37,476 results on '"Wells, P"'
Search Results
2. High dimensional hyperbolic Coxeter groups that virtually fiber
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Lafont, Jean-Francois, Minemyer, Barry, Sorcar, Gangotryi, Stover, Matthew, and Wells, Joseph
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Mathematics - Geometric Topology ,Mathematics - Group Theory - Abstract
This paper provides an iterative procedure for constructing hyperbolic Coxeter groups that virtually fiber over $\mathbb{Z}$ that is flexible enough to yield infinitely many isomorphism classes in each virtual cohomological dimension (vcd) $n\geq 2$. Our procedure combines results of Jankiewicz, Norin, and Wise with a generalization of a construction due to Osajda involving a new simplicial thickening process. We also give a topological argument showing that the vcd of the right-angled Coxeter groups produced by our construction increases by exactly one with each iteration, guaranteeing that our process produces examples of every vcd.
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- 2025
3. TOI-2015b: a sub-Neptune in strong gravitational interaction with an outer non-transiting planet
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Barkaoui, K., Korth, J., Gaidos, E., Agol, E., Parviainen, H., Pozuelos, F. J., Palle, E., Narita, N., Grimm, S., Brady, M., Bean, J. L., Morello, G., Rackham, B. V., Burgasser, A. J., Van Grootel, V., Rojas-Ayala, B., Seifahrt, A., Marfil, E., Passegger, V. M., Stalport, M., Gillon, M., Collins, K. A., Shporer, A., Giacalone, S., Yalçınkaya, S., Ducrot, E., Timmermans, M., Triaud, A. H. M. J., de Wit, J., Soubkiou, A., Watkins, C. N., Aganze, C., Alonso, R., Amado, P. J., Basant, R., Bastürk, Ö., Benkhaldoun, Z., Burdanov, A., Calatayud-Borras, Y., Chouqar, J., Conti, D. M., Collins, K. I., Davoudi, F., Delrez, L., Dressing, C. D., de Leon, J., D'evora-Pajares, M., Demory, B. O., Dransfield, G., Esparza-Borges, E., Fern'andez-Rodriguez, G., Fukuda, I., Fukui, A., Gallardo, P. P. M., Garcia, L., Garcia, N. A., Ghachoui, M., Gerald'ia-González, S., Chew, Y. Gómez Maqueo, González-Rodríguez, J., Günther, M. N., Hayashi, Y., Horne, K., Hooton, M. J., Hsu, C. C., Ikuta, K., Isogai, K., Jehin, E., Jenkins, J. M., Kawauchi, K., Kagetani, T., Kawai, Y., Kasper, D., Kielkopf, J. F., Klagyivik, P., Lacedelli, G., Latham, D. W., Libotte, F., Luque, R., Livingston, J. H., Mancini, L., Massey, B., Mori, M., Torres, S. Muñoz, Murgas, F., Niraula, P., Orell-Miquel, J., Rapetti, David, Rebolo-Lopez, R., Ricker, G., Papini, R., Pedersen, P. P., Peláez-Torres, A., Pérez-Prieto, J. A., Poultourtzidis, E., Rodriguez, P. M., Queloz, D., Savel, A. B., Schanche, N., Sanchez-Benavente, M., Sibbald, L., Sefako, R., Sohy, S., Sota, A., Schwarz, R. P., Seager, S., Sebastian, D., Southworth, J., Stangret, M., Stefánsson, G., Stürmer, J., Srdoc, G., Thompson, S. J., Terada, Y., Vanderspek, R., Wang, G., Watanabe, N., Wilkin, F. P., Winn, J., Wells, R. D., Ziegler, C., and Zúñiga-Fernández, S.
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Astrophysics - Earth and Planetary Astrophysics - Abstract
TOI-2015 is a known exoplanetary system around an M4 dwarf star, consisting of a transiting sub-Neptune planet in a 3.35-day orbital period, TOI-2015b, accompanied by a non-transiting companion, TOI-2015c. High-precision RV measurements were taken with the MAROON-X spectrograph, and high-precision photometric data were collected several networks. We re-characterize the target star by combining optical spectr, Bayesian Model Averaging (BMA) and Spectral Energy Distribution (SED) analysis. The TOI-2015 host star is a K=10.3mag M4-type dwarf with a sub-solar metallicity of [Fe/H]=-0.31+/-0.16, and a Teff=3200K. Our photodynamical analysis of the system strongly favors the 5:3 mean motion resonance and in this scenario the planet b has an orbital period of 3.34days, a mass of Mp=9.02+/-0.34Me, a radius of Rp=3.309+/-0.012Re, resulting in a density of rhop= 1.40+/-0.06g/cm3, indicative of a Neptune like composition. Its transits exhibit large (>1hr) timing variations indicative of an outer perturber in the system. We performed a global analysis of the high-resolution RV measurements, the photometric data, and the TTVs, and inferred that TOI-2015 hosts a second planet, TOI-2015c, in a non-transiting configuration. TOI-2015c has an orbital period of Pc=5.583days and a mass of Mp=8.91+0.38-0.40Me. The dynamical configuration of TOI-2015b and TOI-2015c can be used to constrain the system's planetary formation and migration history. Based on the mass-radius composition models, TOI-2015b is a water-rich or rocky planet with a hydrogen-helium envelope. Moreover, TOI-2015b has a high transmission spectroscopic metric (TSM=149), making it a favorable target for future transmission spectroscopic observations with JWST to constrain the atmospheric composition of the planet. Such observations would also help to break the degeneracies in theoretical models of the planet's interior structure., Comment: The paper has been accepted for publication in Astronomy and Astrophysics
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- 2025
4. Overcoming data challenges to measure whole-person health in electronic health records
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Lotspeich, Sarah C., Kedar, Sheetal, Tahir, Rabeya, Keleghan, Aidan D., Miranda, Amelia, Duda, Stephany N., Bancks, Michael P., Wells, Brian J., Khanna, Ashish K., and Rigdon, Joseph
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Statistics - Methodology ,Statistics - Applications - Abstract
The allostatic load index (ALI) is a composite measure of whole-person health. Data from electronic health records (EHR) present a huge opportunity to operationalize the ALI in the learning health system, except they are prone to missingness and errors. Validation of EHR data (e.g., through chart reviews) can provide better-quality data, but realistically, only a subset of patients' data can be validated, and most protocols do not recover missing data. Using a representative sample of 1000 patients from the EHR at an extensive learning health system (100 of whom could be validated), we propose methods to design, conduct, and analyze statistically efficient and robust studies of the ALI and healthcare utilization. With semiparametric maximum likelihood estimation, we robustly incorporate all available data into statistical models. Using targeted design strategies, we examine ways to select the most informative patients for validation. Incorporating clinical expertise, we devise a novel validation protocol to promote the quality and completeness of EHR data. Validating the EHR data uncovered relatively low error rates and recovered some missing data. Through simulation studies based on preliminary data, residual sampling was identified as the most informative strategy for completing our validation study. Statistical models of partially validated data indicated higher odds of engaging in the healthcare system were associated with worse whole-person health (i.e., higher ALI), adjusting for age. Targeted validation with an enriched protocol allowed us to ensure the quality and promote the completeness of the EHR. Findings from our validation study were incorporated into analyses as we operationalize the ALI as a whole-person health measure intended to predict healthcare utilization in the academic learning health system., Comment: 16 pages, 2 tables, 6 figures, supplementary materials and code on GitHub
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- 2025
5. Exercise Specialists Evaluation of Robot-led Physical Therapy for People with Parkinsons Disease
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Lamsey, Matthew, Wells, Meredith D., Hamby, Lydia, Scanlon, Paige, Siddiqui, Rouida, Tan, You Liang, Feldman, Jerry, Kemp, Charles C., and Hackney, Madeleine E.
