Life Sciences Commons^™

Prepregnancy Diet Quality Index And Adverse Pregnancy Outcomes, Ummayhany Bharmal, George Saade, Philip Greenland, Brenda J. Smith, Andrea C. Kozai, Stephanie A. Fisher, Lauren Theilen, William Grobman, Noel Bairey Merz, Uma Reddy, Tetsuya Kawakita

Department of Obstetrics & Gynecology Faculty Publications

Introduction

Adverse pregnancy outcomes (APOs) are a major cause of maternal and neonatal morbidity.¹ Preconception diet quality is associated with APO risk,² but prior pregnancy-related indices had notable limitations.³ We developed the Prepregnancy Dietary Quality Index (PreP-DQI) to assess its association with APOs and cardiometabolic health.

Methods

This cohort study used data from the Nulliparous Pregnancy Outcomes Study: Monitoring Mothers-to-Be (NuMoM2b) and the NuMoM2b-Heart Health Study (NuMoM2b-HHS),⁴,⁵ excluding individuals who delivered before 23 weeks of gestation, had fetal anomalies, missing dietary data, or had implausible caloric intake (below 1st percentile or above 99th percentile). All participants in the original studies …

Coexistence Between Ci And Feminization Inducing Symbionts: A Theoretical Perspective, Dylan Thorp

University of Kentucky Master's Theses

Endosymbiotic bacteria that manipulate the reproduction of their host are abundant in arthropods. Theoretical efforts to model these bacteria have seldom included symbionts that feminize their hosts, and those that do have assumed an environmental sex determination system. Here, I expand upon other theoretical works to model the dynamics of a host population with an XX/X0 sex determination system that contains separate CI and feminization inducing symbionts. I found that coexistence cannot occur without double infection, consistent with previous models. However, I also found that without double infection, the presence of the feminizing symbiont can facilitate the spread of the …

17Β Estradiol Protection Against Medium-Change Neurotoxicity In Organotypic Hippocampal Slice Cultures, Autumn B. Stage

University of Kentucky Master's Theses

Medium change neurotoxicity can disrupt glutamate homeostasis and promote excitotoxic neuronal injury through excessive NMDA receptor activation. 17β estradiol (E2) has demonstrated neuroprotective effects in models of neuronal injury and may regulate glutamatergic signaling through metabotropic glutamate receptors (mGluR2/3). This study investigated whether E2 protects against medium change associated neurotoxicity in organotypic hippocampal slice cultures whether responses differed by sex or hippocampal region. Hippocampal slices from postnatal day 8 male and female Sprague Dawley rats were maintained in culture and exposed to 1, 10, or 100 nM E2 for 24 hours following a five day recovery period. Propidium iodide (PI) …

Healthcare Provider Perspectives On A Clinical Decision Tool To Support Individualized Exercise Prescriptions And Discussions For Breast Cancer Survivors, Jinani Jayasekera, Oliver W. A. Wilson, Kaitlyn M. Wojcik, Eleanor M. Kerr, Rachelle Brick, David Berrigan, Jennifer Yeong-Shin Sheng, Takeo Fujii, Kathleen Thomas, Henri K. Parson, Padma Sheila Rajagopal, Richard L. Street Jr.

Department of Medicine Faculty Publications

Purpose: We evaluated healthcare providers' current knowledge, practices, and perspectives on a novel clinical decision tool (beta-version) to facilitate individualized exercise prescriptions and discussions in clinical settings.

Methods: We recruited healthcare providers who had treated or provided care to breast cancer survivors aged >= 35-years in the past 12 months. The participants were presented with a tool to provide individualized exercise recommendations considering women's individual, clinical, and contextual characteristics. Validated and reliable pre-existing instruments were used to survey providers' current knowledge, practices regarding exercise discussions, and perspectives on the beta-version (paper-draft) of the novel tool.

