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51. A Feasibility Study Describing the Successes and Challenges of Implementing a Virtual Community Health Worker Training among High School Students Participating in a Summer STEM Enrichment Program

Author

Archana Bhavani Vasanth Kumar, Gia Grier Mcginnis, Laundette Jones, Erin R. Hager, Sequoia L. Wright, Cara Felter, Greg Carey, Bret Hassel, Arletha W. Livingston, and Elizabeth A. Parker

Abstract

University of Maryland, Baltimore CURE Connections (UMB CURE) connects West Baltimore high school students with STEM enrichment including hands-on research and community outreach. This study's purpose was to describe successes and challenges of implementing the virtual Community Health Worker curriculum during the summer programming for UMB CURE high school scholars. This certificate-based program was designed to teach students about the community health field while providing training that demonstrates competence as a community health worker. The training was implemented over two summer sessions (2020 and 2021). Scholars completed a survey to assess program satisfaction. A subset of scholars completed qualitative interviews that focused on scholars' summer program experience and recommendations for program improvement. Engagement metrics (scholar participation, retention) were compiled. Overall themes from qualitative interviews included: (1) overall summer program experience, (2) about the Morehouse curriculum, (3) advice for future scholars, (4) in-person versus virtual summer program, and (5) recommendations for the program. While the program was generally well-received, scholars required more instruction and guidance than anticipated. Many found the required assignments challenging to navigate, citing virtual instruction as a reason. Scholars also requested more hands-on synchronous STEM-focused activities. These data will be used to modify future programming to engage scholars in out-of-school-time STEM initiatives.

Published
2024

53. Caring Too Much? Emotional Labor and Compassion Fatigue among Faculty during the COVID-19 Pandemic

Author

Katie Constantin, Gemini Creason-Parker, Cynthia Werner, Elizabeth D. Jenkins, Vansa Shewakramani Hanson, and Rose L. Siuta

Abstract

The COVID-19 pandemic brought abrupt changes to teaching that caused increased stress amid an already difficult time. Whether teaching remote, hybrid, or in-person, university faculty were expected to continue teaching throughout the pandemic, despite personal challenges at home. In addition, there were expectations that faculty show greater levels of compassion towards their students. Multiple articles brought attention to these struggles and questioned whether university faculty might be experiencing compassion fatigue--a state of emotional exhaustion brought on by secondary traumatic stress and characterized by a reduced capacity for empathy. Using data from a larger, longitudinal qualitative study of faculty members' experiences during the pandemic, the present study aims to understand faculty experiences of emotional labor and compassion fatigue during this time. Unsurprisingly, most participants reported an increase in emotional labor during the early pandemic; however, roughly one in four described their emotional labor loads as unchanged or even decreased. In those cases, participants often described active disengagement practices in the workplace, or methods of "guarding one's time." Overall, compassion fatigue was less evident than anticipated, but there were identifiable signs of burnout among participants. This finding alone suggests a need for additional research to better conceptualize and operationalize the two terms.

Published
2024
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54. Linking Caregiving Quality during Infancy to Brain Activity in Early Childhood and Later Executive Function

Author

Mark Wade, Victoria Parker, Alva Tang, Nathan A. Fox, Charles H. Zeanah, and Charles A. Nelson

Abstract

There is no relationship more vital than the one a child shares with their primary caregivers early in development. Yet many children worldwide are raised in settings that lack the warmth, connection, and stimulation provided by a responsive primary caregiver. In this study, we used data from the Bucharest Early Intervention Project (BEIP), a longitudinal study of institutionally-reared and family-reared children, to test how caregiving quality during infancy is associated with average EEG power over the first 3.5 years of life in alpha, beta, and theta frequency bands, and associations with later executive function (EF) at age 8 years. The sample comprised 189 children (129 institutionally-reared; 60 family-reared) who contributed data on observed caregiving quality during infancy (baseline; average age of 22 months), resting EEG power at baseline, 30, and 42 months, and performance-based data on a series of EF tasks at 8 years. Using Bayesian estimation, observed caregiving quality at baseline was marginally linked with higher average alpha and beta power, and lower theta power, from baseline to 42 months. In turn, higher average beta power and lower average theta power were marginally associated with higher EF at 8 years. In indirect effects models, higher caregiving quality at baseline was associated with higher EF at 8 years, with a marginal indirect effect through average theta power from baseline to 42 months. Variation in the quality of the early caregiving environment may be associated with later executive function, which is partially underpinned by individual differences in brain activity during early childhood.

