Digital Commons Network^™

Early Detection Of Risk Factor For Suicidal Ideation Among Senior High School Students In Jakarta: Updated Measurement, Nova R. Yusuf, Sabarinah Prasetyo, Byron J. Good

Kesmas

The key strategy to address suicide in adolescents is school-based suicidal prevention by adapting a screening instrument to the local culture and policymakers’ perception of suicide. This study aimed to develop an instrument for the early detection of risk for suicidal ideation and identify influential risk factors for suicidal ideation among high school students in Jakarta, Indonesia. This study was conducted in 2018 with a mixed-method design (quantitative and qualitative approaches). It was found that 5% of students had suicidal ideation in July–November 2018, and 13.8% had a high-risk factor for suicidal ideation. The instrument developed in this study consisted …

Assessment Of Free Drinking Water Facilities And Its Potential Health Risks: A Study In The University X, Indah Actry Zane Lumbantobing, Bambang Wispriyono, Fitri Kurniasari, Sifa Fauzia, Muhammad Nur Ihsan Ayyasy, Alissa Siti Haura, Ghina Labibah, Muhammad Abiyyu Akmal, Kirana Mahadewi Heryadi, Firda Alfianti, Nuranida Fauziyah

Kesmas

University X offers free drinking water facilities. However, it has a significant problem in accessing safe drinking water. This study aimed to examine the microbial and chemical parameters of the free drinking water facilities at University X. The microbial quality was assessed by evaluating the total coliform bacteria, and the chemical parameter assessment, substances such as nitrate, iron, manganese, hexavalent chromium, and fluoride were analyzed across 12 water samples from various locations within the university. Among these, only total coliform and fluoride levels exceeded the guidelines of the World Health Organization (WHO) and the Indonesian Ministry of Health. An Environmental …

Social Determinants Of Neonatal Health Outcomes In Indonesia: A Multilevel Regression Analysis, Rooswanti Soeharno, Amal Chalik Sjaaf

Kesmas

Indonesia’s neonatal mortality rate remains alarmingly high. This study addressed the determinants of neonatal outcomes in Indonesia, including the effects of a decentralized health system, socioeconomic disparities, and geographic variations. The analysis used 2018 national survey data across 34 provinces, 513 cities/districts, and 300,000 households, with a sample of 73,864 women aged 10-54 years who have given birth in the preceding five years. The multilevel regression was used to assess the impact of social determinants and systemic inequalities on neonatal health. Key findings revealed a neonatal mortality rate that, despite being preventable in many cases, remained high with significant disparities. …

Human Capital Assessment In Indigenous Regions To Enable Sustainable Futures, Victoria N. Sharakhmatova, Elena G. Mikhailova

Faculty Publications

This study is dedicated to the economic valuation of human capital (HC) in the regions where the Indigenous peoples of Kamchatka reside. The entire Kamchatksky Krai is considered an Indigenous people’s ancestral territory. However, in this study, only municipalities whose population is more than one-third Indigenous were chosen for the assessment. This includes six municipal districts and one urban district (Aleytsky, Bystrinsky, Karaginsky, Olyutorsky, Penzhinsky, and Tigilsky municipal districts and Palana urban district). The study employs statistical analysis and integrated, situational approaches: the investment approach was deemed the most appropriate tool for the economic assessment of HC in Indigenous territories. …

Id1 And Id3 Functions In The Modulation Of The Tumour Immune Microenvironment In Adult Patients With B-Cell Acute Lymphoblastic Leukaemia, Nathaly Poveda-Garavito, Carlos A. Orozco Castaño, Yulieth Torres-Llanos, Nataly Cruz-Rodriguez, Rafael Parra-Medina, Sandra Quijano, Jovanny Zabaleta, Alba Lucia Combita

School of Medicine Faculty Publications

Introduction: B-cell acute lymphoblastic leukemia (B-ALL) in adults often presents a poor prognosis. ID1 and ID3 genes have been identified as predictors of poor response in Colombian adult B-ALL patients, contributing to cancer development. In various cancer models, these genes have been associated with immune regulatory populations within the tumor immune microenvironment (TIME). B-ALL progression alters immune cell composition and the bone marrow (BM) microenvironment, impacting disease progression and therapy response. This study investigates the relationship between ID1 and ID3 expression, TIME dynamics, and immune evasion mechanisms in adult B-ALL patients. Methods: This exploratory study analysed BM samples from 10 …