Results: The sample consisted of …

Selenium And Liver Steatosis And Fibrosis: Opposing Direct And Steatosis-Mediated Associations In A Large Cohort, Neda Rehan, Jubilee Benedict, Rehan Qayyum

Department of Medicine Faculty Publications

Background and Aims

Epidemiologic studies have reported conflicting associations between selenium exposure and liver disease. Whether selenium exerts opposing direct and steatosis-mediated effects on liver fibrosis is unknown. To evaluate the associations of blood selenium with elastography-defined hepatic steatosis and fibrosis and to determine whether hepatic steatosis mediates the relationship between selenium and fibrosis.

Methods

We conducted a cross-sectional analysis of adults aged >= 18 years in NHANES 2017-2023. Hepatic steatosis was assessed using the controlled attenuation parameter (CAP) and fibrosis using liver stiffness measurement (LSM). Blood selenium was categorized into quartiles. Survey-weighted multivariable linear regression and structural equation modeling …

Educational Case: Hidradenitis Suppurativa, Ryan C. Saal, Linnea Lackstrom Westerkam, Cristo A. Carrasco Mendoza, Paul B. George, Christopher J. Sayed

Department of Medicine Faculty Publications

[Introduction] The following fictional case is intended as a learning tool within the Pathology Competencies for Medical Education (PCME), a set of national standards for teaching pathology. These are divided into three basic competencies: Disease Mechanisms and Processes, Organ System Pathology, and Diagnostic Medicine and Therapeutic Pathology. For additional information, and a full list of learning objectives for all three competencies, see https://doi.org/10.1016/j.acpath.2023.100086.1¹

Objective SK1.1: Pathophysiology of changes in the skin. Describe the pathophysiologic basis for changes in the color, surface texture, swelling, temperature, and sensitivity of skin.

Competency 2: Organ system pathology, Topic: Skin (SK); Learning Goal 1: …

Drug-Induced Lichen Planus Associated With Ocrelizumab, Avery Seward, John D. Strickley, Jeffrey P. Callen

Department of Medicine Faculty Publications

This case report highlights recurrent cutaneous lichen planus as a rare adverse effect of ocrelizumab, with flares occurring after each infusion and improving with prophylactic prednisone. Recognizing this association may help clinicians diagnose and manage similar cases while allowing patients to continue an otherwise effective therapy.

Element-Based Predictive Modeling Of Hydrothermal Liquefaction Bioproducts Derived From Corn Stover, Isamu Umeda, Meicen Liu, Yi Zheng, Jiefu Wang, Zhiwu Wang, Sandeep Kumar

Civil & Environmental Engineering Faculty Publications

The hydrothermal liquefaction (HTL) process offers an energetic advantage over pyrolysis because it does not require prior drying of the biomass feedstock. However, there are significant challenges in simultaneously estimating both the yields and characteristics of products from the HTL of biomass with theoretical support. This study developed a unique element-based kinetic model to predict the yields, higher heating values, and fuel characteristics of solid residue and heavy bio-oil, based on the temperature, residence time, solid loading, and elemental composition (C, H, N, and O) of corn stover. Furthermore, the model predicted the weights of dissolved carbon and nitrogen in …

Harnessing Activated Sludge For The Treatment Of Hydrothermal Liquefaction Wastewater: A Proof-Of-Concept Study, Cyrus Li, Jiefu Wang, Meicen Liu, Yi Zheng, Sandeep Kumar, Isamu Umeda, Chandan Mahata, John Norton

Civil & Environmental Engineering Faculty Publications

Although hydrothermal liquefaction (HTL) is the leading technology in converting wet biomass into bioenergy, the treatment of its toxic-laden aqueous phase wastewater presents a major challenge on its path toward commercial viability. This study presents the first-ever assessment of sewage sludge-fed HTL wastewater (SS-HTLWW) treatment and toxic compound removal using municipal activated sludge (AS) by optimizing its cultivation condition. It was found that AS with optimized pretreatment can remove up to 91.2% of the soluble chemical oxygen demand (sCOD) in SS-HTLWW, of which up to 82% can be attributed to biological mineralization and adsorption of sCOD by AS. Conventional bioprocess …