Published
2024
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55. The Purpose of Primary Physical Education: The Views of Teacher Educators

Author

Mike Jess, Melissa Parker, Nicola Carse, Andrew Douglass, Jeanne Keay, Lucio Martinez Alvarez, Alison Murray, Julie Pearson, Vicky Randall, and Tony Sweeney

Abstract

This paper reports on the first phase of a longitudinal project investigating the perceived purposes that different stakeholders have for primary physical education (PE). In the study, the views of 19 teacher educators from seven countries across Europe were sought. While teacher educators may have some influence across the layers of an education system, little is known about this stakeholder group and their views about primary PE. Analysis of focus group conversations depicts that, while the teacher educators come from a wide range of contexts, their views on the purposes of primary PE were more similar than different. With primary PE in danger of disconnecting into different schools of thought, this finding is important because it suggests that more coherent and connected approaches have the potential to be developed. In line with most government policies from the seven countries, similarities focused on both an educational and outward-looking view of primary PE. Significantly, while the teacher educators recognised the key role of physical learning in primary PE, they also highlighted how children's social, emotional, and cognitive learning form part of an integrated view of primary PE. Teacher educators recognised the importance of primary PE expanding beyond the hall/gymnasium and into classroom, school, and community settings. However, some concerns were voiced about the influence of outsourcing and sport agendas that currently dominate. The views of these teacher educators offer a useful starting point for further investigation, particularly as they present the purposes of primary PE from both an integrated and educational perspective.

Published
2024
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56. Yes, Charlotte Died: Using Picturebooks to Talk about, Not Avoid, the Topic of Death

Author

Lisa Parker, Kennedy Wittman, and William P. Bintz

Abstract

This article focuses on the difficult event of death. The audience for this article is classroom teachers, librarians/media specialists, curriculum developers, and so on. The purpose is to share points to consider when choosing quality picture books focusing on death as well as exemplars to represent these points. These points were concluded as a result of a multimodal content analysis of 100 picture books. We begin by presenting a rationale for using picture books to help children deal with the difficult topics including the topic of death. Next, we describe why we chose the topic of death. We continue by describing our inquiry and present characteristics of quality picture books that we discovered during our inquiry. For each characteristic we highlight an exemplary picture book to illustrate the characteristic. We end with final thoughts.

Published
2024
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57. Teachers' Social Competencies, Occupational Health, and Personal Well-Being Are Associated with Their Use of Snark in the Classroom

Author

Summer S. Braun, Zachary T. Schornick, Avery K. Westbrooks, Erin R. Eickholz, Jeffrey G. Parker, and Alison L. Hooper

Abstract

Snark is a form of verbal aggression that uses humor to diminish a victim. The present study explored predictors of U.S. teachers' use of snark in the classroom. Kindergarten-12th grade teachers (N = 516) self-reported on their social and emotional competencies (i.e., perspective taking, forgiveness, mindfulness, expressive suppression, and decision-making skills), experiences of occupational health and personal well-being (i.e., burnout, job satisfaction, depression, and life satisfaction) and snark use. Stepwise multilevel models indicated that teachers' social and emotional competencies, and subsequently, their occupational health and well-being, explained significant portions of the variance in snark use. Specifically, teachers with greater perspective taking skills reported less frequent snark use, and those who used expressive suppression reported more frequent snark use. Burnout, job satisfaction, depression, and life satisfaction were all positively associated with greater snark use. Results are described in relation to research on adult social and emotional competencies, teachers' occupational health and well-being, and teachers' conflict management strategies. This study sets the stage for future research to investigate the effects of teachers' snark use on student outcomes.

