Our labs in-vivo mouse exposure studies on the high prevalence of asthma among the communities residing near California’s Salton Sea (SS) revealed a potent neutrophilic inflammatory response to dust collected from the region. Our data revealed that chronic exposure to aerosolized lipopolysaccharide (LPS)/endotoxin from environmental halophilic bacteria in the dust caused this immune response. These findings revealed a distinct disease affecting this population which resembled the nonallergic subset of asthma. The identification of this unique clinical entity led to the development of the first therapeutic on the market for treatment of nonallergic pulmonary inflammation caused by exposure to aerosolized environmental toxins.
Generative AI image models are becoming increasingly integrated into creative, educational, and commercial workflows. However, limited research evaluates how accurately these systems render images using culturally specific language, focusing on textured black hairstyles. This study investigates how four leading generative image platforms represent diverse black women’s hairstyles when prompted using culturally specific terminology.
Using a controlled prompting protocol grounded in hairstyle taxonomy, over 600 image sets were generated across models under standardized conditions. Outputs are being evaluated through recognition alignment scoring, measuring agreement between hairstyle descriptions and perceived hairstyle characteristics. This framework assesses cultural fidelity, texture accuracy, and stylistic precision.
This work contributes to the AI fairness research, that shifts the conversation from one off anecdotal critiques to a structured computational analysis. This study advances measurable approaches to auditing representational equity within multimodal AI systems. Findings have implications for model training datasets, bias mitigation strategies, and the development of culturally competent generative technologies.
Chalicotheriidae are an extinct perissodactyl mammal that were present from the Middle Eocene to the Early Pleistocene. They have been discovered in North America, Eurasia, and Africa from the Middle Eocene to the Early Pleistocene. Their unique morphologies include their presence of claws, instead of hooves, on both their hands and feet.They exhibit a number of unusual traits, most prominently the presence of claws, instead of hooves, on both their hands and feet (Coombs 1983. Chalicotheriidae are two families, Chalicotheriinae and Schizotheriinae. The Chalicotheriinae had the traits of Their shorter necks, long forelimbs , pelvis and hindlimbs that enabled them to stand upright non-retractable claws, and knuckle walked, while Shizotherinae had traits of long necks, strong hindlimbs and elongated pelvis.While many studies speak of Chalicotherinnae knuckle walking, there hasn't been that much work into how that mobility would have appeared or developed. In my proposed study, I will do a morphological analysis of Chalicotheriinae clade's claws , limbs, and pelvis to achieve a better understanding of how their morphology changed over time. Additionally, I will do a comparative analysis of Chalicotheriinae skeletal structure with other contemporary knuckle walking mammals such as Gorillas and Giant Ant-Eaters.
A recent report from the University of California, San Diego (November 6, 2025; updated January 8, 2026) indicates that approximately one in eight incoming first-year students demonstrates deficiencies in mathematics preparedness. This challenge is not unique to UCSD; institutions nationwide report similar gaps. Because mathematics underlies STEM disciplines and many gateway courses impose substantial cognitive demands, these deficiencies have significant implications for student success.
As STEM fields drive economic growth and workforce innovation, higher education institutions seek to improve equity, increase graduation rates, and strengthen employment outcomes. Achieving these goals requires more than content coverage; it demands instructional design grounded in how students learn. Strengthening STEM attainment also requires attention to both higher education (andragogy) and the K–12 pipeline (pedagogy) that shapes college readiness.
High–cognitive load STEM courses raise a central question: Do we teach in ways that align with how students learn? A shift from teacher-centered delivery to evidence-based, learner-centered design is essential. Student success in STEM depends on aligning learning theory, instructional design, and program-level assessment.
Theoretical frameworks such as constructivism and situated learning—drawing on the work of Lev Vygotsky and Jean Lave—emphasize active engagement, social interaction, and contextualized learning. Instructional models that incorporate backward design, transparent outcomes, formative assessment, and inclusive pedagogy demonstrate positive effects on achievement and retention in gateway STEM courses.
At the program level, systematic assessment practices—including curriculum mapping, longitudinal outcome tracking, and continuous improvement cycles—enable departments to evaluate effectiveness and reduce equity gaps. By integrating theoretically grounded instructional design with robust assessment, institutions can move beyond gatekeeping structures toward sustainable models of student development, strengthening persistence, performance, and participation in STEM fields.
My abstract is: Human mesenchymal stem cells (hMSCs), while useful in many therapeutic treatments, often struggle with producing consistent results in clinical trials. This is due to the inherent heterogeneity of hMSCs. To address this, many laboratories have used existing tools to sort hMSCs based on surface marker expression. Many of these techniques rely on fluorescent staining of biological markers, underscoring the need for label-free approaches that preserve the cells’ native state by leveraging intrinsic properties for sorting Dielectrophoresis (DEP) is a label-free technique that sorts cells based on their inherent electrical properties when exposed to non-uniform electric fields, with cell behavior modulated by voltage and frequency. In this study, we used an insulating DEP microfluidic device containing a large region of insulating posts to generate spatially non-uniform electric fields. Under specific voltage-frequency combinations, a subset of cells became trapped at these posts while others continue to flow through the device. By tuning these parameters, we enriched subpopulations of adipose tissue derived hMSCs that exhibited distinct DEP responses. Following sorting, the enriched cell populations underwent a 14-day adipogenic differentiation protocol. Cells that flowed through the device (remained untrapped) under low-voltage, low-frequency conditions demonstrated enhanced adipogenic potential compared to unsorted controls. These findings demonstrate that DEP can enrich for functionally distinct hMSC subpopulations, offering a promising tool to address cellular heterogeneity in regenerative therapies.