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Computer Science - Robotics - Abstract
Robot-led physical therapy (PT) offers a promising avenue to enhance the care provided by clinical exercise specialists (ES) and physical and occupational therapists to improve patients' adherence to prescribed exercises outside of a clinic, such as at home. Collaborative efforts among roboticists, ES, physical and occupational therapists, and patients are essential for developing interactive, personalized exercise systems that meet each stakeholder's needs. We conducted a user study in which 11 ES evaluated a novel robot-led PT system for people with Parkinson's disease (PD), introduced in [1], focusing on the system's perceived efficacy and acceptance. Utilizing a mixed-methods approach, including technology acceptance questionnaires, task load questionnaires, and semi-structured interviews, we gathered comprehensive insights into ES perspectives and experiences after interacting with the system. Findings reveal a broadly positive reception, which highlights the system's capacity to augment traditional PT for PD, enhance patient engagement, and ensure consistent exercise support. We also identified two key areas for improvement: incorporating more human-like feedback systems and increasing the robot's ease of use. This research emphasizes the value of incorporating robotic aids into PT for PD, offering insights that can guide the development of more effective and user-friendly rehabilitation technologies., Comment: 11 pages, 4 figures
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- 2025
6. Supervised Similarity for High-Yield Corporate Bonds with Quantum Cognition Machine Learning
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Rosaler, Joshua, Candelori, Luca, Kirakosyan, Vahagn, Musaelian, Kharen, Samson, Ryan, Wells, Martin T., Mehta, Dhagash, and Pasquali, Stefano
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Quantitative Finance - Statistical Finance ,Quantitative Finance - Computational Finance ,Quantitative Finance - Risk Management ,Quantitative Finance - Trading and Market Microstructure ,Statistics - Machine Learning - Abstract
We investigate the application of quantum cognition machine learning (QCML), a novel paradigm for both supervised and unsupervised learning tasks rooted in the mathematical formalism of quantum theory, to distance metric learning in corporate bond markets. Compared to equities, corporate bonds are relatively illiquid and both trade and quote data in these securities are relatively sparse. Thus, a measure of distance/similarity among corporate bonds is particularly useful for a variety of practical applications in the trading of illiquid bonds, including the identification of similar tradable alternatives, pricing securities with relatively few recent quotes or trades, and explaining the predictions and performance of ML models based on their training data. Previous research has explored supervised similarity learning based on classical tree-based models in this context; here, we explore the application of the QCML paradigm for supervised distance metric learning in the same context, showing that it outperforms classical tree-based models in high-yield (HY) markets, while giving comparable or better performance (depending on the evaluation metric) in investment grade (IG) markets.
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- 2025
7. COMBO and COMMA: R packages for regression modeling and inference in the presence of misclassified binary mediator or outcome variables
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Webb, Kimberly A. Hochstedler and Wells, Martin T.
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Statistics - Computation ,Statistics - Other Statistics - Abstract
Misclassified binary outcome or mediator variables can cause unpredictable bias in resulting parameter estimates. As more datasets that were not originally collected for research purposes are being used for studies in the social and health sciences, the need for methods that address data quality concerns is growing. In this paper, we describe two R packages, COMBO and COMMA, that implement bias-correction methods for misclassified binary outcome and mediator variables, respectively. These likelihood-based approaches do not require gold standard measures and allow for estimation of sensitivity and specificity rates for the misclassified variable(s). In addition, these R packages automatically apply crucial label switching corrections, allowing researchers to circumvent the inherent permutation invariance of the misclassification model likelihood. We demonstrate COMBO for single-outcome cases using a study of bar exam passage. We develop and evaluate a risk prediction model based on noisy indicators in a pretrial risk assessment study to demonstrate COMBO for multi-outcome cases. In addition, we use COMMA to evaluate the mediating effect of potentially misdiagnosed gestational hypertension on the maternal ethnicity-birthweight relationship., Comment: 99 pages, 7 figures
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- 2025
8. Bi-Lipschitz embeddings revisited
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Movahedi-Lankarani, H. and Wells, R.
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Mathematics - Metric Geometry ,Mathematics - General Topology - Abstract
Given a metric space (X, d), we continue our study of the distance function x\mapsto d(x,-) and its relation to bi-Lipschitz embeddings of (X, d) into R^N. As application, given a compact metric-measure space (X, d,\mu), we give three sufficient conditions for the existence of such a bi-Lipschitz embedding.
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- 2025
9. Geodesic Variational Bayes for Multiway Covariances
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Simonis, Quinn and Wells, Martin T.
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Statistics - Computation - Abstract
This article explores the optimization of variational approximations for posterior covariances of Gaussian multiway arrays. To achieve this, we establish a natural differential geometric optimization framework on the space using the pullback of the affine-invariant metric. In the case of a truly separable covariance, we demonstrate a joint approximation in the multiway space outperforms a mean-field approximation in optimization efficiency and provides a superior approximation to an unstructured Inverse-Wishart posterior under the average Mahalanobis distance of the data while maintaining a multiway interpretation. We moreover establish efficient expressions for the Euclidean and Riemannian gradients in both cases of the joint and mean-field approximation. We end with an analysis of commodity trade data., Comment: 40 pages, 4 figures, 1 table
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- 2025
10. Separable Geodesic Lagrangian Monte Carlo for Inference in 2-Way Covariance Models
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Simonis, Quinn and Wells, Martin T.
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Statistics - Computation - Abstract
Matrix normal models have an associated 4-tensor for their covariance representation. The covariance array associated with a matrix normal model is naturally represented as a Kronecker-product structured covariance associated with the vector normal, also known as separable covariance matrices. Separable covariance matrices have been studied extensively in the context of multiway data, but little work has been done within the scope of MCMC beyond Gibbs sampling. This paper aims to fill this gap by considering the pullback geometry induced from the Kronecker structure of the parameter space to develop a geodesic Hamiltonian Monte Carlo sampler., Comment: 67 pages, 24 figures, 1 table
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- 2025
11. Handling Incomplete Heterogeneous Data using a Data-Dependent Kernel
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Zhou, Youran, Bouadjenek, Mohamed Reda, Wells, Jonathan, and Aryal, Sunil
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Computer Science - Machine Learning - Abstract
Handling incomplete data in real-world applications is a critical challenge due to two key limitations of existing methods: (i) they are primarily designed for numeric data and struggle with categorical or heterogeneous/mixed datasets; (ii) they assume that data is missing completely at random, which is often not the case in practice -- in reality, data is missing in patterns, leading to biased results if these patterns are not accounted for. To address these two limitations, this paper presents a novel approach to handling missing values using the Probability Mass Similarity Kernel (PMK), a data-dependent kernel, which does not make any assumptions about data types and missing mechanisms. It eliminates the need for prior knowledge or extensive pre-processing steps and instead leverages the distribution of observed data. Our method unifies the representation of diverse data types by capturing more meaningful pairwise similarities and enhancing downstream performance. We evaluated our approach across over 10 datasets with numerical-only, categorical-only, and mixed features under different missing mechanisms and rates. Across both classification and clustering tasks, our approach consistently outperformed existing techniques, demonstrating its robustness and effectiveness in managing incomplete heterogeneous data.
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- 2025
12. Finding A Voice: Evaluating African American Dialect Generation for Chatbot Technology
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Finch, Sarah E., Paek, Ellie S., Kwon, Sejung, Choi, Ikseon, Wells, Jessica, Chandler, Rasheeta, and Choi, Jinho D.
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Computer Science - Computation and Language - Abstract
As chatbots become increasingly integrated into everyday tasks, designing systems that accommodate diverse user populations is crucial for fostering trust, engagement, and inclusivity. This study investigates the ability of contemporary Large Language Models (LLMs) to generate African American Vernacular English (AAVE) and evaluates the impact of AAVE usage on user experiences in chatbot applications. We analyze the performance of three LLM families (Llama, GPT, and Claude) in producing AAVE-like utterances at varying dialect intensities and assess user preferences across multiple domains, including healthcare and education. Despite LLMs' proficiency in generating AAVE-like language, findings indicate that AAVE-speaking users prefer Standard American English (SAE) chatbots, with higher levels of AAVE correlating with lower ratings for a variety of characteristics, including chatbot trustworthiness and role appropriateness. These results highlight the complexities of creating inclusive AI systems and underscore the need for further exploration of diversity to enhance human-computer interactions.
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- 2025
13. Quantitative Analysis of Honey Bee Blood-Ethanol Levels Following Exposure to Ethanol Vapors
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Stauch, Kiri, LeBlanc, Gabriel, Wells, Harrington, Wincheski, Riley, Grossner, Laura M, and Abramson, Charles I
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addiction ,ethanol ,Honey bee ,inebriator ,vapor ethanol - Abstract
The use of invertebrate models has allowed researchers to examine the mechanisms behind alcoholism and its effects with a cost-effective system. In that respect, the honey bee is an ideal model species to study the effects of ethanol (EtOH) due to the behavioral and physiological similarities of honey bees with humans when alcohol is consumed. Although both ingestion and inhalation methods are used to dose subjects in insect EtOH model systems, there is little literature on the use of the EtOH vapor-exposure method for experiments using honey bees. The experiment presented here provides baseline data for a dose EtOH-hemolymph response curve when using EtOH vapor-inhalation dosing with honey bees (Apis mellifera). Bees were exposed to EtOH vapors for 0, 1, 2.5, or 5 min, and hemolymph was collected 1 min post EtOH exposure. Hemolymph samples were analyzed using gas chromatography (GC) for hemolymph EtOH concentration. The ethanol-hemolymph level of the bees increased linearly with exposure time. The results provide a dosing guide for hemolymph EtOH level in the honey bee model ethanol-inhalation system, and thus makes the honey bee model more robust.
