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High-Throughput DNA and RNA sequencing are revolutionizing precision oncology, enabling personalized therapies such as cancer vaccines designed to target tumor-specific neoepitopes generated by somatic mutations expressed in cancer cells. Identification of these neoepitopes from next-generation sequencing data of clinical samples remains challenging and requires the use of complex bioinformatics pipelines. In this paper, we present GeNeo, a bioinformatics toolbox for genomics-guided neoepitope prediction. GeNeo includes a comprehensive set of tools for somatic variant calling and filtering, variant validation, and neoepitope prediction and filtering. For ease of use, GeNeo tools can be accessed via web-based interfaces deployed on a Galaxy portal publicly accessible at https://neo.engr.uconn.edu/. A virtual machine image for running GeNeo locally is also available to academic users upon request. © Copyright 2023, Mary Ann Liebert, Inc., publishers 2023.

Whalebacks, roche moutonnées, and S-forms carved on Ediacaran granitoids near Cerro de las Cuentas, Uruguay, along with overlying diamictites, siltstones, and sandstones displaying soft-sediment grooved and striated surfaces in the Pennsylvanian San Gregorio Formation, record the glacial to post-glacial transition in the linked Norte, southern Paraná and Chaco-Paraná basins of Uruguay, Brazil, and Argentina respectively. Early authors reported these features resulted from subglacial abrasion and deposition as lodgement tills and glaciotectonites. Our re-examination reveals a nuanced setting with changing ice thicknesses, subglacial kinematics, and ice proximal glaciomarine dynamics associated with advance and retreat of an ice stream, or multiple advances of the Uruguayan Ice lobe, during glaciation of the Late Paleozoic Ice Age (LPIA) in these basins. The preserved landforms indicate temperate glacial conditions. Whalebacks formed under 1.6 to 2.5 km-thick ice and likely formed when the lobe extended across the Uruguayan and Rio Grande do Sul shields into the adjacent Paraná Basin. Previously unidentified m-scale roches moutonnées cut into one whaleback developed under thinner ice where reduced basal pressure allowed for the opening of air and water-filled cavities, thus facilitating quarrying on the lee side of basement bumps. S-forms provide additional evidence for the occurrence of subglacial waters, indicating that the basal ice was at or above its pressure melting point. The lower meter of the overlying strata consists of interstratified trace fossil-bearing, laminated siltstones; thin-bedded diamictites; and current-rippled sandstones. Trace fossils belonging to the Mermia ichnofacies within the basal siltstones, as well as acritarchs in the overlying siltstones, suggest that these sediments were deposited in ice-proximal subaqueous settings with contributions from meltwater discharge. Graded siltstone laminae suggest settling from suspension likely from meltwater plumes, while thin-bedded diamictites were deposited either as debris flows or as two-component sedimentation with fines settling from suspension and coarser particles introduce as iceberg-rafted dropstones. Current-rippled sandstones indicate the occurrence of underflow currents. Soft-sediment troughs, grooves, and striations cutting these sediments display curved and sinuous paths with some features oriented perpendicular, and one oriented opposite to the overall trend. They contain marginal and terminal berms typical of iceberg scour marks suggesting transit across the area by icebergs calving from a tidewater ice front located to the SE.

Importance: Play is an area of difficulty for autistic children, and occupational therapy practitioners need evidence to guide interventions to improve play for this population. Ayres Sensory Integration® (ASI) intervention has not yet been studied for its impact on play outcomes.Objective: To examine the impact of ASI intervention on play types in autistic children.Design: Nonconcurrent, multiple-baseline design across subjects.Setting: Outpatient occupational therapy clinic in New England.Participants: Three autistic children, ages 5, 6, and 6 yr.Intervention: Twenty-four ASI sessions.Outcomes and Measures: Frequency of play type was coded using partial interval coding. Progress monitoring used Goal Attainment Scaling.Results: All three participants demonstrated changes in the frequency of specific types of play, but changes varied among them.Conclusions and Relevance: Findings suggest that ASI intervention may alter a child’s patterns of play.What This Article Adds: This study is the first to examine the impact of ASI on play and the third that documents the feasibility of single-subject research for studying ASI. If confirmed in future studies, ASI could become an evidence-based intervention for improving play, an important outcome for autistic children and the profession of occupational therapy.Positionality Statement: This article uses the identity-first language autistic people. This nonableist language describes their strengths and abilities and is a conscious decision. This language is favored by autistic communities and self-advocates and has been adopted by health care professionals and researchers (Bottema-Beutel et al., 2021; Kenny et al., 2016).