Eeg And Imu Gait Signal Processing: A Comparative Assessment Of The "Reza" Exponential Filter And Classic Filters, Reza Pousti, Daniel M. Russell, Derek C. Monroe, Christopher K. Rhea

Rehabilitation Sciences Faculty Publications

Noise degrades both EEG and gait signals, and classical IIR filters (Butterworth, Chebyshev, elliptic) involve trade-offs between passband flatness, ripple, and roll-off. This study compared a novel exponential "Reza" filter with these designs for neural and locomotor data. We analyzed an open-source mobile brain-body imaging dataset with EEG and gait data from 49 healthy adults (EEG: 256-channel, 512 Hz; IMUs: six APDM Opals, 128 Hz). EEG channels were grand-averaged and band-pass filtered at 0.5-50 Hz, while IMU axes were averaged and band-pass filtered at 0.5-5 Hz. The outcomes were signal-to-noise ratio SNR (dB) and band-integrated Welch PSD (EEG:0.5-50 Hz; IMU:0.5-5 …

The Sequence (S) Index As A Marker Of Diminished Step-To-Step Transition Efficiency In Older Adults, Elham Alijanpour, Ashwini Kulkarni, Peter G. Adamczyk, Daniel M. Russell

Rehabilitation Sciences Faculty Publications

Introduction: Age-related declines in walking efficiency are often attributed to musculoskeletal and neuromuscular changes, yet the mechanisms underlying these inefficiencies remain poorly understood. One key contributor is the step-to-step transition (STST), during which the center of mass (CoM) is redirected between limbs. The Sequence (S) index quantifies the temporal overlap between push-off and collision forces during STST, with higher values indicating greater mechanical energy loss. This study investigated whether aging affects STST efficiency, as quantified by the S index, and examined the timing and impulse characteristics underlying observed differences.

Methods: Thirteen young and eleven older healthy adults walked at five …

Ultrasound-Based Assessment Of Talar Cartilage In Individuals With Chronic Ankle Instability: A Systematic Review, Amin Mohammadi, Saeed Eshghi, Iman Mohammadi, Patrick Wilson, Ryan Mccann

Rehabilitation Sciences Faculty Publications

Purpose

To systematically synthesize ultrasound (US) evidence on talar cartilage morphology and load-induced deformation in individuals with chronic ankle instability (CAI), and to map methodological approaches (acquisition, outcome definitions, loading paradigms, and normalization) to inform protocol standardization.

Methods

PubMed, Web of Science, and EBSCO were searched (March 31, 2025). Eligible studies reported quantitative US-derived talar cartilage morphology (e.g., thickness, cross-sectional area [CSA]) and/or deformation following standardized loading in CAI and comparison groups. Due to heterogeneity in imaging protocols, loading tasks, and outcome definitions, findings were synthesized narratively and organized by outcome domain.

Results

Across available cohorts, load-induced deformation was the …

Nonlinear Differences In Postural Sway Across Attentional Focus Conditions In Individuals With And Without Anterior Cruciate Ligament Reconstruction, Natalie L. Ferguson, Brian L. Cone, Christopher K. Rhea, Anne Beethe, Breanna Studenka

Rehabilitation Sciences Faculty Publications

BACKGROUND: The structure of variability in postural sway reflects the adaptability and health of the postural control system. Entropy quantifies this structure by measuring the regularity of repeated fluctuations over time. Although entropy has been used to examine sway in neurological populations, little is known about how sway complexity changes following anterior cruciate ligament reconstruction (ACLR). Attentional focus may also influence postural control, with external focus typically promoting more efficient and automatic regulation than internal focus.

AIM: To examine how attentional focus (internal vs. external) influences the structure of postural sway in individuals with and without ACLR.