We attempt to answer the question "Is it possible to trustlessly compute a supersingular elliptic curve with unknown endomorphism ring that is distributed, secure and scalable?”. We introduce new protocols for implementing the algorithms using general purpose multiparty computation in a committee delegation protocol. We demonstrate the security assumptions of this protocol and show that a semi-honest multiparty computation protocol is enough to obtain malicious security for an isogeny walk in the presence of malicious adversaries. Our solution shows competitive performance to that of prior work, and additionally supports multiple threat models and provides a form of public verifiability that proof-based approaches do not, by drawing randomness from a large number of clients.
Modern autonomous vehicles leverage sensor fusion to integrate features captured by multiple sensors, e.g., cameras, and LiDAR to develop a comprehensive understanding of their surroundings. However, feature fusion remains a key challenge due to the varying reliability of each sensor under different driving scenarios. Uncertainty quantification (UQ) mitigates this issue by enabling models to prioritize high-confidence information and suppress unreliable signals. Yet, existing uncertaintyaware multi-modal fusion approaches struggle to generalize across diverse real-world conditions, often exhibiting significant performance degradation in complex and dynamic environments. To address this challenge, we propose U^2QFusion, an uncertainty-aware cross-modal sensor fusion framework with a novel feature-bank guided UQ module that incorporates fine-grained uncertainty estimation to enhance robustness and generalization. Additionally, we introduce an alignment module to bridge the modality gap by aligning LiDAR structure with camera semantics, and a one-step consistency denoiser to efficiently generate robust fused representations that enhance the performance of 3D detection and semantic segmentation.
Stress is a pervasive factor influencing mental health and overall well-being, with prolonged exposure linked to adverse physical, psychological, and social outcomes. Recent advances in mobile health technologies and wearable sensing have enabled the continuous collection of physiological and behavioral data, creating new opportunities for early stress detection and intervention. In parallel, large language models (LLMs) have demonstrated strong reasoning capabilities across diverse domains, including health prediction from time-series data. However, most existing approaches rely on cloud-based models, raising concerns around privacy, latency, and real-world deployability. This work investigates the use of on-device language models (ODLMs) for stress prediction, emphasizing their potential to support health and wellbeing through privacy-preserving, low-latency inference directly on personal devices.
We systematically evaluate how different data modalities, prompting strategies, and model scales affect stress prediction performance in ODLMs. Using the PMData life-logging dataset, which includes both objective physiological signals (e.g., steps, heart rate, sleep duration) and subjective self-reports (e.g., mood, fatigue, sleep quality), we design prompts that contextualize health data across multiple temporal intervals. Experiments are conducted using several state-of-the-art quantized ODLMs deployed on iOS devices, allowing us to jointly assess prediction accuracy and device-level performance metrics such as latency, throughput, and memory usage.
Our results show that compact ODLMs can achieve competitive stress prediction accuracy while operating entirely offline. Across multiple experimental settings, objective data prompts consistently yield a comparative prediction error to subjective or combined prompts, suggesting that passive sensing can effectively support stress assessment with minimal user burden. Among the evaluated models, a sub-billion-parameter ODLM demonstrates the best balance between accuracy and efficiency, outperforming larger models in both prediction error and inference speed. Additionally, we find that statistical summaries of longer time windows improve performance relative to raw natural language descriptions, highlighting the importance of prompt structure when working with time-series health data. Beyond model performance, we propose a proof-of-concept trust architecture that situates ODLMs within a closed social and clinical loop involving patients, caregivers, and clinicians. Rather than replacing human judgment, the system is designed to augment care by enabling timely insights into stress while maintaining safeguards against harmful or inappropriate outputs. This framing aligns with a well-being-centered approach to AI deployment, prioritizing user safety, autonomy, and clinical oversight.
Overall, this study demonstrates that on-device language models can serve as a practical and responsible component of mobile health systems for stress prediction. By combining wearable data, thoughtful prompt engineering, and efficient on-device inference, ODLMs offer a promising pathway toward scalable, privacy-preserving tools that support mental health monitoring and proactive wellbeing interventions in everyday life
Succinate dehydrogenase belongs to a family of complex II enzymes that reversibly oxidize or reduce its substrate, succinate or fumarate, uniquely pairing the electron transport chain with the Kreb’s cycle. While it is the only complex of I to IV that does not pump protons into the intermembrane space as it transports electrons to the terminal acceptor, it still serves a pivotal role in ATP synthesis and maintaining the necessary redox balance. In particular, complex II is the most understudied of the five complexes due to the complexity of the enzyme and its inspiration of the field of biochemistry. It is composed of four distinct proteins termed subunits, two of which comprise the catalytic dimer and the residual make up the membrane anchor securing the catalytic dimer. Very few succinate dehydrogenase proteins have been predictively modeled, let alone crystalized. Investigation of the reversible and reductive reaction of complex II, more commonly termed fumarate reductase, presents an even larger knowledge gap. This work reports the putative structure and function of Mytilus galloprovincialis succinate dehydrogenase while elucidating the occurrence of fumarate reductase. Identifying important domains of the catalytic dimer, conserved residues, and determining the structural difference between succinate dehydrogenase and fumarate reductase, this research sets out to examine a key element of a conserved anaerobic respiratory pathway. An element, i.e., complex II, that is commonly studied in parasitic and cancerous systems.