Published
2024
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58. Family Involvement in Elementary Reading Intervention: Compensatory Relations to Dosage and Tutor-Level Heterogeneity

Author

Garret J. Hall, David C. Parker, Peter M. Nelson, and Sophia N. Putzeys

Abstract

We used triannual reading curriculum-based measurement of oral reading fluency data from 11,834 U.S. students in Grades 2 and 3 enrolled in an evidence-based Tier 2 reading intervention program (Reading Corps) to investigate the extent to which family involvement in the intervention might buffer against a negative effect of lower intervention dosage. The relation between family involvement in Reading Corps and growth in oral reading fluency was stronger when students spent fewer hours in tutoring, suggesting that family involvement in tiered reading intervention can compensate for receiving less intervention dosage. There was noticeable variation in this effect across tutors, suggestive of tutor-level heterogeneity of this relation. The relation between sending family engagement materials to families and the materials that are returned to tutors also substantially varied across tutors. We discuss findings in terms practical significance for school-based academic intervention systems. We highlight limitations and opportunities for future directions as well.

Published
2024
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59. Who Gets to Decide? A Case Study Exploring Tennessee's Early Childhood Literacy Initiatives

Author

Bethany Parker and Amy Wilson-Ratliff

Abstract

Because literacy is a twenty-first century education skill (OECD, 21st-century readers: developing literacy skills in a digital world, PISA, OECD Publishing, Paris, https://doi.org/10.1787/a83d84cb-en, 2021), educational stakeholders across the United States have consistently advocated for initiatives to increase literacy among the general population but especially in the early years and elementary grades. In the following manuscript, we will discuss literacy initiatives in the state of Tennessee with a particular emphasis on the Governor's Early Literacy Foundation (GELF). We position this initiative against the backdrop of failing literacy scores and the removal of classroom books across the state. Next, we discuss relevant literature on culturally responsive teaching frameworks, which leads us to make the case that, though necessary, improvements to literacy scores in Tennessee cannot rely solely on the books distributed by the state. It is imperative that the books children have access to introduce them to diverse lived experiences and that educational stakeholders begin questioning who gets to decide which books children can access. Using the specific example of Tennessee, we make the case that this is relevant to all educational stakeholders, because everywhere in the world, there are people and systems who have the power to choose what education looks like and what knowledge and whose experiences are deemed valid. Our purpose within this manuscript is to engage in a critical examination of one early childhood initiative as an example of how others can use a critical lens to examine the implications of initiatives and decisions being made in their own locales and how using a critical lens can also guide practices for advancing equity in classrooms.

Published
2024
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60. The Effects of Supplemental Instruction Derived from Peer Leaders on Student Outcomes in Undergraduate Human Anatomy

Author

Robert N. Wilson, Parker J. Holman, Martin Dragan, Rebecca E. K. MacPherson, and Shawn M. Beaudette

Abstract

Supplemental instruction (SI) confers student success, as represented by grades, knowledge retention, and student engagement. However, studies often report professional, not undergraduate, program findings. To measure these effects, students studying human anatomy at a university in Ontario, Canada, attended structured (peer-assisted) or unstructured (nonpeer-assisted) SI sessions and completed a pre-/post-survey. Fifty-eight learners (39 systems (SYS) and 19 musculoskeletal (MSK) anatomy) completed both surveys and had responses analyzed. Both cohorts, maintained initial perceptions across pre-/post-analyses (MSK p = 0.1376 and SYS p = 0.3521). Resource usage was similar across both cohorts with discrepancies in skeletal model and textbook use. No MSK learner ranked any lab resources as "not at all useful." MSK learners felt more prepared to write a graded assessment (p = 0.0269), whereas SYS learners did not (p = 0.0680). Stratification of learners in MSK and SYS revealed learners spending between 30 and 60 min in SI sessions during the study period had the highest grades compared to students who spent less than 30 (p = 0.0286) or more than 60 (p = 0.0286) min attending SI sessions, respectively. Most learners in MSK (89.4%) and SYS (66%) concluded that they preferred structured over unstructured SI. Sentiment/thematic analysis using a generative AI-driven large language model revealed learners held positive perceptions of SI, emphasizing structured learning, resources, personalized learning, and support offered as the most prevalent themes surrounding SI. Ultimately, this study provides evidence that supports SI for improving student outcomes related to perceived preparedness for completing assessments and preferred teaching/learning styles in undergraduate human anatomy.