METHODS: Forty-three participants …

Eeg Signatures Of Motor Development In Early Childhood: A Systematic Review, Sonia Khurana, Ashwini Kulkarni, Thomas C. Bulea, Hunter J. Bennett

Rehabilitation Sciences Faculty Publications

Background

Early identification of motor developmental disorders is limited due to lack of objective neural markers that characterize typical neurodevelopmental patterns. This systematic review interprets and synthesizes existing evidence to propose a framework of EEG signatures associated with motor development in children aged 0-5 years, which may help inform future benchmarks for early assessment and intervention.

Methods

Following PRISMA guidelines, we searched published and gray literature across five databases between 2000 and 2025 (registered protocol). Included studies examined EEG during task-based, resting-state, or sleep studies linked to motor milestones, task performance, or standardized motor assessments. Study quality was assessed using …

The Epidemiology Of Catastrophic Head And Neck Injuries In High School And College Non-Football Sports: A 4-Decade Review, Courtney M. Meyer, Kristen L. Kucera, Samantha E. Scarneo-Miller, Zachary K. Winkelmann, Susan W. Yeargin

Rehabilitation Sciences Faculty Publications

Background:

Catastrophic head and neck injuries (CHNIs) in sport are rare but can have disabling or fatal outcomes. Prior studies have focused on football, equipment-laden sports, or different injury severities, not CHNI in nonfootball sports.

Purpose:

To describe the epidemiology of CHNI across levels (high school vs collegiate) in nonfootball sports and evaluate differences in injury rates (IRs) by sport, sex, and decade.

Study Design

Descriptive epidemiological study.

Methods:

This study utilized 40 academic years (1982-1983 to 2021-2022) of surveillance data from the National Center for Catastrophic Sports Injury Research. Descriptive statistics summarized athlete, event, and injury characteristics. IRs were …

Walking It Off: Habituation Of Gait At Virtual High Elevation, Kelly Poretti, Toby J. Ellmers, Christopher K. Rhea, Tiphanie Raffegeau

Rehabilitation Sciences Faculty Publications

Introduction: Fear and anxiety about falling can disrupt gait control, leading to activity restriction and increased fall risk in older adults. VR can be used to induce postural threat (e.g., by simulating high elevation settings) within a controlled environment, inducing fall-related anxiety and cautious gait (i.e. slower, shorter steps) in young and older adults. However, it is unknown how emotional and motor responses to VR postural threat habituate across time because existing studies feature short exposures (10 seconds or less). Before VR-induced postural threat can be translated into an intervention, it is critical to understand threat-related gait habituation across time. …

Hierarchical Clustering Reveals Multilevel Structure For Multifactorial Assessment In Community-Dwelling Older Adults, Brittany S. Samulski, Ashwini Kulkarni, Neda Moghim, Ross Gore, Soumya Banerjee, Christopher K. Rhea

Rehabilitation Sciences Faculty Publications

Multifactorial falls assessment is recommended for older adults at elevated risk but can generate numerous potentially overlapping measurements, increasing testing burden despite potentially diminishing informational returns as correlated measures are added. Characterizing how measures covary may inform subsequent efforts to evaluate more efficient assessment procedures. Community-dwelling older adults (n = 298) completed a single-visit assessment including the Physiological Profile Assessment (PPA), preferred- and maximal-speed walking, Montreal Cognitive Assessment (MoCA), and Modified Falls Efficacy Scale (MFES). Hierarchical agglomerative clustering was applied to 51 variables. Dendrogram fidelity, cluster separation, and resampling stability were evaluated using the cophenetic correlation coefficient (CCC), silhouette width, …

Organized Sports-Based Interventions And Motor Outcomes In Children Diagnosed With Autism Spectrum Disorder: A Systematic Review, Kailash Ram, Maeren Hill, Caitlyn Stewart, Kaitlin P. Hardy Md, Sonia Khurana

Rehabilitation Sciences Faculty Publications

Aim

To evaluate the effectiveness of organized sports-based interventions on motor outcomes in children with autism spectrum disorder (ASD).