An Assessment Of The Impact Of Fentanyl On Post-Mortem Interval From A Decomposition And Biochemical Perspective, Kaylene Mcdonald

Senior Honors Theses

In the realm of body decomposition, bodies undergo a plethora of different metabolic and chemical changes. The human body follows a very consistent pattern and predictable time frame, with the exclusion of extenuating circumstances. The presence of fentanyl at the time of death provides the possibility of changes in decomposition rates, potentially skewing the time of death estimations. This research analyzes the varying decompositional stages of a body and their subsequent close relations with activity in the environment around it, specifically investigating the impacts of fentanyl on those surroundings and postmortem interval estimation determinations. This research found evidence that fentanyl …

Legacy Effects Of Plant Community Structure Are Manifested In Microbial Biofilm Development With Consequences For Ecosystem Co Emissions, Kevin H. Wyatt, Jillian Cieslik, Catherine M. Dieleman, Evan Kane, Allison R. Rober, Barrett Sullivan, Merritt R. Turetsky

Michigan Tech Publications

To better understand linkages between hydrology and ecosystem carbon flux in northern aquatic ecosystems, we evaluated the relationship between plant communities, biofilm development, and carbon dioxide (CO) exchange following long-term changes in hydrology in an Alaskan fen. We quantified seasonal variation in biofilm composition and CO exchange in response to lowered and raised water table position (relative to a control) during years with varying levels of background dissolved organic carbon (DOC). We then used nutrient-diffusing substrates (NDS) to evaluate cause-effect relationships between changes in plant subsidies (i.e., leachates) and biofilm composition among water table treatments. We found that background DOC …

An Evaluation Of A Multidisciplinary Care Planning Tool For People With Intellectual Disabilities And Behaviours Of Concern, Rohit Shankar

Peninsula Medical School

No abstract provided.

A Tetramer Of Bcl11a Is Required For Stable Protein Production And Fetal Hemoglobin Silencing, Ge Zheng, Maolu Yin, Stuti Mehta, I-Te Chu, Stacy Wang, Alia Alshaye, Kirstin Drainville, Altantsetseg Buyanbat, Frédérique Bienfait, Karin Tenglin, Qian Zhu, Stuart H Orkin

Faculty, Staff and Students Publications

Down-regulation of BCL11A protein reverses the fetal (HbF, α2γ2) to adult (HbA, α2β2) hemoglobin switch and is exploited in gene-based therapy for hemoglobin disorders. Due to reliance on ex vivo cell manipulation and marrow transplant, such therapies cannot lessen disease burden. To develop novel small molecule approaches, we interrogated the state of BCL11A protein in erythroid cells. We report that tetramer formation mediated by a single zinc-finger (ZnF0) is required for production of steady-state protein. Beyond its role in protein stability, the tetramer state is necessary for γ-globin gene repression, as an engineered monomer fails to engage a critical corepressor …

Alpina

Appalachia

No abstract provided.

Alone With Wolves: Gudrun Pflueger Believes That A Buried Instinct To Handle Predators Saved Her In A Wilderness Meadow, Christine Woodside

Appalachia

No abstract provided.

The Significance Of Cannibalism, Panic, And Sanctuary In The Interactions Between Prey And Predator With A Stage Structure, Ahmed Sami Abdulghafour, Raid Kamel Naji

Iraqi Journal for Computer Science and Mathematics

This paper analyzes a novel prey-predator model that takes into account the predator's stage structure, cannibalism within the predator population, panicky behavior, and the existence of a sanctuary where the prey might hide from the predator. The Holling type II functional response is used in the predation process. The behavior of the identified fixed points of the proposed system has been closely analyzed. The analysis focuses on the local stability and potential bifurcations that could happen close to the system's fixed points. The Lyapunov function approach is used to investigate the fixed-point stability zone globally. Numerical simulations were run to …