Published
2024
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61. Lifetime HIV testing among three samples of adults with histories of incarceration in Southern California

Author

Ojeda, Victoria D, Jaeger, Melissa B, Hiller-Venegas, Sarah, Parker, Tamara, Lyles, Maurice, Castillo, Silvia, Vega, Gustavo, Moreno, Melissa, Schuler, Briana, Groneman, Arthur, Berliant, Emily, Romero, Natalie, Edwards, Todd M, Jimenez, Cielo, Lister, Zephon, Barksdale, Jerrica, Bazzi, Angela, Gaines, Tommi, and Gilmer, Todd

Subjects
Public Health, Health Sciences, HIV/AIDS, Clinical Research, Infectious Diseases, Clinical Trials and Supportive Activities, Health Disparities, Behavioral and Social Science, Prevention, Social Determinants of Health, Sexually Transmitted Infections, Minority Health, Pediatric AIDS, Pediatric, Health Services, Women's Health, Infection, Good Health and Well Being, Peace, Justice and Strong Institutions, Humans, Male, Female, California, Adult, HIV Infections, Cross-Sectional Studies, Prisoners, HIV Testing, Young Adult, Adolescent, Prevalence, Middle Aged, Hispanic or Latino, Mass Screening, Incarceration, HIV testing, probation, formerly incarcerated, justice impacted, parole, Black or African American, SDG 16: Peace, justice and strong institutions, SDG 17: Partnerships for the goals, SDG 3: Good health and well-being, SDG 4: Quality education, SDG 5: Gender equality, Public Health and Health Services, Psychology, Public health, Sociology, Clinical and health psychology
Abstract

ABSTRACTJustice-impacted persons may inconsistently access HIV testing. This cross-sectional secondary analysis investigates lifetime HIV testing prevalence among adults with prior histories of incarceration in Southern California, United States, participating in health-focused programming (n = 3 studies). Self-reported demographic and lifetime HIV testing data were collected between 2017-2023; descriptive analyses were conducted. Across the three samples, at least 74% of participants were male; Latino and African American individuals accounted for nearly two-thirds of participants. Lifetime HIV testing ranged from 72.8% to 84.2%. Males were significantly more likely than females to report never being tested in two samples and accounted for >95% of those never tested. No statistically significant differences in testing were observed by race/ethnicity. Single young adults (ages 18-26) were less likely than their partnered peers to report testing. HIV testing is critical for ensuring that individuals access prevention and treatment. HIV testing among justice-impacted adults in this study was higher than in the general population, potentially due to opt-out testing in correctional settings. Nevertheless, these findings underscore the importance of implementing targeted interventions to reduce structural (e.g., health insurance, access to self-testing kits) and social barriers (e.g., HIV stigma) to increase HIV testing among justice-impacted males and single young adults.

Published
2024

62. Sustained human outbreak of a new MPXV clade I lineage in eastern Democratic Republic of the Congo.

Author

Vakaniaki, Emmanuel, Kacita, Cris, Kinganda-Lusamaki, Eddy, OToole, Áine, Wawina-Bokalanga, Tony, Mukadi-Bamuleka, Daniel, Amuri-Aziza, Adrienne, Malyamungu-Bubala, Nadine, Mweshi-Kumbana, Franklin, Mutimbwa-Mambo, Léandre, Belesi-Siangoli, Freddy, Mujula, Yves, Parker, Edyth, Muswamba-Kayembe, Pauline-Chloé, Nundu, Sabin, Lushima, Robert, Makangara-Cigolo, Jean-Claude, Mulopo-Mukanya, Noella, Pukuta-Simbu, Elisabeth, Akil-Bandali, Prince, Kavunga, Hugo, Abdramane, Ombotimbe, Brosius, Isabel, Bangwen, Eugene, Vercauteren, Koen, Sam-Agudu, Nadia, Mills, Edward, Tshiani-Mbaya, Olivier, Hoff, Nicole, Rimoin, Anne, Hensley, Lisa, Kindrachuk, Jason, Baxter, Cheryl, de Oliveira, Tulio, Ayouba, Ahidjo, Peeters, Martine, Delaporte, Eric, Ahuka-Mundeke, Steve, Mohr, Emma, Sullivan, Nancy, Muyembe-Tamfum, Jean-Jacques, Nachega, Jean, Rambaut, Andrew, Liesenborghs, Laurens, and Mbala-Kingebeni, Placide