Method

Four databases were searched from inception to November 2025 for randomized controlled trials (RCTs) and non-randomized controlled trials (NRCTs) reporting motor outcomes of organized sports-based interventions in children with ASD. Risk of bias was evaluated using ROB-2 (Cochrane Risk of Bias Tool, Version Two) for RCTs and ROBINS-I (Risk Of Bias In Non-randomized Studies - of Interventions) for NRCTs.

Results

Eleven studies (six RCTs, five NRCTs) were included and categorized as martial arts (n = 5), aquatic training (n = …

Technical Skills And Their Roles In Agribusiness Supply Chain Management Education, Ryan Loy, Logan L. Britton, F. Bailey Norwood

Agricultural Economics and Agribusiness Faculty Publications and Presentations

The integration of advanced technical skills and supply chain management (SCM) tools is critical for the evolving demands of agribusiness. This study identifies the technical competencies, software proficiencies, and educational strategies essential for preparing students to excel in modern SCM roles. Through semi-structured interviews with 26 SCM professionals across US agribusiness sectors, the study highlights the demand for expertise in tools such as SAP, Power BI, and SQL alongside capabilities in data-driven decision-making and adaptability. Despite theoretical preparation, graduates often lack practical experience with industry-standard technologies, underscoring a gap in academic curricula. The findings suggest that agribusiness programs should emphasize …

Alternative Polyadenylation Signatures Distinguish Maladaptive Right Ventricular Remodeling In Pulmonary Hypertension: Implications For Rna-Based Diagnostics And Therapeutics, Janani Subramaniam, Venkata Jonnakuti, Scott D Collum, Sandra Martineau, Kai-Lieh Huang, Sandra Breuils-Bonnet, Andrea L Frump, Bindu H Akkanti, Jayeshkumar A Patel, Manish K Patel, Ismael Salas De Armas, Isabella N Lefebvre, Rajko Radovancevic, Elvin Blanco, Eric J Wagner, Igor Gregoric, Sriram Nathan, Biswajit Kar, Steeve Provencher, Sebastien Bonnet, François Potus, Hari Krishna Yalamanchili, Harry Karmouty-Quintana

Faculty, Staff and Student Publications

Increased pulmonary vascular pressures due to vascular remodeling, elevated vascular resistance, and vasoconstriction characterize Pulmonary Arterial Hypertension (PAH). The narrowing of the pulmonary arteries and obstruction of blood flow increase the Right Ventricular (RV) afterload, forcing the RV to undergo structural and functional changes. While adaptive remodeling leads to RV compensation by maintaining function, maladaptive remodeling leads to RV decompensation, characterized by worsening function and eventual failure. At present, there is no effective treatment for these patients as therapies for left ventricular failure are ineffectual, and there are no therapies specifically targeting the RV. Therefore, there is a clear need …

A Note On The Novel Passive Sampling In Environmental Dna (Edna) Collection Technique To Detect Yellow Mud Turtle (Kinosternon Flavescens): Field And Laboratory Approaches In Turtle Edna, Sakib Tahmid Rishan, Richard J. Kline, Md. Saydur Rahman

School of Integrative Biological & Chemical Sciences Faculty Publications

Environmental DNA (eDNA) is a powerful and sensitive method for monitoring aquatic and terrestrial organisms, offering insights into their distribution. Usually, eDNA is collected using a filter membrane through water filtration. However, the passive eDNA method can simplify sampling and broaden its scope, offering new insights for ecological surveillance. This study examined the efficacy of six different membrane filters in detecting the yellow mud turtle (Kinosternon flavescens) through a novel passive eDNA method. After being immersed in water for 12 h, only the mixed cellulose ester (MCE) membrane filter consistently demonstrated specific polymerase chain reaction (PCR) amplification using …

Productivity Of An Iconic Waterbird, The Common Loon, Is Decreasing Across The Southern Portion Of Its Breeding Range, Matthew Fuirst, Mark L. Mallory, Walter H. Piper, Kristin Bianchini, Sethulakshmi Kumbalathuparambil Sajeev, Griffin Archambault, Dan Clark, John H. Cooley Jr., David C. Evers, Tiffany Grade, Eric W. Hanson, Caroline Hughes, Daniel Poleschook Jr., Virginia R. Poleschook, Lucas J. Savoy, Nina Schoch, Hillary Siener, Andrew Vitz, Harry S. Vogel, Jillian Whitney, Douglas C. Tozer