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- 2025
14. Ultrasensitive detection of intact SARS-CoV-2 particles in complex biofluids using microfluidic affinity capture
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Rabe, Daniel C, Choudhury, Adarsh, Lee, Dasol, Luciani, Evelyn G, Ho, Uyen K, Clark, Alex E, Glasgow, Jeffrey E, Veiga, Sara, Michaud, William A, Capen, Diane, Flynn, Elizabeth A, Hartmann, Nicola, Garretson, Aaron F, Muzikansky, Alona, Goldberg, Marcia B, Kwon, Douglas S, Yu, Xu, Carlin, Aaron F, Theriault, Yves, Wells, James A, Lennerz, Jochen K, Lai, Peggy S, Rabi, Sayed Ali, Hoang, Anh N, Boland, Genevieve M, and Stott, Shannon L
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Analytical Chemistry ,Biomedical and Clinical Sciences ,Chemical Sciences ,Lung ,Biotechnology ,Emerging Infectious Diseases ,Coronaviruses ,Infectious Diseases ,Bioengineering ,Biodefense ,Infection ,Good Health and Well Being ,Humans ,SARS-CoV-2 ,COVID-19 ,Angiotensin-Converting Enzyme 2 ,Saliva ,Viral Load ,Lab-On-A-Chip Devices ,Feces ,Microfluidics ,Microfluidic Analytical Techniques - Abstract
Measuring virus in biofluids is complicated by confounding biomolecules coisolated with viral nucleic acids. To address this, we developed an affinity-based microfluidic device for specific capture of intact severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). Our approach used an engineered angiotensin-converting enzyme 2 to capture intact virus from plasma and other complex biofluids. Our device leverages a staggered herringbone pattern, nanoparticle surface coating, and processing conditions to achieve detection of as few as 3 viral copies per milliliter. We further validated our microfluidic assay on 103 plasma, 36 saliva, and 29 stool samples collected from unique patients with COVID-19, showing SARS-CoV-2 detection in 72% of plasma samples. Longitudinal monitoring in the plasma revealed our device's capacity for ultrasensitive detection of active viral infections over time. Our technology can be adapted to target other viruses using relevant cell entry molecules for affinity capture. This versatility underscores the potential for widespread application in viral load monitoring and disease management.
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- 2025
15. Mechanism-guided engineering of a minimal biological particle for genome editing
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Ngo, Wayne, Peukes, Julia, Baldwin, Alisha, Xue, Zhiwei Wayne, Hwang, Sidney, Stickels, Robert R, Lin, Zhi, Satpathy, Ansuman T, Wells, James A, Schekman, Randy, Nogales, Eva, and Doudna, Jennifer A
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Medical Biotechnology ,Biomedical and Clinical Sciences ,Physical Sciences ,Genetics ,Bioengineering ,Gene Therapy ,Biotechnology ,5.2 Cellular and gene therapies ,Generic health relevance ,Gene Editing ,Humans ,CRISPR-Cas Systems ,Lentivirus ,Ribonucleoproteins ,HEK293 Cells ,CRISPR-Associated Protein 9 ,Genetic Vectors ,genome editing ,delivery ,viral- like particles ,viral-like particles - Abstract
The widespread application of genome editing to treat and cure disease requires the delivery of genome editors into the nucleus of target cells. Enveloped delivery vehicles (EDVs) are engineered virally derived particles capable of packaging and delivering CRISPR-Cas9 ribonucleoproteins (RNPs). However, the presence of lentiviral genome encapsulation and replication proteins in EDVs has obscured the underlying delivery mechanism and precluded particle optimization. Here, we show that Cas9 RNP nuclear delivery is independent of the native lentiviral capsid structure. Instead, EDV-mediated genome editing activity corresponds directly to the number of nuclear localization sequences on the Cas9 enzyme. EDV structural analysis using cryo-electron tomography and small molecule inhibitors guided the removal of ~80% of viral residues, creating a minimal EDV (miniEDV) that retains full RNP delivery capability. MiniEDVs are 25% smaller yet package equivalent amounts of Cas9 RNPs relative to the original EDVs and demonstrated increased editing in cell lines and therapeutically relevant primary human T cells. These results show that virally derived particles can be streamlined to create efficacious genome editing delivery vehicles with simpler production and manufacturing.
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- 2025
16. Systematic ocular phenotyping of 8,707 knockout mouse lines identifies genes associated with abnormal corneal phenotypes
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Vo, Peter, Imai-Leonard, Denise M, Yang, Benjamin, Briere, Andrew, Shao, Andy, Casanova, M Isabel, Adams, David, Amano, Takanori, Amarie, Oana, Berberovic, Zorana, Bower, Lynette, Braun, Robert, Brown, Steve, Burrill, Samantha, Cho, Soo Young, Clementson-Mobbs, Sharon, D’Souza, Abigail, Dickinson, Mary, Eskandarian, Mohammad, Flenniken, Ann M, Fuchs, Helmut, Gailus-Durner, Valerie, Heaney, Jason, Hérault, Yann, Angelis, Martin Hrabe de, Hsu, Chih-Wei, Jin, Shundan, Joynson, Russell, Kang, Yeon Kyung, Kim, Haerim, Masuya, Hiroshi, Meziane, Hamid, Murray, Steve, Nam, Ki-Hoan, Noh, Hyuna, Nutter, Lauryl MJ, Palkova, Marcela, Prochazka, Jan, Raishbrook, Miles Joseph, Riet, Fabrice, Ryan, Jennifer, Salazar, Jason, Seavey, Zachery, Seavitt, John Richard, Sedlacek, Radislav, Selloum, Mohammed, Seo, Kyoung Yul, Seong, Je Kyung, Shin, Hae-Sol, Shiroishi, Toshihiko, Stewart, Michelle, Svenson, Karen, Tamura, Masaru, Tolentino, Heather, Udensi, Uchechukwu, Wells, Sara, White, Jacqueline, Willett, Amelia, Wotton, Janine, Wurst, Wolfgang, Yoshiki, Atsushi, Lanoue, Louise, Lloyd, KC Kent, Leonard, Brian C, Roux, Michel J, McKerlie, Colin, and Moshiri, Ala
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Biological Sciences ,Bioinformatics and Computational Biology ,Biomedical and Clinical Sciences ,Ophthalmology and Optometry ,Biotechnology ,Genetics ,Eye Disease and Disorders of Vision ,2.1 Biological and endogenous factors ,Eye ,Animals ,Mice ,Knockout ,Phenotype ,Mice ,Humans ,Cornea ,Corneal Diseases ,Corneal dysmorphologies ,Corneal disease ,Corneal dystrophies ,International Mouse Phenotyping Consortium ,Information and Computing Sciences ,Medical and Health Sciences ,Bioinformatics ,Biological sciences ,Biomedical and clinical sciences - Abstract
PurposeCorneal dysmorphologies (CDs) are typically classified as either regressive degenerative corneal dystrophies (CDtrs) or defective growth and differentiation-driven corneal dysplasias (CDyps). Both eye disorders have multifactorial etiologies. While previous work has elucidated many aspects of CDs, such as presenting symptoms, epidemiology, and pathophysiology, the genetic mechanisms remain incompletely understood. The purpose of this study was to analyze phenotype data from 8,707 knockout mouse lines to identify new genes associated with the development of CDs in humans.Methods8,707 knockout mouse lines phenotyped by the International Mouse Phenotyping Consortium were queried for genes associated with statistically significant (P
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- 2025
17. Deep sequencing as a diagnostic tool in patients with suspected primary vitreoretinal lymphoma
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Choo, Charlene, Cote, Olivia, Bostwick, Karina, Regueiro, Matthew, Wells, Jill, Grossniklaus, Hans E, Gonzales, John, Yeh, Steven, Hinterwirth, Armin, Doan, Thuy, and Shantha, Jessica G
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Biomedical and Clinical Sciences ,Oncology and Carcinogenesis ,Ophthalmology and Optometry ,Lymphoma ,Clinical Research ,Cancer ,Eye Disease and Disorders of Vision ,Lymphatic Research ,Rare Diseases ,Hematology ,4.2 Evaluation of markers and technologies ,2.1 Biological and endogenous factors ,4.1 Discovery and preclinical testing of markers and technologies ,Humans ,Male ,Female ,Retinal Neoplasms ,Retrospective Studies ,Middle Aged ,Aged ,Vitreous Body ,High-Throughput Nucleotide Sequencing ,Flow Cytometry ,Intraocular Lymphoma ,Vitrectomy ,Polymerase Chain Reaction ,Aged ,80 and over ,Adult ,Metagenomics ,Diagnostic tests/Investigation ,Inflammation ,Neoplasia ,Genetics ,Ophthalmologic Surgical Procedures ,Clinical Sciences ,Opthalmology and Optometry ,Public Health and Health Services ,Ophthalmology & Optometry ,Clinical sciences ,Ophthalmology and optometry - Abstract
PurposeTo compare the diagnostic utility of metagenomic deep sequencing (MDS) to cytology, flow cytometry and gene rearrangement by PCR in ocular samples of patients with suspected vitreoretinal lymphoma (VRL).MethodsPatients with suspected VRL underwent ocular sampling of one or both eyes at the Emory Eye Center from September 2017 to June 2022. Ocular samples were evaluated with MDS and conventional diagnostics. MDS was performed at the Ralph and Sophie Heintz Laboratory at the F.I. Proctor Foundation. Relevant demographic and clinical data were retrospectively collected from medical records. Patients were diagnosed with VRL based on clinical assessment and conventional diagnostic testing.ResultsThis study included 13 patients with suspected VRL who underwent diagnostic vitrectomy, including 1 patient who had an additional subretinal biopsy. Six patients (46.2%) were diagnosed with VRL. Among patients diagnosed with VRL, MDS detected pathogenic mutations in 5 out of 6 patients (83.3%) while cytology was positive for VRL in 4 out of 6 patients (66.7%), flow cytometry in 4 out of 4 patients (100.0%) and PCR in 4 out of 4 patients (100.0%). MDS detected mutations in MYD88 in 2 out of 6 patients diagnosed with VRL. In 7 patients (53.8%) not diagnosed with VRL, MDS detected pathogenic lymphoma mutations in 2 patients (28.6%).DiscussionMDS detected pathogenic mutations in five out of six patients diagnosed with VRL, including in two patients with negative cytology, demonstrating its potential to improve diagnostic rates of VRL as an adjunctive test.