Soil Biogeography And Community Assembly In Polar Regions, Jesse Jorna

Theses and Dissertations

The polar regions provide community ecologists with natural microcosms, that include reduced species diversity, steep environmental gradients and limited human perturbance. Soil biodiversity in the polar regions is poorly understood, and the driving forces behind community compositions can range in scale from glacial forces 20,000 years ago to the impact of a researcher's footstep. Here, we present the results of an investigation of the driving factors behind biodiversity in Arctic and Antarctic soils, with specific attention to the role of community assembly processes. We suggest a framework for investigating the effects of inter-bacterial community processes like facilitation and argue for …

Strprofiler: Efficient Comparisons Of Short Tandem Repeat Profiles For Biomedical Model Authentication., Jared M Andrews, Michael W Lloyd, Steven Neuhauser, Margaret Bundy, Emily L Jocoy, Susan Airhart, Carol J Bult, Yvonne A Evrard, Jeffrey Chuang, Suzanne Baker

Faculty Research 2024

SUMMARY: Short tandem repeat (STR) profiling is commonly performed for authentication of biomedical models of human origin, yet no tools exist to easily compare sets of STR profiles to each other or an existing database in a high-throughput manner. Here, we present STRprofiler, a Python package, command line tool, and Shiny application providing methods for STR profile comparison and cross-contamination detection. STRprofiler can be run with custom databases or used to query against the Cellosaurus cell line database.

AVAILABILITY AND IMPLEMENTATION: STRprofiler is freely available as a Python package with a rich CLI from PyPI https://pypi.org/project/strprofiler/ with source code available …

Hypertonic Saline Induces Host Protective Immune Responses Against, Tran Xuan Ngoc Huy, Trang Thi Nguyen, Said Abdi Salad, Ched Nicole Turbela Aguilar, Alisha Wehdnesday Bernardo Reyes, Lauren Togonon Arayan, Wongi Min, Hu Jang Lee, Huynh Tan Hop, Suk Kim

Faculty Research 2024

Hypertonic saline (HTS) resuscitation can enhance immune responses against various pathogens, however, the effect of HTS on brucellosis is yet to be defined. In this study, we found that HTS inhibited Brucella infection in mice by augmenting Th1 immunity. HTS treatment enhanced the serum cytokines production and the expression of nitric oxide synthase (NOS2) and nuclear factor kappa B (NF-ĸB) p50 and p65, crucial anti-Brucella effectors in splenocytes. In addition, HTS treatment also inhibited the phosphorylation of MAPK signaling, accompanied by the down-regulation of the autophagy marker LC3B-II. Due to directing an appropriate immune response, HTS treatment substantially decreased bacterial …

Multi-Scale Thermal Mapping Of Submarine Groundwater Discharge In Coastal Ecosystems Of A Volcanic Area, Ebony L. Williams, Christopher B. Kratt, Raymond S. Rodolfo, Mark R. Lapus, Ryan R. Lardizabal, Aya S. Bangun, Amber T. Nguyen, Scott W. Tyler, M. Bayani Cardenas

Environmental Science Faculty Publications

Submarine groundwater discharge (SGD) in volcanic areas commonly exhibits high temperatures, concentrations of metals and CO2, and acidity, all of which could affect sensitive coastal ecosystems. Identifying and quantifying volcanic SGD is crucial yet challenging because the SGD might be both discrete, through fractured volcanic rock, and diffuse. At a volcanic area in the Philippines, the novel combination of satellite and drone-based thermal infrared remote sensing, ground-based fiber-optic distributed temperature sensing, and in situ thermal profiling in coastal sediment identified the multi-scale nature of SGD and quantified fluxes. We identified SGD across ∼30 km of coastline. The different approaches revealed …

The Dual Timescales Of Gait Adaptation: Initial Stability Adjustments Followed By Subsequent Energetic Cost Adjustments, Sasha A. Brinkerhoff, Natalia Sánchez, Meral N. Culver, William M. Murrah, Austin T. Robinson, J. Danielle Mccullough, Matthew W. Miller, Jaimie A. Roper