Subjects
Humans, Democratic Republic of the Congo, Disease Outbreaks, Mpox (monkeypox), Female, Male, Adult, Monkeypox virus, Young Adult, Phylogeny, Adolescent, Animals, Middle Aged, Genome, Viral, Mutation, Child
Abstract

Outbreaks of monkeypox (mpox) have historically resulted from zoonotic spillover of clade I monkeypox virus (MPXV) in Central Africa and clade II MPXV in West Africa. In 2022, subclade IIb caused a global epidemic linked to transmission through sexual contact. Here we describe the epidemiological and genomic features of an mpox outbreak in a mining region in eastern Democratic Republic of the Congo, caused by clade I MPXV. Surveillance data collected between September 2023 and January 2024 identified 241 suspected cases. Genomic analysis demonstrates a distinct clade I lineage divergent from previously circulating strains in the Democratic Republic of the Congo. Of the 108 polymerase chain reaction-confirmed mpox cases, the median age of individuals was 22 years, 51.9% were female and 29% were sex workers, suggesting a potential role for sexual transmission. The predominance of APOBEC3-type mutations and the estimated emergence time around mid-September 2023 imply recent sustained human-to-human transmission.

Published
2024

63. Stable isotope and proteomic insights into Bronze age human dietary life history at Köhne Shahar, Northwest Iran

Author

Eerkens, Jelmer W, Asgari, Sepideh, Alizadeh, Karim, Malarchik, Diana, Cramer, Samantha, and Parker, Glendon

Subjects
Archaeology, Historical Studies, History, Heritage and Archaeology, Nutrition, Pediatric, Iran, Bronze Age, stable isotopes, proteomics, Paleodiet, Kura-Araxes Culture
Abstract

Interest in subsistence strategies practiced by the Kura-Araxes communities in Southern Caucasus and the highlands of the Near East has a long history, yet direct studies of paleodiet at the scale of the individual are few. We apply serial sampling of carbon and nitrogen isotopes in 17 teeth representing 11 comingled individuals at the Kura-Araxes early Bronze Age site Köhne Shahar (KSH) in northwestern Iran. Proteomic analyses of dental enamel show seven females and four males. Isotopic results indicate an agro-pastoral diet with little or no C4 millet. Individual isotopic biographies reveal a dietary life history that includes weaning between 1.5 and 3.7 years of age (average = 2.4 years), followed by a stable early childhood diet with little intra-individual variation through age 10 years. Isotopic shifts around 12–14 years of age suggest a change in diet that may correspond to marriage and the establishment of new household units focused more on plant foods. Gradual isotopic shifts between 14 and 20 years may represent such households developing livestock herds and increasing meat consumption. Stability in diet across this transition is consistent with village endogamy. Sex-linked differences in the age of weaning and childhood δ15N values hint at differences in learning and enculturation practices. Males and about half of females were weaned earlier but had access to greater amounts of meat, suggesting they were more involved in animal husbandry and/or production of animal products (e.g., cheese, yoghurt) outside the house. By contrast, the other half of females were weaned later in childhood, but ate significantly more plant foods, suggesting they were more involved in tending gardens and producing crafts and/or plant-based foods within the house, where they had greater access to breastmilk.

Published
2024

64. A cross-sectional study investigating malaria prevalence and associated predictors of infection among migrants to a newly established gold mining settlement in the Gambella Region of Ethiopia.