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- 2025
18. Quality of Life in People With HIV at the End of Life: Preliminary Results From the Last Gift Observational Cohort Study
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Coler, Brahm, Smith, Gordon Honerkamp, Arora, Anish K, Wells, Adam, Solso, Stephanie, Dullano, Cheryl, Concha-Garcia, Susanna, Hill, Eddie, Riggs, Patricia K, Korolkova, Anastasia, Deiss, Robert, Smith, Davey, Sundermann, Erin E, Gianella, Sara, Chaillon, Antoine, and Dubé, Karine
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Health Services and Systems ,Health Sciences ,Behavioral and Social Science ,Depression ,Clinical Research ,Sexually Transmitted Infections ,Mental Health ,Mental Illness ,Infectious Diseases ,Minority Health ,HIV/AIDS ,Brain Disorders ,Health Disparities ,7.1 Individual care needs ,Mental health ,Good Health and Well Being ,Humans ,Quality of Life ,Male ,Middle Aged ,Female ,HIV Infections ,Aged ,Cohort Studies ,California ,Terminal Care ,Anxiety ,Adult ,quality of life ,people with HIV ,end of life ,Last Gift ,mental health ,depression ,anxiety ,Clinical Sciences ,Public Health and Health Services ,Virology ,Clinical sciences ,Epidemiology ,Public health - Abstract
BackgroundAs people living with HIV (PWH) age, they face new challenges that can have a negative impact on their quality of life (QOL) and mental health.SettingThis study enrolled PWH at the end of life (EOL) who were actively engaged in cure-related research in Southern California, United States. EOL was defined as having a prognosis of 6 months or less to live. We examined the relationship between QOL, mental health, and research participation.MethodsStructured assessments were used to collect comprehensive data on QOL and mental health.ResultsFrom 2017 to 2023, 35 PWH in their final stages of life who were actively engaged in cure-related research were enrolled. Their median age was 62.7 years, and most were White or otherwise non-Hispanic/non-Latino (90.6%), and male (86.7%). Changes in QOL and the presence of neurologic and psychiatric conditions, with a focus on depression and anxiety, were the primary outcomes assessed in this study. Participants had stable QOL scores throughout the study. There was an inverse relationship between QOL and Beck Depression Inventory scores, with higher mean QOL scores being associated with lower mean Beck Depression Inventory scores ( P < 0.001).ConclusionsQOL remained stable among PWH who participate in cure-related research at EOL. The inverse relationship between QOL and depressive symptoms suggests that participation in cure-related research may improve QOL or reduce depressive symptoms in this population. Future interventions should look into ways to improve the well-being of PWH at EOL through research and customized mental health interventions.
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- 2025
19. The role of Enhanced Geothermal Systems in the energy transition at Cornell -- Report of a workshop held at Cornell University, Ithaca, October 23-24, 2024
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Arson, Chloé, Balog-Way, Dominic, Beckers, Koenraad, Bezner-Kerr, Wayne, Carson, Sarah, Edwards, Stacey, Fulton, Patrick, Gillenwater, Michael, Goetze, Trystan, Gustafson, Olaf, Ingraffea, Tony, Jordan, Terry, McComas, Katherine, Olmstead, Sheila, Saltiel, Seth, Tester, Jeff, Tucker, Cole, and Wells, Marguerite
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Physics - Geophysics - Abstract
To review the lessons learnt from recent deep geothermal case studies and plan strategically the research, development, regulation, and communication work required for the implementation of an Enhanced Geothermal System (EGS) at Cornell University, a group of engineers and scholars convened a two-day workshop on the Ithaca campus, on October 23-24, 2024. The event was funded by Cornell Atkinson Center for Sustainability. This report is a summary of the content of the presentations and discussions that took place during the workshop. The first section focuses on philosophical, sociological, economic, and regulatory questions posed by EGS deployment as a means to mitigate climate change. The second section tackles the scientific and technological research areas associated with EGS. The third section aims to assess the feasibility of developing EGS for heat direct use at Cornell University, based on results and information available to date. The report concludes with a summary of the most salient technological and scientific breakthroughs, and a plan for future technological and academic engagement in EGS projects at Cornell.
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- 2024
20. Coverage-Constrained Human-AI Cooperation with Multiple Experts
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Zhang, Zheng, Nguyen, Cuong, Wells, Kevin, Do, Thanh-Toan, Rosewarne, David, and Carneiro, Gustavo
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Computer Science - Machine Learning ,Computer Science - Computer Vision and Pattern Recognition - Abstract
Human-AI cooperative classification (HAI-CC) approaches aim to develop hybrid intelligent systems that enhance decision-making in various high-stakes real-world scenarios by leveraging both human expertise and AI capabilities. Current HAI-CC methods primarily focus on learning-to-defer (L2D), where decisions are deferred to human experts, and learning-to-complement (L2C), where AI and human experts make predictions cooperatively. However, a notable research gap remains in effectively exploring both L2D and L2C under diverse expert knowledge to improve decision-making, particularly when constrained by the cooperation cost required to achieve a target probability for AI-only selection (i.e., coverage). In this paper, we address this research gap by proposing the Coverage-constrained Learning to Defer and Complement with Specific Experts (CL2DC) method. CL2DC makes final decisions through either AI prediction alone or by deferring to or complementing a specific expert, depending on the input data. Furthermore, we propose a coverage-constrained optimisation to control the cooperation cost, ensuring it approximates a target probability for AI-only selection. This approach enables an effective assessment of system performance within a specified budget. Also, CL2DC is designed to address scenarios where training sets contain multiple noisy-label annotations without any clean-label references. Comprehensive evaluations on both synthetic and real-world datasets demonstrate that CL2DC achieves superior performance compared to state-of-the-art HAI-CC methods.
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- 2024
21. Fair Distillation: Teaching Fairness from Biased Teachers in Medical Imaging
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Masroor, Milad, Hassan, Tahir, Tian, Yu, Wells, Kevin, Rosewarne, David, Do, Thanh-Toan, and Carneiro, Gustavo
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Computer Science - Computer Vision and Pattern Recognition - Abstract
Deep learning has achieved remarkable success in image classification and segmentation tasks. However, fairness concerns persist, as models often exhibit biases that disproportionately affect demographic groups defined by sensitive attributes such as race, gender, or age. Existing bias-mitigation techniques, including Subgroup Re-balancing, Adversarial Training, and Domain Generalization, aim to balance accuracy across demographic groups, but often fail to simultaneously improve overall accuracy, group-specific accuracy, and fairness due to conflicts among these interdependent objectives. We propose the Fair Distillation (FairDi) method, a novel fairness approach that decomposes these objectives by leveraging biased ``teacher'' models, each optimized for a specific demographic group. These teacher models then guide the training of a unified ``student'' model, which distills their knowledge to maximize overall and group-specific accuracies, while minimizing inter-group disparities. Experiments on medical imaging datasets show that FairDi achieves significant gains in both overall and group-specific accuracy, along with improved fairness, compared to existing methods. FairDi is adaptable to various medical tasks, such as classification and segmentation, and provides an effective solution for equitable model performance.
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- 2024
22. Nuclear Dependence of Beam Normal Single Spin Asymmetry in Elastic Scattering from Nuclei
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Gal, Ciprian, Ghosh, Chandan, Park, Sanghwa, Adhikari, Devi, Armstrong, David, Beminiwattha, Rakitha, Camsonne, Alexandre, Chandrasena, Shashini, Dalton, Mark, Deshpande, Abhay, Gaskell, Dave, Higinbotham, Douglas, Horowitz, Charles J., King, Paul, Kumar, Krishna, Kutz, Tyler, Mammei, Juliette, McNulty, Dustin, Michaels, Robert, Palatchi, Caryn, Panta, Anil, Paschke, Kent, Pitt, Mark, Sen, Arindam, Simicevic, Neven, Weliyanga, Lasitha, and Wells, Steven P.