Modeling crowd behaviors is crucial to navigate shared spaces safely and naturally alongside humans. Current state of the art crowd simulators rely on modeling behaviors as discrete-time Markov processes where individuals display singular behaviors at a time. However, often in real world systems behaviors intermingle and interact with one another. Behavior Inspired Neural Networks (BINNs) have shown the capability of mapping physical observable states to latent behavior categories where categories correlate to one another. This deterministic approach, unfortunately, fails to account for the stochastic nature of real-world systems where multiple future trajectories are possible. To address this, we propose a framework utilizing both Behavior Inspired Neural Networks and Conditional Variational Autoencoders (CVAE) to model behavior categories as a distribution. Conditioning on the behavior prior, we can then refine the generation of predicted trajectories using a Diffusion Model allowing for diverse and accurate multi-modal trajectories. Finally, we demonstrate the efficacy of our approach by modeling crowd behavior patterns across different geographical environments.
Foundations designed for dark skin often contain a high concentration of black iron oxide, which can result in an undesirable "ashy" appearance. Additionally, opacifiers like titanium dioxide, used to enhance coverage, can further intensify this appearance. This issue is less common in lighter foundations due to their lower pigment content. However, there is a growing need to enhance the range of undertones available in foundations catering to both lighter and darker skin tones, reflecting increasing consumer demand for improved aesthetics and undertone diversity in the cosmetic industry.
This study evaluated and compared the effects of ultramarine blue (UB) versus black iron oxide (B) and titanium dioxide (T) versus zinc oxide (Z), and assessed the hue-neutralizing potential of UB in dark and light loose powder foundations. Nine formulations for darker skin tones were formulated by varying the ratios of B to UB and Z to T from 0% to 100%. Twenty-four formulations for dark and light skin tones incorporated UB at 2-10% and 0.2-1%, respectively, to evaluate the hue-neutralizing potential of this pigment.
Color assessment included spectrophotometric analysis, visual evaluation on Leneta paper, and small-scale consumer testing on human skin. A survey was conducted to assess consumer challenges in shade matching, retail experiences, and satisfaction with undertone availability.
Adjusting the B/UB ratio (from 100/0 to 0/100) significantly reduced gray tones in darker foundations, with L*a*b* values confirming color balance improvements. Increasing UB content reduced red hues in warm undertones, developing blue hues ideal for neutral-to-cool undertones in dark and light foundations. The combination of Z with T further minimized gray cast, overall enhancing aesthetics in dark foundations. Consumer survey results highlighted ongoing difficulties in foundation matching, reinforcing the need for expanded undertone offerings.
This study demonstrates that UB and Z effectively reduced ashy appearances in darker foundations and offered new possibilities for improving undertone matching across all skin tones. These findings provide valuable insights for formulating inclusive cosmetic products that better meet consumer needs.
Personalized affect recognition in healthcare requires models that perform reliably under sparse data and explicitly account for uncertainty for safe deployment. We propose a Gaussian Process Regression framework for affect detection that incorporates uncertainty-aware active learning to support personalized modeling. The model continuously predicts affective state from physiological signals captured by wearable sensors and selectively queries the user when predictive uncertainty exceeds a predefined threshold, maintaining predictive reliability.
As a proof-of-concept, we evaluate the framework using the publicly available WESAD dataset. Findings demonstrate the feasibility of uncertainty-driven querying and highlight the suitability of Gaussian Process Regression for learning personalized models under limited labeled data. This work establishes a methodological foundation for future validation using National Comprehensive Cancer Network (NCCN) Distress Thermometer–labeled clinical data to support distress monitoring in oncology care.
Histones are classically defined as structural regulators of chromatin, yet recent work has revealed its unexpected role in metal metabolism. In the Kurdistani Lab, we study histone H3 as a cupric reductase enzyme that converts Cu²⁺ to its bioavailable isoform Cu¹⁺ form in yeast. In 2020, our lab demonstrated that histone H3 possesses intrinsic cupric reductase activity conserved across many if not all eukaryotes, including humans. To investigate the biological significance of this activity, we study our histone reductase diminished function mutant (H3H113N), which exhibits sensitivity to heat and drugs, resistance to copper toxicity, and can suppress the lethality associated with frataxin deficiency.
To identify molecular consequences of impaired histone-mediated copper reduction, we performed mRNA-seq comparing H3H113N mutants with wild-type cells. This analysis revealed increased transcription in several genomic regions previously annotated as noncoding. To determine whether these regions encode functional proteins, we used CRISPR-mediated epitope tagging along with flow cytometry and Western blot analysis to screen for detection of candidate open reading frames. This approach identified at least five previously uncharacterized peptides expressed from these regions, which may have been overlooked due to their small size.
Ongoing work aims to use a genetic and biochemical approach to characterize the function of these peptides and determine how they regulate histone H3-mediated copper reduction. These studies will expand our understanding of small peptide biology and provide insight into how histone H3-mediated cupric reductase activity is integrated into established metabolic pathways, or potentially, previously unrecognized ones.
Heavy elements in the universe and on Earth are predominantly produced in explosive stellar endpoints such as supernovae. Understanding when and how these elements formed requires investigating the rates of such explosions across cosmic time. One important class of these events is the Type Ia supernova, which can occur when two white dwarfs merge in a binary system (i.e. a pair of white dwarfs). Type Ia supernovae play a central role in chemical enrichment of our Universe and are also critical tools for cosmological distance measurements. To constrain the formation, physics, and frequency underlying Type Ia supernovae, this project models the evolution of large populations of binary star systems using population synthesis simulations and computes the resulting merger rates of double white dwarf binaries. Our population scale simulations are unique tools for connecting uncertain stellar and binary evolution physics to observable supernova rates and for assessing the impact of model assumptions on predicted event rates.