Physical Therapy Faculty Articles and Research

Gait adaptation during bipedal walking allows people to adjust their walking patterns to maintain balance, avoid obstacles and avoid injury. Adaptation involves complex processes that function to maintain stability and reduce energy expenditure. However, the processes that influence walking patterns during different points in the adaptation period remain to be investigated. We assessed split-belt adaptation in 17 young adults aged 19–35. We also assessed individual aerobic capacity to understand how aerobic capacity influences adaptation. We analyzed step lengths, step length asymmetry (SLA), mediolateral margins of stability, positive, negative and net mechanical work rates, as well as metabolic rate during adaptation. …

Association Of Acute Rejection And De Novo Renal Cell Carcinoma In Kidney Transplant Patients: An Optn Data Analysis, Molly Casey, Emmalie Yanacek, Hitesh Kaul, John Knorr, Kamran Khanmoradi, Afshin Parsikia, Nikolaos Chandolias, Kevin Zarrabi, Radi Zaki

Einstein Health Papers

Background: Kidney Transplant Recipients (KTRs) are at risk of renal cell carcinoma (RCC). The risk of RCC in KTRs is approximated to be 5–10 times higher compared with the general population. A relation between kidney rejection and renal malignancy has been described and relates to the effect of immunosuppression at the genomic level. We decided to investigate any suggestive clinical evidence of this in the OPTN database. Methods: KTRs with de novo RCC between July 2004 and June 2022 were identified. Demographics, baseline characteristics, virology, and immunology data were compared between patients with and without RCC. Our follow-up period was …

Effective Nutrient Management Of Surface Waters In The United States Requires Expanded Water Quality Monitoring In Agriculturally Intensive Areas, Christopher Oates, Hactor Fajardo, Khara Grieger, Daniel Obenaur, Rebecca Muenich, Natalie G. Nelson

Biological and Agricultural Engineering Faculty Publications and Presentations

The U.S. Clean Water Act is believed to have driven widespread decreases in pollutants from point sources and developed areas, but has not substantially affected nutrient pollution from agriculture. Today, the highest nutrient concentrations in surface waters are often associated with agricultural production. In this Perspective, we explore whether challenges stemming from the Clean Water Act’s inability to mitigate agricultural nutrient pollution are also exacerbated by coarse nutrient monitoring. We evaluate the current state of nutrient monitoring in surface waters of the contiguous U.S. relative to agricultural nutrient inputs to assess how monitoring effort varies across agriculturally intensive areas. The …

Complement Immune System In Pulmonary Hypertension-Cooperating Roles Of Circadian Rhythmicity In Complement-Mediated Vascular Pathology, Hunter Devaughn, Haydn E Rich, Anthony Shadid, Priyanka K Vaidya, Marie-Francoise Doursout, Pooja Shivshankar

The Brown Foundation: Institute of Molecular Medicine

Originally discovered in the 1890s, the complement system has traditionally been viewed as a "compliment" to the body's innate and adaptive immune response. However, emerging data have shown that the complement system is a much more complex mechanism within the body involved in regulating inflammation, gene transcription, attraction of macrophages, and many more processes. Sustained complement activation contributes to autoimmunity and chronic inflammation. Pulmonary hypertension is a disease with a poor prognosis and an average life expectancy of 2-3 years that leads to vascular remodeling of the pulmonary arteries; the pulmonary arteries are essential to host homeostasis, as they divert …

Author Spotlight, Li-Fang Yang, Joseph W. Sampson, Xiao-Hang Sun, Hai-Qiang Deng, He Zhang, Md Maksudur Rahman, Yang Tao, Hang Ren

Journal of Electrochemistry

No abstract provided.

Preface To Special Issue On Single-Entity Electroanalysis, Fei Li, Yi-Lun Ying, Yi-Ge Zhou

Journal of Electrochemistry

No abstract provided.