This pilot study explored the use of standardized patients in the virtual classroom in efforts to increase family nurse practitioner preparedness to engage in telemedicine care delivery. Using a mixed-methods approach, we determined this innovation significantly increased students' confidence in their ability to perform a telemedicine visit while also improving their satisfaction with the virtual classroom.

Nearly eight million American youth between the ages of 3 - 17 live with a psychiatric or behavioral health disorder. Many in grades K-12 are being unfavorably impacted in the classroom because of socioeconomic and environmental factors that include poverty, addiction, incarceration, trauma, domesti...

SHAPE America (2021) contends the use of physical activity used as punishment and/or behavior management as an inappropriate practice. The position statement acknowledges both the administration and withholding of physical activity as punishment, however, this paper focuses on the use of exercise as punishment (EAP) in physical education settings. While deemed inappropriate, the use of EAP is still happening today (Barney et al., 2016). The purpose of this viewpoint paper is to encourage appropriate pedagogies and practices while increasing awareness of national recommendations. Strategies for advocacy efforts are discussed.

This study presents an original model that features the emotion of fear of COVID-19 as a direct effect on vaccination intentions. A central research question addressed in the study is what roles do the emotion of fear of contracting COVID-19 and the threat posed by uptake of the COVID-19 vaccination play in levels of vaccination intention? The study used a structural equation model (SEM) and applied the SmartPLS 3.2.6 data analysis tool for model estimation and multivariate analysis variables. A key finding is that vaccination resistance is strongest when fear of COVID-19 is lower, and vaccination threat higher. Vaccination threat appraisal and vaccination intention were found to have a negative relationship. Response costs at higher levels lessen motivation for COVID-19 vaccination. Research implications include research-based targeting of differing segments by their primary fear, either fear of COVID-19 or of the preventative vaccine.

The use of Critical Race Theory, Photovoice, and Community-Based Participatory Research has helped uncover the root causes of issues such as systemic racism in the fields of public health and health promotion. Often, we see studies using traditional research methods to investigate potential causal factors of disparities in minoritized communities report only quantitative data. While these data are imperative for understanding the severity of disparities, quantitative-only approaches cannot address nor can they improve the critical root causes of these disparities. As a team of BIPOC graduate students in public health, we conducted a community-based participatory research project using Photovoice methodology to explore inequities in Black and Brown communities exacerbated during the COVID-19 pandemic. The participatory nature of this research revealed cumulative challenges across the social determinants of health in New Haven and Bridgeport, Connecticut. It allowed us to engage in local-level advocacy to promote health equity as our findings illuminated the need for community-led and community-engaged action. Health and racial inequities cannot be effectively addressed if public health research and programming do not collaborate with the community to build community capacity, empowerment, and trust. We describe our experiences doing community-based participatory research to investigate inequities and provide reflections on their value for public health students. As responses to health inequities and disparities become more politically polarized in the United States, it is critical for public health and health education students to use research methodologies that elevate communities that have been historically marginalized and neglected. Together, we can catalyze equitable change.

We introduce the notion of residual intersections of modules and prove their existence. We show that projective dimension one modules have Cohen-Macaulay residual intersections, namely they satisfy the relevant Artin-Nagata property. We then establish a formula for the core of orientable modules satisfying certain homological conditions, extending previous results of Corso, Polini, and Ulrich on the core of projective one modules. Finally, we provide examples of classes of modules that satisfy our assumptions.

With the increasing use of AI in marketing, ethical repercussions are beginning to emerge. From privacy issues, through discrimination of marginalized groups, to emergent systemic social distortions, AI is changing the marketing ethical landscape. In this paper we conduct a structured literature review of the emerging ethical issues posed by AI in the domains of marketing and consumer behavior. We identify three clusters of ethical issues (algorithm, society and existential) and map these to the marketing domains of systems, brands, and consumers. We conclude that the field of ethical marketing AI is still very much in its infancy, but such is the rate of development ethical marketing AI is likely to become an important field for academics and practitioners alike. © 2023 IEEE Computer Society. All rights reserved.