HIV persists in the body despite antiretroviral therapy (ART) by establishing long-lived latent reservoirs, including in the central nervous system (CNS) 1. Microglia, the brain’s resident immune cells, harbor this latent virus and contribute to HIV-associated neurocognitive disorders (HAND). Because HIV does not infect mouse cells, “humanized” mice, containing human immune cells, are required to study HIV infection and evaluate targeted interventions.
We use a humanized IL34-NOG mouse model engrafted with human hematopoietic stem and progenitor cells (HSPCs) 2. This strain is transgenic for the human IL34 cytokine, which supports microglial development and enables robust reconstitution of human microglia in the CNS 3. Single-cell RNA sequencing demonstrates that these microglia exhibit transcriptional profiles consistent with mature human microglia, supporting the physiological relevance of this system. Beyond HIV, this model provides a versatile platform for studying human microglial biology in neurodegenerative diseases.
Using IL34-NOG humanized mice, we can investigate HIV infection dynamics in the CNS under ART and following antiretroviral treatment interruption (ATI). ART effectively suppresses viral replication in both peripheral tissues and the brain. However, upon ATI, we observe rapid viral rebound, including a marked increase in HIV infection within microglia. This rebound is accompanied by heightened microglial activation, and an increased neuroinflammatory response.
These findings highlight that latent CNS reservoirs can be readily reactivated and underscore the role of microglia in HIV persistence and neuroinflammation. This model therefore provides a powerful platform for studying mechanisms of CNS viral rebound and for developing targeted strategies to mitigate HAND.
References:
1. Sreeram, S. et al. The potential role of HIV-1 latency in promoting neuroinflammation and HIV-1associated neurocognitive disorder. Trends Immunol. 43, 630 (2022).
2. Mathews, S. et al. Human Interleukin-34 facilitates microglia-like cell differentiation and persistent HIV-1 infection in humanized mice. Mol. Neurodegener. 14, 12 (2019).
3. Devlin, B. A. et al. Excitatory-neuron-derived interleukin-34 supports cortical developmental microglia function. Immunity 0, (2025).
Understanding electron behavior in low-dimensional systems underpins next-generation electronics. Traditional top-down approaches to producing nanostructures introduce disorder, whereas bottom-up routes can offer high material quality but provide limited control over geometry. Recently, our group developed a technique for growing single-crystal nanostructures of Bi, Sn, and In with predefined geometries defined by molds lined hexagonal-boron-nitride (hBN). I will discuss our efforts to extend this technique to semiconducting nanostructures, such as Te and InSb, which have higher melting points.
Introduction: Economically and evolutionarily, the plant genus Amaranthus (~70 species) is one of the most important plant groups associated with modern agriculture. Most species were originally found in the Americas, but in recent times, many species have spread worldwide. Amaranthus includes domesticated pseudograins, wild, ruderal species, and about 11 important agricultural weeds globally (includes: Amaranthus palmeri and A. tuberculatus). High-intensity agriculture occupies over 10% of North America’s livable land, and there is still much to be studied about evolutionary responses to agriculture in wild, weedy species. Exceptional ecological and genomic diversity within Amaranthus will be used in this project to test for convergent adaptation to changes in environment caused by agricultural activities, from genotype to phenotype.
Goal: The main goal of this project is to determine the extent and sources of convergent genomic regions of weedy Amaranthus species, to study how some of the weedy species have been able to evolve phenotypically, and to understand the ecological selective agents behind these responses. Particularly, our aim is to: Resolve the relative input of ancestral standing variation, introgression and de novo mutation to rapid adaptation to agriculture; secondly, to test hypotheses related to “ideal weed”, phenotypes, which includes germination tolerance and reproductive plasticity.
My Role: I am carrying out bioinformatic analyses of short read sequencing data, reconstructing a phylogenomic tree of the genus, and also cooperating with other scholars and institutions to put together genomic datasets. My responsibility includes comparative genomic analyses across Amaranthus species, indicating orthologous areas under accelerated evolution, differentiating signals of lineage sorting against introgression, and making meaningful contributions to genotype-phenotype association analyses, which connects trait data to adaptive genomic areas. Methodology: This is a project that combines pangenomes, comparative phylogenetics, and population genomics with common garden experiments. Chromosome-scale genome assembling across the genus will be done by long read (PacBio HiFi) and short read (Illumina sequencing). Maximum likelihood and coalescent-based approaches will be used to reconstruct phylogenies, and accelerated evolution and lineage-specific selection within weed species will be tested. Drought gradient germination assays and greenhouse plant trait measurement (flowering time, fecundity, physical traits) will be used to assess phenotypic convergence.
Implications: This research improves understanding on the evolution of weeds in modern agriculture by bringing together genetic, phenotypic and environmental data across a whole genus of plants. The potential result would make clear whether Amaranthus adaptation to agricultural systems is predictable and constrained by variation in genetics, or molded by lineage-specific paths. This project goes beyond its implications for evolutionary theory: there is a direct implication for weed science also, in terms of identifying genomic and phenotypic risk factors for invasion; this can help us create predictive models to identify possible future agricultural weeds and help recommend more sustainable, non-chemical management strategies in the face of ongoing climate and land use change.