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

The Common Loon (Gavia immer) is an iconic waterbird of the northern wilderness and an indicator of the health of aquatic ecosystems. We conducted a benchmark comparison of productivity rates and long-term trends in productivity (6-week-old young raised per territorial pair) from 45 591 breeding events across 12 different study populations throughout the southern portion of species’ breeding range in North America. While all regions showed long-term mean productivity rates at or above the threshold considered necessary for population stability (0.48 chicks fledged per territorial pair), we found significant declines in productivity (ranging from −0.17% to −2.8% per year) in …

Study Of Fire Regimes In Southwestern Australia Using Geospatial Techniques, Ana Do Carmo Carvalho

Theses: Doctorates and Masters

The Northern Jarrah Forest in Southwestern Australia (SWA), part of a global biodiversity hotspot, is home to fire-sensitive tree species such as marri (Corymbia calophylla) and jarrah (Eucalyptus marginata). As climate change intensifies drought and extreme fire events, understanding the drivers of fire severity is increasingly critical. This thesis analyses fire regimes within the Mundaring drinking water catchment to better understand the spatiotemporal complexity of fire severity in relation to fire history and environmental factors.

The thesis commences with a review of three Fire History Databases (FHDs) used in SWA, highlighting significant inconsistencies and data gaps across time and space. …

Mitochondrial Disorders Should Be Considered As A Differential Diagnosis Of Thiamine Deficiency, Josef Finsterer

HCA Healthcare Journal of Medicine

This letter to the editor addresses limitations to diagnosing thiamine deficiency for multisystem disorders and discusses the potential differential diagnoses that must be considered.

Green Connectivity In Metropolitan Jabodetabek: Climate Change And The Challenge Of Urban Forest, Safira Maharani Putri, Hendricus Andy Simarmata

CSID Journal of Infrastructure Development

Urban areas in Indonesia, particularly the Greater Jakarta metropolitan region (Jabodetabek), are increasingly experiencing the adverse effects of climate change, such as the Urban Heat Island (UHI) phenomenon. Rapid urbanization has contributed significantly to rising greenhouse gas emissions and deteriorating environmental quality. Urban forests are one of the key solutions to mitigate these impacts; however, their spatial distribution in Jabodetabek remains suboptimal and poorly connected. This study uses NDVI as a proxy for urban forest density, where “urban forest” refers to vegetated areas within cities as defined by Presidential Regulation No. 60/2020. The research addresses the following question: How has …

Chia Seed Gel Powder As A Clean-Label Enhancer Of Texture, Physicochemical Quality, Antioxidant Activity, And Prebiotic Function In Probiotic Low-Fat Yogurt, Mahmoud E. A. Hamouda, Ratul Kalita, Abdelfatah K. Ali, Pratibha Chaudhary, Pramith U. Don, Omar A. A. Abdelsater, Anjali Verma, Yaser Elderwy