- Subjects
Nuclear Experiment - Abstract
We propose to measure the beam normal single spin asymmetry in elastic scattering of transversely polarized electron from target nuclei with 12 $\leq Z \leq$ 90 at Q$^2$ = 0.0092 GeV$^2$ to study its nuclear dependence. While the theoretical calculations based on two-photon exchange suggest no nuclear dependence at this kinematics, the results of 208Pb from Jefferson Lab show a striking disagreement from both theoretical predictions and light nuclei measurements. The proposed measurements will provide new data for intermediate to heavy nuclei where no data exists for $Z \geq$ 20 in the kinematics of previous high-energy experiments. It will allow one to investigate the missing contributions that are not accounted in the current theoretical models., Comment: Submitted to Jefferson Lab PAC52
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- 2024
23. AstroMLab 3: Achieving GPT-4o Level Performance in Astronomy with a Specialized 8B-Parameter Large Language Model
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de Haan, Tijmen, Ting, Yuan-Sen, Ghosal, Tirthankar, Nguyen, Tuan Dung, Accomazzi, Alberto, Wells, Azton, Ramachandra, Nesar, Pan, Rui, and Sun, Zechang
- Subjects
Astrophysics - Instrumentation and Methods for Astrophysics - Abstract
AstroSage-Llama-3.1-8B is a domain-specialized natural-language AI assistant tailored for research in astronomy, astrophysics, and cosmology. Trained on the complete collection of astronomy-related arXiv papers from 2007-2024 along with millions of synthetically-generated question-answer pairs and other astronomical literature, AstroSage-Llama-3.1-8B demonstrates remarkable proficiency on a wide range of questions. AstroSage-Llama-3.1-8B scores 80.9% on the AstroMLab-1 benchmark, greatly outperforming all models -- proprietary and open-weight -- in the 8-billion parameter class, and performing on par with GPT-4o. This achievement demonstrates the potential of domain specialization in AI, suggesting that focused training can yield capabilities exceeding those of much larger, general-purpose models. AstroSage-Llama-3.1-8B is freely available, enabling widespread access to advanced AI capabilities for astronomical education and research.
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- 2024
24. A Bayesian Model of Credence in Low Energy Supersymmetry
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Dawid, Richard and Wells, James D.
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Physics - History and Philosophy of Physics ,High Energy Physics - Phenomenology - Abstract
We carry out a quantitative Bayesian analysis of the evolution of credences in low energy supersymmetry (SUSY) in light of the most relevant empirical data. The analysis is based on the assumption that observers apply principles of optimism or pessimism about theory building in a coherent way. On this basis, we provide a rough assessment of the current range of plausible credences in low energy SUSY and determine in which way LHC data changes those credences. For observers who had been optimistic about low energy SUSY before the LHC, the method reports that LHC data does lead to decreased credences in accordance with intuition. The decrease is moderate, however, and keeps posteriors at very substantial levels. The analysis further establishes that a very high but not yet indefensible degree of pessimism regarding the success chances of theory building still results in quite significant credences in GUT and low energy SUSY for the time right before the start of the LHC. The pessimist's credence in low energy SUSY remains nearly unchanged once LHC data is taken into account., Comment: 30 pages
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- 2024
25. Comparing multilevel and fixed effect approaches in the generalized linear model setting
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Bai, He, Ferguson, Asa, Wainstein, Leonard, and Wells, Jonathan
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Statistics - Methodology - Abstract
We extend prior work comparing linear multilevel models (MLM) and fixed effect (FE) models to the generalized linear model (GLM) setting, where the coefficient on a treatment variable is of primary interest. This leads to three key insights. (i) First, as in the linear setting, MLM can be thought of as a regularized form of FE. This explains why MLM can show large biases in its treatment coefficient estimates when group-level confounding is present. However, unlike the linear setting, there is not an exact equivalence between MLM and regularized FE coefficient estimates in GLMs. (ii) Second, we study a generalization of "bias-corrected MLM" (bcMLM) to the GLM setting. Neither FE nor bcMLM entirely solves MLM's bias problem in GLMs, but bcMLM tends to show less bias than does FE. (iii) Third, and finally, just like in the linear setting, MLM's default standard errors can misspecify the true intragroup dependence structure in the GLM setting, which can lead to downwardly biased standard errors. A cluster bootstrap is a more agnostic alternative. Ultimately, for non-linear GLMs, we recommend bcMLM for estimating the treatment coefficient, and a cluster bootstrap for standard errors and confidence intervals. If a bootstrap is not computationally feasible, then we recommend FE with cluster-robust standard errors.
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- 2024
26. Pomeranchuk instability from electronic correlations in CsTi$_3$Bi$_5$ kagome metal
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Bigi, Chiara, Dürrnagel, Matteo, Klebl, Lennart, Consiglio, Armando, Pokharel, Ganesh, Bertran, Francois, Févre, Patrick Le, Jaouen, Thomas, Tchouekem, Hulerich C., Turban, Pascal, De Vita, Alessandro, Miwa, Jill A., Wells, Justin W., Oh, Dongjin, Comin, Riccardo, Thomale, Ronny, Zeljkovic, Ilija, Ortiz, Brenden R., Wilson, Stephen D., Sangiovanni, Giorgio, Mazzola, Federico, and Di Sante, Domenico
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Condensed Matter - Strongly Correlated Electrons ,Condensed Matter - Materials Science - Abstract
Among many-body instabilities in correlated quantum systems, electronic nematicity, defined by the spontaneous breaking of rotational symmetry, has emerged as a critical phenomenon, particularly within high-temperature superconductors. Recently, this behavior has been identified in CsTi$_3$Bi$_5$, a member of the AV$_3$Sb$_5$ (A = K, Rb, Cs) kagome family, recognized for its intricate and unconventional quantum phases. Despite accumulating indirect evidence, the fundamental mechanisms driving nematicity in CsTi$_3$Bi$_5$ remain inadequately understood, sparking ongoing debates. In this study, we employ polarization-dependent angle-resolved photoemission spectroscopy to reveal definitive signatures of an orbital-selective nematic deformation in the electronic structure of CsTi$_3$Bi$_5$. This direct experimental evidence underscores the pivotal role of orbital degrees of freedom in symmetry breaking, providing new insights into the complex electronic environment. By applying the functional renormalization group technique to a fully interacting ab initio model, we demonstrate the emergence of a finite angular momentum ($d$-wave) Pomeranchuk instability in CsTi$_3$Bi$_5$, driven by the concomitant action of electronic correlations within specific orbital channels and chemical potential detuning away from Van Hove singularities. By elucidating the connection between orbital correlations and symmetry-breaking instabilities, this work lays a crucial foundation for future investigations into the broader role of orbital selectivity in quantum materials, with far-reaching implications for the design and manipulation of novel electronic phases.
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- 2024
27. Unified Cross-Modal Image Synthesis with Hierarchical Mixture of Product-of-Experts
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Dorent, Reuben, Haouchine, Nazim, Golby, Alexandra, Frisken, Sarah, Kapur, Tina, and Wells, William
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Computer Science - Computer Vision and Pattern Recognition ,Computer Science - Machine Learning ,Electrical Engineering and Systems Science - Image and Video Processing - Abstract
We propose a deep mixture of multimodal hierarchical variational auto-encoders called MMHVAE that synthesizes missing images from observed images in different modalities. MMHVAE's design focuses on tackling four challenges: (i) creating a complex latent representation of multimodal data to generate high-resolution images; (ii) encouraging the variational distributions to estimate the missing information needed for cross-modal image synthesis; (iii) learning to fuse multimodal information in the context of missing data; (iv) leveraging dataset-level information to handle incomplete data sets at training time. Extensive experiments are performed on the challenging problem of pre-operative brain multi-parametric magnetic resonance and intra-operative ultrasound imaging., Comment: Manuscript under review
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- 2024
28. Direct measurement of 2DEG states in shallow Si:Sb $\delta$-layers
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Strand, Frode S., Cooil, Simon P., Campbell, Quinn T., Flounders, John J., Røst, Håkon I., Åsland, Anna Cecilie, Skarpeid, Alv Johan, Stalsberg, Marte P., Hu, Jinbang, Bakkelund, Johannes, Bjelland, Victoria, Preobrajenski, Alexei B., Li, Zheshen, Bianchi, Marco, Miwa, Jill A., and Wells, Justin W.
- Subjects
Condensed Matter - Materials Science - Abstract
We investigate the electronic structure of high-density layers of Sb dopants in a silicon host, so-called Si:Sb $\delta$-layers. We show that, in spite of the known challenges in producing highly confined Sb $\delta$-layers, sufficient confinement is created such that the lowest conduction band states ($\Gamma$ states, studied in depth in other silicon $\delta$-layers), become occupied and can be observed using angle-resolved photoemission spectroscopy. The electronic structure of the Si:Sb $\delta$-layers closely resembles that of Si:P systems, where the observed conduction band is near-parabolic and slightly anisotropic in the $\mathbf{k}_\parallel$ plane. The observed $\Gamma$ state extends ~ 1 nm in the out-of-plane direction, which is slightly wider than the 1/3 monolayer thick dopant distribution. This is caused by a small segregation of the dopant layer, which is nevertheless minimal when comparing with earlier published attempts. Our results serve to demonstrate that Sb is still a feasible dopant alternative for use in the semiconductor $\delta$-layer platform, providing similar electronic functionality to Si:P systems. Additionally, it has the advantages of being less expensive, more controllable, safer to handle, and more compatible with industrial patterning techniques. Si:Sb is therefore a viable platform for emerging quantum device applications.