Metal-Organic Frameworks (MOFs) are porous nanomaterials with high surface areas that show strong potential for targeted drug delivery applications due to their tunable structures. Researchers designed a novel drug-delivery system to target specific sites, such as cancerous tissues. In this study, zirconium (Zr)-based MOFs were modified with polyethylene glycol (PEG) to investigate their potential as pH-responsive drug carriers. Drug release from model drug-loaded MOFs was analyzed using UV-Vis spectroscopy under neutral and acidic conditions. Results suggest that PEGylation improves drug loading and enables pH-dependent release, highlighting the potential of PEGylated Zr-based MOFs as candidates for targeted cancer drug delivery.
The thesis seeks to design and implement a robust real-time music emotion recognition system with a hybrid FPGA and Raspberry Pi architecture, focusing on low latency and high-performance processing, weaving technical innovation with human emotion. As artificial intelligence continues to become more prevalent daily, there is a growing demand for emotionally intelligent machines that understand and identify the nuances in human expressions. Music, long considered the universal language, is a rich and reliable medium for this exploration. The system captures live music audio through a ReSpeaker HAT microphone array attached to the Raspberry Pi, processes it in real-time, and differentiates the song’s emotional tone into positive, negative, and neutral. The FPGA is responsible for low-latency Digital Signal Processing (DSP) tasks, primarily real-time audio feature extraction, such as tempo and pitch. Meanwhile, the Raspberry Pi will focus on higher-level tasks such as machine learning inference, storage, and decision-making logic. The system will achieve fast and reliable emotion recognition performance in creating a hybrid platform compatible with embedded and edge-computing applications. Experimental results will help demonstrate the viability of real-time audio streaming and classification, with potential applications in music therapy, entertainment systems, social media platforms, and interactive music experiences.
Ion exchange membranes (IEMs) are filtration materials that enable diverse water and wastewater treatment applications, including water desalination and resource recovery from waste. These applications involve complex mixtures, such as seawater and industrial wastewater, characterized by the presence of multiple salts at varying concentrations. The ions of interest are often present at low concentrations relative to background environmental ions, making selective separations challenging. For instance, e orts to extract lithium from brine are challenged by the low concentration of lithium ions relative to sodium, magnesium, and calcium. Hence, designing IEMs with high selectivity for specific ions in mixtures is essential for emerging resource recovery applications. IEM selectivity is usually characterized by measuring a partition (i.e., sorption) coefficient in single salt solutions. However, single salt partition coefficients cannot be easily used to predict IEM performance in mixed salt solutions. Therefore, we hypothesized that measuring the kinetic parameters (i.e., rate orders and activation energies) for ion sorption would provide a di erent approach to evaluating selectivity. To test this hypothesis, we measured change in ion concentration over time for Li, Na, and K in single and mixed salt solutions over a range of temperatures (25°C, 35°C, 45°C and 55°C) and obtained the rate constants by fitting multiple rate laws and activation energies using the Arrhenius equation. Through statistical tests, the results showed that there was no significant di erence between the rate of single and mixed salt conditions, except for the zero order rate constants. Preliminary analysis indicated that the pseudo second order rate law best fit the data. Those rates were then used to evaluate the activation energies.
Urbanization introduces novel ecological pressures that can influence the evolution of genes critical to survival, including those of the immune system. We examined how urbanization affects the diversity and evolution of the major histocompatibility complex (MHC) class I exon 3 in House Finches (Haemorhous mexicanus) across urban, suburban, and rural habitats in Fresno, California, and Phoenix, Arizona. We hypothesized that urbanization would reduce MHC diversity through demographic constraints or drive adaptive divergence under differing pathogen pressures. Blood samples from 150 individuals were analyzed by PCR amplification and Illumina MiSeq sequencing of the MHC peptide-binding region. Alleles were identified using AmpliSAS and analyzed for richness, private alleles, supertypes, population structure (Jost’s D, STRUCTURE), and positive selection. Contrary to expectations, we found no significant differences in MHC class I allele number, supertype distribution, or population differentiation among habitats or between cities. Several positively selected codons were detected across all habitats, suggesting ongoing balancing selection maintaining MHC diversity despite urbanization. These results indicate that strong selection and gene flow may preserve immune gene variation in urban environments. We are now testing whether similar trends occur in MHC class II genes and whether neutral loci, such as microsatellites, exhibit comparable or contrasting patterns.
Plant-parasitic nematodes (PPNs) threaten global food production, with Meloidogyne incognita (root-knot nematodes, RKNs) being a major concern due to their ability to damage plant roots, reducing crop yields. Current control methods, including synthetic chemical fumigants, are harmful to humans and the environment. Chalcones, plant-derived precursors to flavonoids, have shown promising nematicidal effects, but their mechanism of action remains unknown. Our hypothesis suggests that chalcones inhibit a nematode protein by binding to its active site, preventing its function. Mutations in the corresponding gene may alter protein conformation, preventing chalcone binding and leading to resistance. To investigate this, our lab used Caenorhabditis elegans as a model organism. whole-genome sequencing followed by bioinformatics approach on ethyl methanesulfonate (EMS) generated resistant mutant lines, were used to identified candidate genes linked to resistance. The current study aimed to identify protein targets by validating putative genes responsible for C. elegans resistance to Chalcone 17 (the candidate genes are sly-1, Y62H9A.8, Y53F4B.21, C30D11.5, C50E10.13) and 30 (the candidate genes are clec-9, cyp-13A10, gst-5, ifb-2, K06A9.1) using CRISPR-Cas9. Single guide RNAs (sgRNAs) were designed, editing efficiency of each guide was tested in vitro, and visualized via agarose gel electrophoresis to detect shifts in gene sequence size after digestion. Microinjection facilitated in vivo delivery of sgRNAs for gene editing. Our findings identified ifb-2, an intermediate filament (IF) protein gene expressed in the intestine, as responsible for Chalcone 30 resistance. For Chalcone 17 resistance, we identified sly-1, a gene encoding a Sec1 family domain protein involved in vesicle transport from the endoplasmic reticulum to the Golgi. This strongly implied that the protein products of these gene were the primary cellular targets of the Chalcones. In silico molecular docking studies were conducted to characterized the atomic-level interactions and confirmed a strong binding affinity between the chalcones and their respective protein targets. Understanding how chalcones affect protein product of these genes will guide future studies on the structural and functional differences between mutant and wild-type proteins, advancing the development of targeted nematode control strategies.