Importance: Ayres Sensory Integration® (ASI) is commonly used with children on the autism spectrum to promote sensory processing and improved occupational performance, including play. To date, there has been no explicit effort to examine improvements in playfulness through ASI.Objective: To explore whether ASI, coupled with parent training, improves child playfulness and fathers’ support of child playfulness.Design: Single-subject A–B–BC design secondary analysis of a nonconcurrent multiple-baseline study.Setting: Occupational therapy clinic.Participants: Three father–child dyads; children were ages 3 to 6 yr, with autism spectrum disorder (ASD) and documented sensory processing concerns.Intervention: After a baseline phase, each child received at least 24 sessions of ASI, and fathers received parent training focusing on sensory processing issues and play via an online presentation.Outcomes and Measures: The Parent/Caregiver’s Support of Children’s Playfulness and the Test of Playfulness.Results: Visual analysis of the baseline phase, ASI phase, and ASI with parent training phase shows that all 3 fathers demonstrated an increase in the way they supported their child’s playfulness; however, this change was not maintained. Children’s playfulness fluctuated, reaching a peak after fathers received training, but none of the children maintained that change.Conclusions and Relevance: Additional support by the therapist is required for fathers to learn and use new strategies to promote consistent change in child playfulness during play. Pilot data can be used to inform future studies.What This Article Adds: Occupation- and family-centered frameworks may be useful in guiding practice when working with families of children with ASD.

We report the measurement of K*0 meson at midrapidity (|y|< 1.0) in Au+Au collisions at √sNN=7.7, 11.5, 14.5, 19.6, 27, and 39 GeV collected by the STAR experiment during the Relativistic Heavy Ion Collider (RHIC) beam energy scan program. The transverse momentum spectra, yield, and average transverse momentum of K*0 are presented as functions of collision centrality and beam energy. The K*0/K yield ratios are presented for different collision centrality intervals and beam energies. The K*0/K ratio in heavy-ion collisions are observed to be smaller than that in small-system collisions (e+e and p+p). The K*0/K ratio follows a similar centrality dependence to that observed in previous RHIC and Large Hadron Collider measurements. The data favor the scenario of the dominance of hadronic rescattering over regeneration for K*0 production in the hadronic phase of the medium.

Vineyards in the Southeastern New England American Viticultural Area were surveyed for the incidence of seven major viruses: grapevine leafroll-associated viruses (GLRaV-1, GLRaV-2, GLRaV-3, and GLRaV-4), grapevine fanleaf virus (GFLV), tomato ringspot virus (ToRSV), and tobacco ringspot virus (TRSV). Viruses were detected by DAS-ELISA and confirmed by RT-PCR and Sanger sequencing. Multiple viruses were present in 19 out of the 25 vineyards surveyed between 2018 and 2020. GLRaV-3 (27.59%) was the most prevalent virus followed by GLRaV-4 (14.90%), GLRaV-1 (13.52%), GLRaV-2 (11.03%), ToRSV (6.34%), GFLV (5.24%), and TRSV (2.62%). Furthermore, phylogenetic analyses of the viral partial genome sequences acquired in this study revealed that the grapevine viruses present in this area are diverse, indicating that they may have been introduced from different sources. Our findings stress the need for improving the sanitary status of planting materials to avoid the introduction and dissemination of viruses to vineyards in this important wine-producing region of New England.

Motivation for physical activity and sedentary behaviors (e.g., desires, urges, wants, cravings) varies from moment to moment. According to the WANT model, these motivation states may be affectively-charged (e.g., felt as tension), particularly after periods of maximal exercise or extended rest. The purpose of this study was to examine postulates of the WANT model utilizing a mixed-methods approach. We hypothesized that: (1) qualitative evidence would emerge from interviews to support this model, and (2) motivation states would quantitatively change over the course of an interview period. Seventeen undergraduate students (mean age = 18.6y, 13 women) engaged in focus groups where 12 structured questions were presented. Participants completed the “right now” version of the CRAVE scale before and after interviews. Qualitative data were analyzed with content analysis. A total of 410 unique lower-order themes were classified and grouped into 43 higher order themes (HOTs). From HOTs, six super higher order themes (SHOTs) were designated: (1) wants and aversions, (2) change and stability, (3) autonomy and automaticity, (4) objectives and impulses, (5) restraining and propelling forces, and (6) stress and boredom. Participants stated that they experienced desires to move and rest, including during the interview, but these states changed rapidly and varied both randomly as well as systematically across periods of minutes to months. Some also described a total absence of desire or even aversion to move and rest. Of note, strong urges and cravings for movement, typically from conditions of deprivation (e.g., sudden withdrawal from exercise training) were associated with physical and mental manifestations, such as fidgeting and feeling restless. Urges were often consummated with behavior (e.g., exercise sessions, naps), which commonly resulted in satiation and subsequent drop in desire. Importantly, stress was frequently described as both an inhibitor and instigator of motivation states. CRAVE-Move increased pre-to-post interviews (p < .01). CRAVE-Rest demonstrated a trend to decline (p = .057). Overall, qualitative and quantitative data largely corroborated postulates of the WANT model, demonstrating that people experience wants and cravings to move and rest, and that these states appear to fluctuate significantly, especially in the context of stress, boredom, satiety, and deprivation.