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- 2024
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29. Generative Models, Humans, Predictive Models: Who Is Worse at High-Stakes Decision Making?
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Mallari, Keri, Adebayo, Julius, Inkpen, Kori, Wells, Martin T., Gordo, Albert, and Tan, Sarah
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Computer Science - Artificial Intelligence ,Computer Science - Machine Learning - Abstract
Despite strong advisory against it, large generative models (LMs) are already being used for decision making tasks that were previously done by predictive models or humans. We put popular LMs to the test in a high-stakes decision making task: recidivism prediction. Studying three closed-access and open-source LMs, we analyze the LMs not exclusively in terms of accuracy, but also in terms of agreement with (imperfect, noisy, and sometimes biased) human predictions or existing predictive models. We conduct experiments that assess how providing different types of information, including distractor information such as photos, can influence LM decisions. We also stress test techniques designed to either increase accuracy or mitigate bias in LMs, and find that some to have unintended consequences on LM decisions. Our results provide additional quantitative evidence to the wisdom that current LMs are not the right tools for these types of tasks.
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- 2024
30. Mixed-precision finite element kernels and assembly: Rounding error analysis and hardware acceleration
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Croci, M. and Wells, G. N.
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Mathematics - Numerical Analysis ,Computer Science - Hardware Architecture ,Computer Science - Mathematical Software - Abstract
In this paper we develop the first fine-grained rounding error analysis of finite element (FE) cell kernels and assembly. The theory includes mixed-precision implementations and accounts for hardware-acceleration via matrix multiplication units, thus providing theoretical guidance for designing reduced- and mixed-precision FE algorithms on CPUs and GPUs. Guided by this analysis, we introduce hardware-accelerated mixed-precision implementation strategies which are provably robust to low-precision computations. Indeed, these algorithms are accurate to the lower-precision unit roundoff with an error constant that is independent from: the conditioning of FE basis function evaluations, the ill-posedness of the cell, the polynomial degree, and the number of quadrature nodes. Consequently, we present the first AMX-accelerated FE kernel implementations on Intel Sapphire Rapids CPUs. Numerical experiments demonstrate that the proposed mixed- (single/half-) precision algorithms are up to 60 times faster than their double precision equivalent while being orders of magnitude more accurate than their fully half-precision counterparts., Comment: Keywords: Mixed precision, finite element method, finite element kernel and assembly, rounding error analysis, hardware acceleration, matrix units, Intel AMX
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- 2024
31. Facing Identity: The Formation and Performance of Identity via Face-Based Artificial Intelligence Technologies
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Santo, Wells Lucas
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Computer Science - Computers and Society ,Computer Science - Artificial Intelligence - Abstract
How is identity constructed and performed in the digital via face-based artificial intelligence technologies? While questions of identity on the textual Internet have been thoroughly explored, the Internet has progressed to a multimedia form that not only centers the visual, but specifically the face. At the same time, a wealth of scholarship has and continues to center the topics of surveillance and control through facial recognition technologies (FRTs), which have extended the logics of the racist pseudoscience of physiognomy. Much less work has been devoted to understanding how such face-based artificial intelligence technologies have influenced the formation and performance of identity. This literature review considers how such technologies interact with faciality, which entails the construction of what a face may represent or signify, along axes of identity such as race, gender, and sexuality. In grappling with recent advances in AI such as image generation and deepfakes, I propose that we are now in an era of "post-facial" technologies that build off our existing culture of facility while eschewing the analog face, complicating our relationship with identity vis-a-vis the face. Drawing from previous frameworks of identity play in the digital, as well as trans practices that have historically played with or transgressed the boundaries of identity classification, we can develop concepts adequate for analyzing digital faciality and identity given the current landscape of post-facial artificial intelligence technologies that allow users to interface with the digital in an entirely novel manner. To ground this framework of transgression, I conclude by proposing an interview study with VTubers -- online streamers who perform using motion-captured avatars instead of their real-life faces -- to gain qualitative insight on how these sociotechnical experiences.
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- 2024
32. Calibrating Expressions of Certainty
- Author
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Wang, Peiqi, Lam, Barbara D., Liu, Yingcheng, Asgari-Targhi, Ameneh, Panda, Rameswar, Wells, William M., Kapur, Tina, and Golland, Polina
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Computer Science - Computation and Language ,Computer Science - Machine Learning - Abstract
We present a novel approach to calibrating linguistic expressions of certainty, e.g., "Maybe" and "Likely". Unlike prior work that assigns a single score to each certainty phrase, we model uncertainty as distributions over the simplex to capture their semantics more accurately. To accommodate this new representation of certainty, we generalize existing measures of miscalibration and introduce a novel post-hoc calibration method. Leveraging these tools, we analyze the calibration of both humans (e.g., radiologists) and computational models (e.g., language models) and provide interpretable suggestions to improve their calibration.
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- 2024
33. Sustainable, Accessible, Feasible, Effective (SAFE) School Safety Planning: Educator Perceptions of Crisis Frequency and Preparedness in Suspecting and Responding to School Safety
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Katherine Fallon, Juliann Sergi McBrayer, Summer Pannell, Chad Posick, Eric Landers, Antonio Gutierrez de Blume, Pamela Wells, and Mary J. Carney
- Abstract
Educators are underprepared to respond to crises related to school safety. This lack of preparation leaves school leaders, teachers, and students vulnerable to harm. Importantly, the recent global health pandemic increased the utilization of online and hybrid learning modes increasing the need for school safety planning specific to these online settings. The methodology utilized survey data from participants (n=93) in an online statewide school to provide perceptions of crisis frequency and preparedness to suspect and respond to these events as well as to better understand if these educators received training. Findings noted that in the different areas of crises, the number of educators who felt 'very prepared' to suspect and respond to crises needed improvement. Additionally, a number of participants could not confirm that their schools had a specified school safety plan or that these plans were accessible and being implemented with fidelity. These implications for practice suggest a need for school safety planning for online settings that are sustainable, accessible, feasible, and effective (SAFE) to ensure school safety via researched-based practices. Recommendations for future research include gathering data on a wider scope from education professionals nationwide by continuing the current research in online settings.
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- 2024
34. Understanding Preservice Teachers' Perceptions of Classroom Community and Care
- Author
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Cacey L. Wells and Ryan Hoffpauir
- Abstract
Our research in this qualitative study focused on preservice teachers' perceptions of understanding classroom community and how care ethics play a role in crafting classroom environments. We sampled 20 preservice teachers in order to better understand how they understand care and community prior to entering the classroom. Our findings suggest that participating university students valued a holistic view of their future students; they felt that safety was a major factor, as well as focusing on collaboration. Lastly, an overarching theme we found to be an important factor in each of these major themes was spontaneity as it relates to teachers taking time out of their schedules to meet students' needs.
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- 2024
35. Predicting Retention, Progression, and Graduation of First-Time Freshmen Students
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Brynn L. Munro, Juliann Sergi McBrayer, Antonio P. Gutierrez de Blume, and Pamela Wells
- Abstract
Currently, roughly one-third of college students fit the federal government's definition of first-generation college student status, meaning neither parent has earned a baccalaureate degree (RTI International, 2023). This study utilized archival data at an access institution in the southeastern United States in a causal-comparative study using binary logistic regression analysis to determine if first-generation college student status, gender, socioeconomic status, and academic preparedness are predictors for six-year graduation rates. Findings from this quantitative study determined that gender, socioeconomic status, and academic preparedness were significant predictors for graduation within six years of matriculation at the institution. A future qualitative study may provide context for the student experience and determine what factors influenced student success. These findings are intended to help administrators understand their student population and implement intervention strategies to increase graduation outcomes.
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- 2024
36. The Key to Coding Qualitative Data: Examples from the 4-H Youth Retention Study
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Sarah Hensley, Janet Fox, Missy Cummins, Meggan Franks, Marianne Bird, Cindy Wells, and JoLynn Miller
- Abstract
Cooperative Extension professionals utilize proven qualitative techniques to collect and analyze information to make data-driven decisions that guide program direction and determine impact. While the process may not always look the same, it is indeed essential to ensure findings are credible and reflective of the data. A codebook is a valuable tool that promotes interrater reliability among teams and enhances the reliability of findings. This article provides an overview of the process used to analyze qualitative data and the steps followed to create a codebook. Examples of the analysis process and codebook development are provided from the 4-H multi-state Youth Retention Study.