Nutrition, Dietetics, and Food Science Student Research

This study evaluated the effect of incorporating chia seed gel powder (CSGP) as a natural, clean-label stabilizer on the physicochemical, functional, microbiological, microstructural, antioxidant, and sensory properties of probiotic low-fat yogurt (PLFY) during 21 days of refrigerated storage. Six formulations were prepared using 0–2.5% CSGP, including Control (0% CSGP), YOG1 (0.5% CSGP), YOG2 (1.0% CSGP), YOG3 (1.5% CSGP), YOG4 (2.0% CSGP), and YOG5 (2.5% CSGP). Results showed that increasing CSGP levels noticeably enhanced the total solids, protein content, viscosity, hardness, and water-holding capacity of the PLFY (p < 0.05), while consistently reducing syneresis. Antioxidant activity also rose with higher CSGP concentrations, with YOG5 exhibiting the greatest DPPH scavenging activity (35.12%). Confocal laser scanning microscopy revealed a denser and more uniform protein network in PLFY fortified with CSGP, consistent with rheological measurements showing increased storage (G′) and loss (G″) moduli. Probiotic viability significantly increased (p < 0.05) in CSGP-added samples, indicating a potential prebiotic effect of CSGP. Sensory results demonstrated that although higher CSGP levels slightly darkened the yogurt color, body, texture, flavor, and total sensory scores improved markedly, with YOG5 gaining the highest total score (81.77). The results demonstrate that CSGP acts as a highly effective, multifunctional ingredient that enhances texture, stability, probiotic viability, and antioxidant capacity, making it a strong clean-label candidate for developing high-quality, functional probiotic low-fat yogurt.

Semi-Supervised Learning For Annotation And Representation Of Single-Cell Rna Sequencing And Spatial Transcriptomics Data, Haoran Liu

Dissertations

Semi-supervised learning has emerged as a powerful paradigm for analyzing single-cell RNA sequencing (scRNA-seq) and spatial transcriptomics (ST) data, where full annotation is often costly or impractical. scRNA-seq technologies measure the expression of thousands of genes across tens of thousands of cells, whereas ST additionally captures the spatial coordinates of gene expression within intact tissue sections. Annotation is a key step in both scRNA-seq and ST analysis pipelines, aiming to identify cell types, spatial domains, and latent biological structures. However, most existing annotation approaches rely on separate clustering methods that are typically fully unsupervised and fail to leverage side information …

Entropic Forces Near Fluctuating Surfaces, Rubayet Hassan

Dissertations

Nanoscale structures are inherently dynamic due to persistent thermal fluctuations. Even in solid materials, these random deformations, driven by ambient thermal energy, can become significant when their characteristic scale approaches that of the structure itself and strongly influence their overall mechanical behavior. Examples of such structures include crystalline membranes, appearing in diverse forms such as nanotubes, nanoribbons, and kirigami/origami structures. Similarly, biological nanostructures, including lipid membranes, microtubules, actin filaments, and DNA, exhibit extreme flexibility and responsiveness due to their low bending rigidity. Numerous physiological processes are intrinsically linked to these thermal fluctuations, including exocytosis and endocytosis, membrane fusion, pore formation, …

Computational Methods For Single-Cell And Multi-Omic Data Integration And Regulatory Network Inference, Jianlan Ren

Dissertations

Single-cell and multi-omic technologies have transformed the dissection of cellular heterogeneity and regulatory dynamics in health and disease. However, the high dimensionality, technical variability, and biological complexity of these datasets present significant challenges for integration, annotation, and interpretation. In this dissertation, a suite of computational approaches is introduced to address key problems in single-cell and multi-omic data analysis through model-based innovations and applied statistical frameworks.

First, a constrained deep learning framework for single-cell data integration, label transfer, and clustering is proposed. By incorporating biologically motivated constraints into the training process, robust performance is achieved across simulated and benchmark datasets spanning …

The Effect Of Withering Methods On Physicochemical And Sensory Properties Of Liberica Coffee Leaf Tea (Coffea Liberica), Surhaini Surhaini, Indriyani Indriyani, Rahayu Suseno, Rinaldi Rinaldi, Ferry Jie, Huda Wazzan

Research outputs 2022 to 2026

This study aims to evaluate the effect of different withering methods on physicochemical and organoleptic properties of Liberica coffee leaf tea (Coffea liberica) and to identify the optimal treatment. The experiment was conducted using a Completely Randomized Design (CRD) with five withering treatments, including no withering, room temperature withering for 10 h, air withering for 10 h, oven withering at 60°C for 30 min, and steaming for 2 min, each with four replications. The observed parameters included powder moisture content, pH, color (L*, a*, b*), antioxidant activity, total phenols, total tannins, flavonoids, and sensory attributes, namely color, aroma, acidity, taste, …