We report on measurements of sequential Υ suppression in Au+Au collisions at √sNN=200 GeV with the STAR detector at the Relativistic Heavy Ion Collider (RHIC) through both the dielectron and dimuon decay channels. In the 0%–60% centrality class, the nuclear modification factors (RAA), which quantify the level of yield suppression in heavy-ion collisions compared to p+p collisions, for Υ(1S) and Υ(2S) are 0.40±0.03(stat)±0.03(sys)±0.09(norm) and 0.26±0.08(stat)±0.02(sys)±0.06(norm), respectively, while the upper limit of the Υ(3S) RAA is 0.17 at a 95% confidence level. This provides experimental evidence that the Υ(3S) is significantly more suppressed than the Υ(1S) at RHIC. The level of suppression for Υ(1S) is comparable to that observed at the much higher collision energy at the Large Hadron Collider. These results point to the creation of a medium at RHIC whose temperature is sufficiently high to strongly suppress excited Υ states.

Background. Food insecurity, affecting approximately 10% of the U.S. population, with up to 40% or higher in some communities, is associated with higher rates of chronic conditions and inversely associated with diet quality. Nutrition interventions implemented at food pantries are an effective strategy to increase healthy food choices and improve health outcomes for people experiencing food and nutrition insecurity. Supporting Wellness at Pantries (SWAP), a stoplight nutrition ranking system, can facilitate healthy food procurement and distribution at pantries. Purpose. Guided by the RE-AIM Framework, this study assesses the implementation and outcomes of SWAP as nutritional guidance and institutional policy intervention, to increase procurement and distribution of healthy foods in pantries. Method. Mixed-methods evaluation included observations, process forms, and in-depth interviews. Food inventory assessments were conducted at baseline and 2-year follow-up. Results. Two large pantries in New Haven, Connecticut, collectively reaching more than 12,200 individuals yearly, implemented SWAP in 2019. Implementation was consistent prepandemic at both pantries. Due to COVID-mandated distribution changes, pantries adapted SWAP implementation during the pandemic while still maintaining the ?spirit of SWAP.? One pantry increased the percentage of Green foods offered. Challenges to healthy food distribution are considered. Discussion. This study has implications for policy, systems, and environmental changes. It shows the potential for SWAP adoption at pantries, which can serve as a guide for continued healthy food procurement and advocacy. Maintaining the ?spirit of SWAP? shows promising results for food pantries looking to implement nutrition interventions when standard practice may not be possible.

Measurement of students’ peer assessment motivation is critical to understand how they participate in such activities in higher education. The current study was conducted to develop and validate a brief scale that measures student peer assessment motivation in higher education using the Expectancy-Value Theory (EVT). Initial items were developed, revised, and administered to 369 students. Exploratory factor analyses suggested a three-factor model structure (ability belief, expectancy, and task value) aligning with EVT. Confirmatory factor analyses (n = 399) supported a higher-order factor structure with the three first-order factors (i.e. ability belief, expectancy, and task value) with a decent model fit. The 20-items Peer Assessment Motivation Scale (PAMS) had decent internal reliability, test-retest reliability, convergent validity, and discriminant validity, suggesting that it is a high-quality measure. This scale is beneficial for instructors and researchers who are interested in investigating peer assessment motivation in higher education.

This investigation assessed the effect of side-lying position on infant oropharyngeal swallow physiology. Infant modified barium swallow studies (MBS) recordings were retrospectively examined in matched-pairs comparing at-risk infants swallowing in both an upright/cradled position and a side-lying position. Swallow parameters were measured independently and through a consensus coding approach. Infants fed in side-lying position showed a decrease in airway invasion severity as compared with when those same infants were fed in an upright/cradled position (P = .009). Bolus location at the time of swallow initiation was higher when infants were fed in side-lying position as compared with cradle position (P = .024), representing decreased risk of airway invasion. Infants fed in side-lying position demonstrated fewer swallows per breaths (P = .032). This pilot study validates the need for additional research to further define the mechanisms related to this improvement, and to determine how diagnosis and medical stability moderate these findings.