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- 2024
37. 'It's Just Good Teaching': Black Educators Respond to the So-Called 'Anti-Critical Race Theory' Backlash in K-12 Schools
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Leana Cabral, Siettah Parks, and Amy Stuart Wells
- Abstract
As sociologists of education, we're deeply concerned about the growing censorship in our schools and the attack on teaching the truth about our history and present-day inequality. We also recognize how an educational past mired in antiblack practices and policies remains with us today and thus why teachers are still faced with navigating censorship and constraints on what they know are critical and proven pedagogies. This article explores the continued need for "fugitive" practices to employ educational models that de-center Eurocentric narratives and center Black or other marginalized cultures and ways of knowing. We argue that educators committed to antiracist teaching can learn from the legacy of the art of Black teaching and how it was subversively taken up and put into practice by Black teachers over time (Gay, 2002; Givens, 2021; Walker, 2018).
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- 2024
38. Building Classroom Community Using a Whole-Child Approach
- Author
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Jennifer Wells
- Abstract
Trauma, including abandonment, neglect, poverty, or abuse, affects students. Because of this, a classroom community is vulnerable to the sheer unpredictability of behaviors. Students who have experienced trauma need support in order to create a classroom community where they can thrive and learn. This study examines a Whole-Child Approach purposely used in a sixth-grade classroom. A whole-child observation checklist was used to provide pre- and post- data in four areas: Relationship Building; Restorative Practices; Behavioral Recognition, Reminders, and Redirects; and Social-Emotional Skill Building. A teacher journal and mindfulness lessons were also used to triangulate data. This study shows that building a thriving classroom community where students learn can happen with students who have experienced trauma.
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- 2024
39. Riding the Wave of COVID-19: The AfterMATH
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Mathematics Education Research Group of Australasia (MERGA), Naomi Ingram, and Trish Wells
- Abstract
In this paper, we present research on New Zealand secondary teachers' perspectives of teaching and learning mathematics during the COVID-19 pandemic of 2020--2023. We use narrative analyses of interviews to explore the perspectives of eight participant teachers. COVID-19, and its resulting restrictions, were found to impact student-teacher relationships, teachers' ability to provide mathematical explanations and support students' learning, and students' engagement and participation.
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- 2024
40. On-Farm Hog Processing Demonstration for Teenage Exhibitors: Blending Academic, Laboratory, and Farm-Based Learning
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Katherine A. Wells, Chris L. Bruynis, and Lyda G. Garcia
- Abstract
COVID-19 challenges induced a U.S. meatpacking industry bottleneck. Ohio Extension identified the need and responded by creating a three-step hands-on training for teenage junior fair exhibitors. Ohio Extension Meat Scientist and graduate students assisted in demonstrating an on-farm hog harvest and processing event in collaboration with a local Extension office for 4-H and FFA teenagers. To add a practical perspective, a local hog-producing and harvesting family was asked to assist with the event. An online post-survey reflected 90-100% gains in five educational areas and 100% said they would a similar event in the future and recommend it to a friend.
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- 2024
41. 'So I Just Applied:' Understanding the Journey to Student Government Participation
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Jonathan L. McNaughtan, Denise Wells, and Claire Bryant
- Abstract
The purpose of this narrative inquiry is to better understand why students in higher education are motivated to get involved in student government. We analyzed the responses of ten current student government leaders at public regional comprehensive institutions in the United States. The analysis is guided by Astin's theory of student involvement and the social change model of leadership development. The study finds that many leaders did not initially plan to engage in student government, emphasizing the impact of past civic involvement, current student engagement, and peer invitations on their subsequent student government participation. Implications call for institutions to deepen their understanding of enrolled students and provide accessible avenues for leadership development.
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- 2024
42. Maori (Flexible) Learning Spaces, Old and New
- Author
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Georgina Tuari Stewart, Leon Benade, Valance Smith, Alastair Wells, and Amanda Yates
- Abstract
Maori aspirations in education have not been served by past national policies. It is hard to extinguish the influence of monoculturalism, whereby schools were used to colonise Maori by enforcing linguistic and cultural assimilation. The history of debate on Innovative Learning Environments (ILE) and Flexible Learning Spaces (FLS) demonstrates the ongoing dominance of this Eurocentric, monocultural approach. Official New Zealand education policy and practice follows international trends in school design, moving away from traditional single-cell classrooms towards more open and inter-connected spaces, despite no real evidence concerning the relative effects on learning of each classroom type. Meanwhile, school marae have been around for several decades, but largely ignored in national ILE and FLS policy and research literature. Our experiences lead us to suggest that Maori identity must be 'built in' not 'added on' to monocultural ILE frameworks, and for this reason, spatiality is crucial in Maori teaching and learning spaces. This article explores the notion of 'Maori learning spaces.'
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- 2024
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43. Teachers' Perceptions and Implementations of Global Englishes and Frenches in Language Classrooms
- Author
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Ida Chavoshan, Talar Kaloustian, and Brett David Wells
- Abstract
An important first step to globalizing and decentralizing foreign language education is to clarify current language teachers' perceptions of language varieties and how these perceptions influence their pedagogy. The present study looked at English and French language classrooms in K-12 and university settings in the United States to compare attitudes around varieties of two dominant global languages with colonial legacies through an anonymous questionnaire completed by 36 language teachers. The study aimed to understand to what extent English and French language teachers drew on the linguistic diversity of the respective languages and if there was a connection between received ideas and attitudes around varieties and approaches taken in language classrooms. Findings suggest that language teachers were influenced by their own language learning histories, leading to a misalignment between teaching beliefs and pedagogical practices. Additionally, language teachers were subject to curricular constraints that influenced their teaching practices around language varieties. Implications for teacher education are discussed.
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- 2024
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44. Has COVID-19 Changed Pre-Service Teachers Perceptions of the Profession? Yes, but Not Necessarily in Bad Ways
- Author
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Kendra Wells and Lia M. Daniels
- Abstract
The teaching profession profoundly changed during the COVID-19 pandemic. Whether these changes were for the better or worse depends on individual teachers' perceptions. Pre-service teachers watched from the sidelines and their perceptions of the profession changed too, potentially implicating future career outcomes including career commitment, value of belongingness, teaching efficacy, and career anxiety. We used a person-centred analysis to cluster pre-service teachers (n = 146) based on their perceptions of changes to job demands and returns during the pandemic using the Factors Influencing Teaching Choice Scale. Three clusters emerged: a Neutral Group, a Valued Group, and a Busy Group. We used ANOVA to determine mean level differences between these groups on our career outcome variables. Significant mean differences emerged only for the value of belongingness and career anxiety variables. There were no significant differences between clusters on the commitment, right career decision, and efficacy variables, which is encouraging from a teacher retention perspective. Pre-service teachers generally remained committed to the teaching profession with the same career plans that they had pre-pandemic. We discuss the implications of this study for teacher education programs, policy, and research.
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- 2024
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45. Identification of progressive pulmonary fibrosis: consensus findings from a modified Delphi study.
- Author
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Wells, Athol, Walsh, Simon, Adegunsoye, Ayodeji, Cottin, Vincent, Danoff, Sonye, Devaraj, Anand, Flaherty, Kevin, George, Peter, Johannson, Kerri, Kolb, Martin, Kondoh, Yasuhiro, Nicholson, Andrew, Tomassetti, Sara, Volkmann, Elizabeth, and Brown, Kevin
- Subjects
Disease progression ,Fibrosis ,pulmonary ,Interstitial lung disease ,Monitoring ,physiologic ,Pulmonary function tests ,Humans ,Delphi Technique ,Disease Progression ,Consensus ,Pulmonary Fibrosis ,Male ,Female ,Surveys and Questionnaires - Abstract
BACKGROUND: We sought consensus among practising respiratory physicians on the prediction, identification and monitoring of progression in patients with fibrosing interstitial lung disease (ILD) using a modified Delphi process. METHODS: Following a literature review, statements on the prediction, identification and monitoring of progression of ILD were developed by a panel of physicians with specialist expertise. Practising respiratory physicians were sent a survey asking them to indicate their level of agreement with these statements on a binary scale or 7-point Likert scale (- 3 to 3), or to select answers from a list. Consensus was considered to be achieved if ≥ 70% of respondents selected the same answer, or, for responses on a Likert scale, the median score was ≤ -2 (disagree/not important) or ≥ 2 (agree/important) with an interquartile range ≤ 1. There were three rounds of the survey. RESULTS: Surveys 1, 2 and 3 were completed by 207, 131 and 94 physicians, respectively, between March 2022 and July 2023. Decline in forced vital capacity (FVC), decline in diffusing capacity of the lungs for carbon monoxide, and increased fibrosis on high-resolution computed tomography (HRCT) were ranked as the most important endpoints for determining progression. Consensus was reached that progression on HRCT or a decline in FVC ≥ 10% from baseline is sufficient to determine progression, and that small declines in multiple endpoints indicates progression. Consensus was reached that a histological pattern of usual interstitial pneumonia (UIP) is a risk factor for progression of ILD, but that a biopsy to look for a UIP pattern should not be performed solely for prognostic reasons. Consensus was not reached on the time period over which progression should be defined. There was consensus that appropriate management of ILD depends on the type of ILD, and that despite adequate management or despite usual management should be included in the definition of progression. CONCLUSIONS: This modified Delphi process provided consensus statements on the identification of ILD progression that were supported by a broad group of clinicians and may help to inform clinical practice until robust evidence-based guidelines are available.