Single-Entity Collisional Electrochemistry At The Micro- And/Or Nano-Interface Between Two Immiscible Electrolyte Solutions, Li-Fang Yang, Jun-Jie Chen, Ling-Yu Chen, Si-Qi Jin, Tao-Xiong Fang, Si-Jia He, Liang-Jun Shen, Xin-Jian Huang, Xiao-Hang Sun, Hai-Qiang Deng

Journal of Electrochemistry

Single-entity collisional electrochemistry (SECE) is a branch of single-entity electrochemistry. It can directly characterize entities/particles with single particle resolution through random collisions between particles and electrodes in a solution, and obtain rich physicochemical information, thus becoming one of the frontiers of electroanalytical chemistry in the past two decades. Interestingly, the (micro/nanoscale) sensing electrodes have evolved from a polarizable liquid/ liquid (mercury/liquid) interface to a solid/liquid interface and then to a liquid/liquid interface (i.e., an interface between two immiscible electrolyte solutions, ITIES), as if they have completed a cycle (but in fact they have not). ITIES has become the latest sensing …

Precision Delivery Using Nanopipette For Single-Cell Studies, He Zhang, Maksudur Rahman, Yang Tao, Joseph W Sampson, Hang Ren

Journal of Electrochemistry

Nanopipette based scanning probe technique is a versatile tool in non-contact imaging in biology. In addition to the topographic imaging, its capability of localized delivery of bio-active molecules is emerging. In this mini review, we introduce the applications of nanopipette in single-cell researches with a focus on localized delivery. The working principles of three delivery modes including resistive pulse, pressure-driven flow, and electroosmotic flow-driven delivery are summarized and compared. Their applications in single-cell researches are reviewed. The current technical challenges in scanning ion conductance microscopy-based delivery, and their growing influence in medicine and pharmacologic researches are also discussed.

Focal Deletions Of A Promoter Tether Activate The Irx3 Oncogene In T-Cell Acute Lymphoblastic Leukemia, Sunniyat Rahman, Gianna Bloye, Nadine Farah, Jonas Demeulemeester, Joana R Costa, David O'Connor, Rachael Pocock, Tanya Rapoz-D'Silva, Adam Turna, Lingyi Wang, Soowah Lee, Adele K Fielding, Juliette Roels, Roman Jaksik, Małgorzata Dawidowska, Pieter Van Vlierberghe, Suzana Hadjur, Jim R Hughes, James O J Davies, Alejandro Gutierrez, Michelle A Kelliher, Peter Van Loo, Mark A Dawson, Marc R Mansour

Faculty, Staff and Student Publications

Oncogenes can be activated in cis through multiple mechanisms including enhancer hijacking events and noncoding mutations that create enhancers or promoters de novo. These paradigms have helped parse somatic variation of noncoding cancer genomes, thereby providing a rationale to identify noncanonical mechanisms of gene activation. Here we describe a novel mechanism of oncogene activation whereby focal copy number loss of an intronic element within the FTO gene leads to aberrant expression of IRX3, an oncogene in T-cell acute lymphoblastic leukemia (T-ALL). Loss of this CTCF-bound element downstream to IRX3 (+224 kb) leads to enhancer hijack of an upstream developmentally active …

The Pharmacogenomic And Immune Landscape Of Snornas In Human Cancers, Runhao Wang, Chengxuan Chen, Yuan Liu, Mei Luo, Jingwen Yang, Yamei Chen, Lifei Ma, Liuqing Yang, Chunru Lin, Lixia Diao, Leng Han

Faculty, Staff and Student Publications

Small nucleolar RNAs (snoRNAs) are a class of non-coding RNAs primarily known for their role in the chemical modification of other RNAs. Recent studies suggested that snoRNAs may play a broader role in anti-cancer treatments such as targeted therapies and immunotherapies. Despite these insights, the comprehensive landscape of snoRNA associations with drug response and immunotherapy outcomes remains unexplored. In this study, we identified 79,448 and 75,185 associations between snoRNAs and drug response using data from VAEN and CancerRxTissue, respectively. Additionally, we discovered 29,199 associations between snoRNAs and immune checkpoint genes and 47,194 associations between snoRNAs and immune cell infiltrations. Sixteen …