Medical imaging datasets often exhibit class imbalances, particularly for underrepresented racial and minority groups, which can reduce the diagnostic accuracy and fairness of AI-driven Computer-Aided Diagnosis (CAD) systems. This study evaluates the use of Conditional Wasserstein Generative Adversarial Networks with Gradient Penalty (CWGAN-GP) to generate synthetic chest X-ray images for minority groups, creating a racially balanced training dataset. Multi-label classification of six thoracic diseases was performed using DenseNet-121.Experiments comparing racially imbalanced, racially balanced, and racially balanced augmented datasets demonstrated that synthetic image augmentation improved minority group performance, increasing the overall validation AUC from 0.767 to 0.858. These findings indicate that GAN-generated images can enhance diagnostic equity without compromising overall model performance, providing a scalable strategy to mitigate bias in medical AI systems.
Efficient oxidation catalysts are critical for advancing technologies such as fuel cells and carbon dioxide reduction. Transition metal phthalocyanines, including zinc phthalocyanine (ZnPC) and zinc tetrafluorophthalocyanine (ZnF4PC), show promise due to their catalytic potential, despite challenges from aggregation-induced activity loss. This research focuses on synthesizing ZnPC and ZnF4PC within zeolite Na-X (FAU) to leverage the zeolite's confined environment for enhanced catalytic performance. Experimental methodologies encompass ion exchange and melt synthesis techniques to embed ZnPC and ZnF4PC within the zeolite matrix. Initial results demonstrate successful synthesis of ZnPC@CBV780 and ZnF4PC@CBV780 composites, with characterization through UV-Vis spectroscopy and diffuse reflectance indicating promising outcomes. This study highlights the potential of utilizing zeolite-encapsulated ZnF4PC as an effective oxidation catalyst, offering pathways for further optimization in industrial applications.
Large galaxies often host a supermassive black hole (SMBH) at their center. This central region is known as an active galactic nucleus (AGN). The growth history of SMBHs across cosmic time is crucial to understanding galactic and SMBH evolution. Our ability to study this coevolution is hindered by a large fraction of heavily obscured AGN that reside within reservoirs of obscuring gas and dust. I present a method of searching for heavily obscured AGN in the local universe (>100 Mpc) using data from the Chandra X-ray Observatory. We can study the physical processes within AGN by analyzing their X-ray spectra. Obscured AGN exhibit intense iron emission lines in their X-ray spectra. We created images of galaxies isolating light near the wavelength of these iron lines to reveal hidden AGN. I will highlight some initial results from the survey, including the identification of a highly probable new heavily obscured AGN located a mere 15 Mpc from the Milky Way. In addition, we find that iron-band imaging identifies candidate inactive galaxies when combined with other multi-wavelength indicators. Our initial results thus suggest that narrow-band imaging is an effective way to identify heavily obscured AGN, holding prospects as a complementary strategy for current and future instruments to complete the AGN census.
Autosomal dominant optic atrophy (ADOA) is an inherited optic neuropathy caused by mutations in OPA1 that leads to retinal ganglion cell degeneration and retinal nerve fiber layer (RNFL) thinning. Optical coherence tomography (OCT) provides a noninvasive approach to quantify RNFL thickness, and circumpapillary RNFL thickness (cpRNFLT) measured from a peripapillary circular scan is commonly used in optic nerve disease evaluation. However, relying on a single global mean can obscure regional differences that may be important for characterizing early change and progression. To support translational studies in a clinically relevant large-animal model, we established a normative cpRNFLT database in rhesus macaques (Macaca mulatta) using OCT imaging from 29 rhesus macaques heterozygous for the OPA1 p.Ala8Ser (A8S) variant and 124 wild-type controls. cpRNFLT was summarized across nasal, temporal, superior, inferior, and global regions. High-resolution RNFL profiles were generated by extracting raw A-scan data (798 A-scans per B-scan) to enable more detailed assessment of regional variation. This normative reference provides baseline benchmarks for distinguishing normal anatomical variability from pathological thinning, supporting longitudinal monitoring, biomarker development, and evaluation of therapeutic strategies in primate models of optic neuropathy, including ADOA.
Cells respond to environmental stress by quickly altering gene expression, with translational control being one of the fastest and most critical mechanisms. In yeast, translation initiation is globally downregulated during stress while specific stress response genes are upregulated. A key regulator of this entire process is Ded1, a DEAD-box RNA helicase that plays important roles in translation initiation by unwinding secondary structures on the 5’ end of mRNA and interacting with the eIF4F complex. DEAD-box RNA helicases, characterized by a conserved D-E-A-D motif, are ATP-dependent RNA remodeling enzymes that enable dynamic regulation of RNA metabolism. Previous work has shown that in addition to its normal role promoting initiation, Ded1 also contributes to translation repression under stress conditions that involve inhibition of the Target-of-Rapamycin (TOR) pathway. Specifically, a ded1 mutant that deletes its C-terminal domain (ded1-ΔCT) results in resistance to rapamycin-induced stress, suggesting that the C-terminus plays an important role in stress-related translation regulation. However, the genetic and cellular pathways that interact with Ded1 to promote this translational control are not widely understood.