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- 2024
46. Individual and community socioeconomic status and receipt of influenza vaccines among adult primary care patients in a large academic health system: 2017–2019
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Takada, Sae, Chung, Un Young, Bourgois, Philippe, Duru, O Kenrik, Gelberg, Lillian, Han, Maria, Pfeffer, Michael A, Shoptaw, Steve, Wells, Kenneth, and Javanbakht, Marjan
- Subjects
Biomedical and Clinical Sciences ,Public Health ,Health Sciences ,Clinical Sciences ,Prevention ,Immunization ,Behavioral and Social Science ,Pneumonia & Influenza ,Infectious Diseases ,Health Services ,Social Determinants of Health ,Emerging Infectious Diseases ,Health Disparities ,Influenza ,Minority Health ,Clinical Research ,Vaccine Related ,3.4 Vaccines ,Infection ,Good Health and Well Being ,Influenza vaccine ,Racial disparity ,Social vulnerability index ,Socioeconomic status - Abstract
IntroductionInfluenza causes significant mortality and morbidity in the U.S., yet less than half of adults receive influenza vaccination. We use census-tract level social vulnerability index (SVI) to examine community- and individual-level characteristics of influenza vaccine coverage among primary care patients at an academic health system in Los Angeles, CA.MethodsWe used electronic medical records (EMR) data of 247,773 primary care patients for 2017-18 and 2018-19 influenza seasons. We geocoded patients' addresses to identify their SVI and merged them with EMR data. We specified mixed-effects logistic regression models estimating the association between patient's vaccine receipt and SVI, adjusting for sociodemographics, Charlson Comorbidity Index, and health insurance.ResultsVaccination coverage was higher during the 2018-19 influenza season (34%) compared to the 2017-18 season (23%). In adjusted analyses, higher SVI, lower individual socioeconomic status and racial and ethnic minority status were independently associated with lower odds of vaccination. Patients on Medicaid had lower odds of vaccine receipt (adjusted Odds Ratio [aOR] = 0.77 for
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- 2024
47. The commitment of the human cell atlas to humanity.
- Author
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Amit, Ido, Ardlie, Kristin, Arzuaga, Fabiana, Awandare, Gordon, Bader, Gary, Bernier, Alexander, Carninci, Piero, Donnelly, Stacey, Eils, Roland, Forrest, Alistair, Greely, Henry, Guigo, Roderic, Hacohen, Nir, Haniffa, Muzlifah, Kirby, Emily, Knoppers, Bartha, Kriegstein, Arnold, Lein, Ed, Linnarsson, Sten, Majumder, Partha, Merad, Miriam, Meyer, Kerstin, Mhlanga, Musa, Nolan, Garry, Ntusi, Ntobeko, Peer, Dana, Prabhakar, Shyam, Raven-Adams, Maili, Regev, Aviv, Rozenblatt-Rosen, Orit, Saha, Senjuti, Saltzman, Andrea, Shalek, Alex, Shin, Jay, Stunnenberg, Henk, Teichmann, Sarah, Tickle, Timothy, Villani, Alexandra-Chloe, Wells, Christine, Wold, Barbara, Yang, Huanming, and Zhuang, Xiaowei
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Humans ,Atlases as Topic - Abstract
The Human Cell Atlas (HCA) is a global partnership to create comprehensive reference maps of all human cells-the fundamental units of life - as a basis for both understanding human health and diagnosing, monitoring, and treating disease. ( https://www.humancellatlas.org/ ) The atlas shall characterize cells from diverse individuals across the globe to better understand human biology. HCA proactively considers the priorities of, and benefits accrued to, contributing communities. Here, we lay out principles and action items that have been adopted to affirm HCAs commitment to equity so that the atlas is beneficial to all of humanity.
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- 2024
48. Is it time to start moving soil microbial fuel cell research out of the lab and into the field?
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Taylor, Stephen, Jaliff, Laura, Wells, George, and Josephson, Colleen
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Biological Sciences ,Industrial Biotechnology ,Affordable and Clean Energy ,Microbial fuel cell ,Soil ,Soil microbial fuel cell ,Environmental Sciences - Abstract
Soil microbial fuel cells (SMFCs) function as bioelectrochemical energy harvesters that convert electrons stored in soil organic matter into useful electrical energy. Broadly, an SMFC comprises three essential components: an anode buried in the soil (the negative terminal), a colony of exoelectrogenic microorganisms residing on this anode, and a cathode (the positive terminal). As the exoelectrogens respire, they release electrons to the anode, which acts as an external receptor. These released electrons then flow through a load (e.g. a resistor), connecting the anode and cathode. Though minuscule, the electrical power produced by SMFCs has a number of potential applications such as sustaining low-power embedded electronics, pollutant remediation, or as a bio-sensing proxy for soil qualities and microbial activity. This discussion aims to emphasize the potential of SMFCs in addressing real-world environmental issues and to generate interest in the larger scientific community for broad interdisciplinary research efforts, particularly in field deployments.
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- 2024
49. How rational inference about authority debunking can curtail, sustain, or spread belief polarization.
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Radkani, Setayesh, Landau-Wells, Marika, and Saxe, Rebecca
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Bayesian inference ,credibility ,inverse planning ,misinformation ,polarization - Abstract
In polarized societies, divided subgroups of people have different perspectives on a range of topics. Aiming to reduce polarization, authorities may use debunking to lend support to one perspective over another. Debunking by authorities gives all observers shared information, which could reduce disagreement. In practice, however, debunking may have no effect or could even contribute to further polarization of beliefs. We developed a cognitively inspired model of observers rational inferences from an authoritys debunking. After observing each debunking attempt, simulated observers simultaneously update their beliefs about the perspective underlying the debunked claims and about the authoritys motives, using an intuitive causal model of the authoritys decision-making process. We varied the observers prior beliefs and uncertainty systematically. Simulations generated a range of outcomes, from belief convergence (less common) to persistent divergence (more common). In many simulations, observers who initially held shared beliefs about the authority later acquired polarized beliefs about the authoritys biases and commitment to truth. These polarized beliefs constrained the authoritys influence on new topics, making it possible for belief polarization to spread. We discuss the implications of the model with respect to beliefs about elections.
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- 2024
50. Self-regulated analgesia in males but not females is mediated by endogenous opioids
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Dean, Jon G, Reyes, Mikaila, Oliva, Valeria, Khatib, Lora, Riegner, Gabriel, Gonzalez, Nailea, Posey, Grace, Collier, Jason, Birenbaum, Julia, Chakravarthy, Krishnan, Wells, Rebecca E, Goodin, Burel, Fillingim, Roger, and Zeidan, Fadel
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Pharmacology and Pharmaceutical Sciences ,Biomedical and Clinical Sciences ,Neurosciences ,Clinical Sciences ,Clinical Trials and Supportive Activities ,Clinical Research ,Complementary and Integrative Health ,Women's Health ,Opioids ,Behavioral and Social Science ,Substance Misuse ,Drug Abuse (NIDA only) ,Chronic Pain ,Pain Research ,6.1 Pharmaceuticals - Abstract
Converging lines of preclinical and clinical research indicate that females, in stark contrast to males, display an increased prevalence of chronic pain. Females also demonstrate weaker analgesic efficacy in response to opioid therapies when compared with males. These sex-specific differences may be driven by dimorphic endogenous opioidergic responses. In rodent models, analgesia exhibited in males but not females was reversed by inhibiting endogenous opioidergic reception. In humans, the sex-specific endogenous system(s) supporting the direct attenuation of evoked pain has not been identified. To determine whether opioidergic blockade reverses self-regulated analgesia in males as compared to females, the present study combined two operationally analogous clinical trials (n = 98; 51 females and 47 males). In a double-blinded, counterbalanced study involving healthy (n = 39) and chronic low back pain (n = 59) populations, a high-dose naloxone (μ-, κ-, δ-opioid antagonist) vs. placebo-saline cross-over design (15 mg/kg bolus +0.1 mg/kg/h) tested the hypothesis that endogenous opioids mediate analgesia in males but not females. An 11-point visual analog scale (VAS) (0 = no pain; 10 = worst pain imaginable) evaluated pain ratings in response to noxious heat stimulation (49 °C; calf). After baseline pain testing, participants were randomized to a validated four-session mindfulness meditation or sham mindfulness meditation training intervention. Participants practiced their respective meditation during noxious heat, intravenous high-dose naloxone, and placebo saline, respectively. In males and females, meditation significantly lowered evoked pain during saline infusion. Intravenous naloxone inhibited analgesia in males, but pain relief was well preserved in females. The present findings indicate that endogenous opioids mediate self-regulated analgesia in males but not females and underscore the need to establish sex-specific pain therapeutics.
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- 2024
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