Blood Matters: The Hematological Signatures Of Coronavirus Infection, Ayelen Toro, Ana P Arévalo, Marianoel Pereira-Gómez, Agustina Sabater, Eric A Zizzi, Paula Perbolianachis, Gaston Pascual, Sofia Lage-Vickers, Jorge L Pórfido, Ines Achinelli, Rocio Seniuk, Juan Bizzotto, Pablo Sanchis, Alvaro Olivera, Alejandro Leyva, Pilar Moreno, Alicia Costábile, Alvaro Fajardo, Federico Carrión, Martín Fló, Natalia Olivero-Deibe, Fernando Rodriguez, Nicolas Nin, Nicolas Anselmino, Estefania Labanca, Elba Vazquez, Javier Cotignola, Daniel F Alonso, Maria P Valacco, Marcelo Marti, Francesco Gentile, Artem Cherkasov, Martina Crispo, Gonzalo Moratorio, Geraldine Gueron

Faculty, Staff and Student Publications

Recent developments have broadened our perception of SARS-CoV-2, indicating its capability to affect the body systemically beyond its initial recognition as a mere respiratory pathogen. However, the pathways of its widespread are not well understood. Employing a dual-modality approach, we integrated findings from a Murine Hepatitis Virus (MHV) infection model with corroborative clinical data to investigate the pervasive reach of Coronaviruses. The novel presence of viral particles within red blood cells (RBCs) was demonstrated via high-resolution transmission electron microscopy, with computational modeling elucidating a potential heme-mediated viral entry mechanism via Spike protein affinity. Our data affirm viral localization in RBCs, …

The Laboratory Opossum (Monodelphis Domestica) Is A Unique Model For Research On Zika Virus: Robust Immune Response, Widespread Dissemination, And Long-Term Persistence, André Filipe Pastor, Susan M. Mahaney, Juan Garcia Jr., Marisol Morales, Oscar Quintanilla, Marco Arriaga, John M. Thomas, John L. Vandeberg

School of Medicine Publications

The Zika virus (ZIKV) epidemic elicited a rapid commitment to the development of animal models for ZIKV research. Non-human primates (NHPs) and mice have made significant contributions to this research, but NHPs are expensive, have a long gestation period, and are available only in small numbers; non-genetically modified mice are resistant to infection. To address these deficiencies, we have established the laboratory opossum, Monodelphis domestica, as a small animal model that complements the mouse and monkey models. We developed and validated an indirect ELISA for measuring antibodies to ZIKV in opossums, as well as an immunohistochemistry (IHC) method to detect …

Strategies To Enhance Diagnostic Capabilities For The New Drug-Resistant Tuberculosis (Dr-Tb) Drugs, Antonia Morita Iswari Saktiawati, Anca Vasiliu, Francesca Saluzzo, Onno W Akkerman

Faculty, Staff and Students Publications

The global burden of drug-resistant tuberculosis (DR-TB) continues to challenge healthcare systems worldwide. There is a critical need to tackle DR-TB by enhancing diagnostics and drug susceptibility testing (DST) capabilities, particularly for emerging DR-TB drugs. This endeavor is crucial to optimize the efficacy of new therapeutic regimens and prevent the resistance and overuse of these invaluable weapons. Despite this urgency, there remains a lack of comprehensive review of public health measures aimed at improving the diagnostics and DST capabilities. In this review, we outline strategies to enhance the capabilities, especially tailored to address the challenges posed by resistance to new …

Host Dna Depletion On Frozen Human Respiratory Samples Enables Successful Metagenomic Sequencing For Microbiome Studies, Minsik Kim, Raymond C Parrish, Michael J Tisza, Viral S Shah, Thi Tran, Matthew Ross, Juwan Cormier, Aribah Baig, Ching-Ying Huang, Laura Brenner, Isabel Neuringer, Katrine Whiteson, J Kirk Harris, Amy D Willis, Peggy S Lai

Faculty, Staff and Students Publications

Most respiratory microbiome studies use amplicon sequencing due to high host DNA. Metagenomics sequencing offers finer taxonomic resolution, phage assessment, and functional characterization. We evaluated five host DNA depletion methods on frozen nasal swabs from healthy adults, sputum from people with cystic fibrosis (pwCF), and bronchoalveolar lavage (BAL) from critically ill patients. Median sequencing depth was 76.4 million reads per sample. Untreated nasal, sputum, and BAL had 94.1%, 99.2%, and 99.7% host reads, respectively. Host depletion effects varied by sample type, generally increasing microbial reads, species and functional richness; this was mediated by higher effective sequencing depth. Rarefaction curves showed …