The primary objective of this thesis proposal is to investigate how Ded1, and its C-terminal domain regulate translation during stress and to characterize factors that modify this function. Building on a Synthetic Genetic Array (SGA) screen that identified genetic interactions with ded1-ΔCT, this project focuses on three candidate genes that were selected based on interaction strength and previously-identified involvement in stress related pathways: VTS1, a member of the CCR4-NOT complex that promotes deadenylation dependent mRNA decay; VPS34, a phosphatidylinositol 3-kinase required for autophagy and endosomal trafficking; and STP22, a component of the ESCRT-I complex that mediates endosomal protein sorting and vacuolar degradation. The goal is to characterize how these genes enhance or suppress the ded1-ΔCT phenotype under rapamycin-induced stress and to determine how their interaction with Ded1 influences translational control.
Preliminary growth assays show that deletion of VTS1 enhanced the rapamycin-resistant phenotype of ded1-ΔCT, while deletion of VPS34 suppressed this phenotype. These results suggest links between Ded1 and RNA binding, autophagy, and membrane trafficking pathways. They also suggest that Ded1 translational repression is integrated with multiple cell stress response mechanisms rather than acting in isolation. To investigate how Ded1 and its C-terminal domain regulate translation during stress, this study will combine genetic and cell biology approaches. Growth assays under rapamycin-induced stress will be used to fully characterize how deletion of STP22 modifies the ded1-ΔCT phenotype, allowing identification of its role as a potential genetic enhancer or suppressor. To assess how these interactions affect translational machinery, protein lysates will be prepared following rapamycin treatment and analyzed by western blotting to examine Ded1 and eIF4G1 protein behavior under stress. In addition, VTS1, VPS34, and STP22 will be HA-tagged to assess whether their protein levels are altered in the ded1-ΔCT background with and without rapamycin. To determine whether they directly interact with Ded1 through co-immunoprecipitation experiments.
Together, these approaches aim to clarify how Ded1 contributes to translation repression during stress and how genetic interactors modify this process. Understanding how Ded1 regulates translation stress response pathways is important because DEAD box RNA helicases, including DED1, are highly conserved and have been implicated in human diseases such as cancer. Therefore, this work will advance our understanding of translation regulation under stress and how Ded1 function is integrated in the networks of cell stress.
Basal cell carcinoma (BCC) is one of the most common types of cancer in the United States. In the absence of treatment, 20% to 29% tumors are known to diminish on their own. Further findings allude to the immune system being an essential component of spontaneous BCC regression. We are curious about the interactions between the immune system and BCC. Through investigating the relationship between the immune system and BCC, we have observed when certain genes related to the immune system are altered, the progression of BCC is effected. Thus, further leading us to heavily examine T and B cell behavior.
Claims of water permeability in nail polish exist, but certifications provided on websites raise concerns. Some lack specific details about the employed methods, while others are outdated or only cover testing of a limited range of product shades. The UToledo Cosmetic Science research group conducted in vitro testing of three water-permeable nail polishes and did not find substantial evidence supporting their water permeability. This ongoing research aims to replicate the in vitro findings using a non-invasive device, the nano Tewameter, to measure water loss (TOWL) through the human nail plate. To date, only a few studies have utilized a Tewameter to measure TOWL, none of which have specifically focused on water-permeable nail polishes.
The current diagnostic process for ADHD involves a trained professional observing a client’s behavior in routine settings, administering cognitive assessments, and hosting third-party interviews. Although clinically effective, the approach does not incorporate any biologically-based assessments thus leaving room for human bias. Prior research has identified a correlation between atypical oculomotor control in individuals with ADHD suggesting eye movements as a potential marker of the disorder. However, most of these studies have been conducted in highly controlled laboratory paradigms, providing sterile results but lacking the ecological validity of real-world attentional demands. In the present study, ninety-four university students wore a Varjo X4 mixed-reality headset then were immersed in a 360° pre-recorded video of a lecture. Their eye and head movements were recorded separately at 200 hertz throughout the task. The participant’s ADHD symptomatology was assessed using the Adult ADHD Self-Report Scale (ASRS v1.1). Linear regression analyses with Benjamini-Yekutieli corrections to control for multiple testing were used to examine correlations between ASRS scores and preselected saccade metrics. The results revealed that higher ASRS scores were significantly associated with increased mean saccade magnitude (p=0.014), increased mean peak acceleration (p=0.018), decreased mean peak deceleration (p=0.018), decreased mean inter-saccadic interval (p=0.018), and increased mean saccade duration (p=0.014). These findings extend prior research by demonstrating that irregular, ADHD-related oculomotor dynamics persist into naturalistic environments such as a mixed-reality environment. Additionally, the results support the potential of oculomotor dynamics as a biological screening tool for ADHD during assessment, bridging objective neurophysiological dynamics of ADHD with traditional behavioral models of the disorder.
The coastal sage scrub is a unique California ecosystem, and one of its most common plants, Artemisia californica, grows today in areas with some of the worst air pollution. These plants release volatile organic compounds that react with nitrogen oxides to form ozone, but models don’t fully capture which compounds are actually emitted. Last summer, our group discovered unusual, “irregular” monoterpenes from A. californica, Santolina Triene, and Artemisia Triene, compounds not typically found in current climate models. Using SPME-GC-MS, I began tracking VOCs emitted by A. Californica at the Bernard Field Station to observe how emissions change throughout the year. One plant seems to be a completely different chemotype, producing none of the irregular terpenes at all. To understand the biological origin of these compounds, I am now sectioning leaves and analyzing specific tissues to identify where these irregular terpenes are produced and to probe the underlying biosynthetic pathway. These results demonstrate that terpene chemistry in sage scrub ecosystems is more complex than previously thought, with implications for how we represent vegetation in air quality models.
Bilingual experience varies widely across individuals, yet research often relies on broad categorical labels such as “monolingual” and “bilingual,” which can obscure meaningful differences in proficiency, language use, and cross-language interaction. The present study examines the feasibility of developing a Composite Bilingual Index (CBI) that places Spanish–English speakers along a continuum of bilingual experience. Adult participants complete a 120-minute battery combining self-report and objective language measures. Self-report instruments assess language history, dominance, and social use, while objective measures assess receptive vocabulary in both languages, vocabulary depth, expressive naming, phonological memory, and cross-language lexical activation. In the larger study, these measures will be used to evaluate whether bilingual experience can be represented as a multidimensional construct reflecting vocabulary knowledge, processing efficiency, and language history/usage. Pilot data from nine participants already show substantial variability across the bilingual continuum. Spanish receptive vocabulary scores ranged from 38.8% to 80.0% (M = 52.5%), English vocabulary-depth scores ranged from 56.2% to 93.8% (M = 81.3%), and self-rated Spanish proficiency ranged from 1.25 to 5.88 on a 7-point scale, whereas self-rated English proficiency clustered near ceiling (M = 6.91). Descriptively, participants with higher objective Spanish vocabulary scores also tended to report higher Spanish proficiency. These preliminary findings support the feasibility of a multidimensional approach to bilingualism and suggest that self-report and objective measures capture meaningful variation in Spanish–English language experience, providing an initial foundation for a more precise and reproducible measure of bilingualism for cognitive, clinical, and educational research.
Students: Chigozirim Ifebi, Brent Kong
Prior work has shown that the “refusal direction” in Large Language Models (LLMs) is cross-lingually universal. However, multilingual jailbreaks can still work because the model fails earlier at triggering that refusal circuitry. Additionally, prior work has shown that refusal can be controlled by a single direction and that this direction transfers across many languages. Yet, multilingual jailbreaks remain practical. This project reframes the question from “is refusal language-dependent?” to “where does the refusal trigger fail across languages?” in order to localize and patch trigger failures under realistic cross-lingual perturbations. Instead of attributing refusal to a single neuron or monosemantic component, we leverage polysemanticity and conduct a refusal subspace analysis to identify distributed directions that jointly encode harmfulness detection and refusal activation. We build a stress suite of meaning-preserving perturbations (translationese, code-switching, transliteration, script mixing, and low-resource paraphrases), measure jailbreak success, and causally probe which representational subspaces fail to separate harmful from harmless prompts across languages. Inspired by recent findings that a universal refusal direction alone is insufficient for robust multilingual safety, we explicitly disentangle the harmfulness and refusal directions and analyze how weak separation in non-English representation spaces enables cross-lingual jailbreaks. Finally, we evaluate lightweight geometric interventions that sharpen harmfulness–harmlessness separation within the refusal-aligned subspace, aiming to improve multilingual robustness without collapsing behavior into English-centric routing.
Students: Chigozirim Ifebi, Brent Kong
Prior work has shown that the “refusal direction” in Large Language Models (LLMs) is cross-lingually universal. However, multilingual jailbreaks can still work because the model fails earlier at triggering that refusal circuitry. Additionally, prior work has shown that refusal can be controlled by a single direction and that this direction transfers across many languages. Yet, multilingual jailbreaks remain practical. This project reframes the question from “is refusal language-dependent?” to “where does the refusal trigger fail across languages?” in order to localize and patch trigger failures under realistic cross-lingual perturbations. Instead of attributing refusal to a single neuron or monosemantic component, we leverage polysemanticity and conduct a refusal subspace analysis to identify distributed directions that jointly encode harmfulness detection and refusal activation. We build a stress suite of meaning-preserving perturbations (translationese, code-switching, transliteration, script mixing, and low-resource paraphrases), measure jailbreak success, and causally probe which representational subspaces fail to separate harmful from harmless prompts across languages. Inspired by recent findings that a universal refusal direction alone is insufficient for robust multilingual safety, we explicitly disentangle the harmfulness and refusal directions and analyze how weak separation in non-English representation spaces enables cross-lingual jailbreaks. Finally, we evaluate lightweight geometric interventions that sharpen harmfulness–harmlessness separation within the refusal-aligned subspace, aiming to improve multilingual robustness without collapsing behavior into English-centric routing.
A conceptual Stirling-driven Small Modular Reactor (SMR) was designed and evaluated as an alternative to conventional small-scale nuclear systems. Instead of using a steam-based Rankine cycle, the design pairs a compact reactor core with a closed-cycle Stirling engine to convert heat into electricity. A detailed simulation modeled thermal output, heat transfer, temperature distribution, engine thermodynamics, mechanical work, and overall efficiency. The model was used to test steady-state operation and transient conditions such as startup and load changes. Results show the system can operate within safe thermal limits while maintaining stable performance and good efficiency. The engine responds smoothly to changes in heat input and power demand, with manageable thermal stress. Overall, the concept appears promising for modular low-carbon power, though it still requires experimental validation.