Author

Glendening, Natasha, Haileselassie, Werissaw, Lee, Ming-Chieh, Taye, Behailu, Alemu, Yonas, Belachew, Ayele, Deressa, Wakgari, Yan, Guiyun, and Parker, Daniel

Subjects
Ethiopia, Extractive settlements, Gold mining, Malaria, Migration, Humans, Ethiopia, Cross-Sectional Studies, Adult, Adolescent, Female, Male, Prevalence, Young Adult, Transients and Migrants, Middle Aged, Child, Preschool, Child, Mining, Infant, Malaria, Falciparum, Gold, Aged, Plasmodium falciparum
Abstract

BACKGROUND: Malaria is a major disease burden in Ethiopia. Migration can influence malaria transmission dynamics, with individuals relocating from malaria-free highland regions to malarious lowlands potentially facing elevated risks of contracting malaria. Migrants may find it difficult to protect themselves against malaria and have limited access to diagnosis or treatment. Settlers in gold mining sites are one type of migrant and are often neglected in malaria research yet may have particularly high malaria risk. This study was a malaria prevalence survey among settlers in a new gold mining settlement in the highly malarious Gambella Region, Ethiopia. METHODS: n = 590 people were surveyed for demographic information and their knowledge and practices of malaria. Participants were tested for malaria using rapid diagnostic tests and microscopy. Using logistic regressions, the influence of demographic characteristics on malaria infections and bed net access were analysed. A sub-sample of participants was interviewed to comprehend settlement living conditions and healthcare accessibility. RESULTS: The overall prevalence of Plasmodium falciparum was 37.5% (CI 32.4-42.3%). Young children were most likely to have malaria, with individuals aged 15-24 having 67% lower odds (aOR: 0.33; CI 0.13-0.86) of infection compared to those aged 1-4 years old. Meanwhile, those age 25-plus had 75% decreased odds of malaria infection (aOR 0.25; CI 0.10-0.65). Individuals with bed nets had ~ 50% decreased odds of testing positive for falciparum malaria than those reporting having no bed net (aOR: 0.47; CI 0.22-0.97). Individuals who relocated from low elevation with high malaria test positivity rate areas were more prone to testing positive for malaria, as were those residing in densely populated households with multiple malaria cases. Conversely, individuals from higher elevations with low malaria test positivity rates, and those living in households with 5-10 occupants and

Published
2024

65. Ecological study measuring the association between conflict, environmental factors, and annual global cutaneous and mucocutaneous leishmaniasis incidence (2005-2022).

Author

Tarnas, Maia C, Abbara, Aula, Desai, Angel N, and Parker, Daniel M

Subjects
Biomedical and Clinical Sciences, Public Health, Health Sciences, Zero Hunger, Good Health and Well Being, Peace, Justice and Strong Institutions, Humans, Leishmaniasis, Cutaneous, Leishmaniasis, Mucocutaneous, Incidence, Environment, Temperature, Global Health, Biological Sciences, Medical and Health Sciences, Tropical Medicine, Biological sciences, Biomedical and clinical sciences, Health sciences
Abstract

BackgroundCutaneous and mucocutaneous leishmaniasis (CL/ML) cause significant morbidity globally and are vulnerable to changes from environmental events and conflict. In this ecological study, we aim to measure the associations between annual CL/ML cases, conflict intensity, and environmental factors between 2005 and 2022 globally.MethodsWe pulled annual case data from the WHO for 52 nations that had conflict intensity scores (ranging from 1-10) from the Bertelsmann Transformation Index. Using Earth observation tools, we gathered temperature, precipitation, vegetation, and humidity data, in addition to data on annual estimates of population, internal displacement, and GDP. We fit a negative binomial generalized additive model with a random nation-level intercept.ResultsConflict was positively associated with increased CL/ML across the studied nations (IRR: 1.09, 95% CI: 1.01-1.16, p = 0.02). Given this, intense conflict (a score of ten) was associated with over double the risk of CL/ML compared to the lowest conflict levels (score of one). We also identified a curvilinear relationship between mean temperature and cases, as well as between vegetation level and cases. Each had small pockets of significant increased and decreased risk, respectively. Larger mean humidity ranges were negatively associated with cases. Importantly, the relationship between conflict intensity and cases was mediated by displacement.DiscussionConflict is significantly associated with increased CL/ML cases. This is especially true at higher conflict levels, marking when conflict turns violent. The destruction of critical infrastructure (e.g., that related to healthcare, water, and sanitation) often seen during conflict could drive this association. Such environments can be hospitable to sandflies and can heighten individuals' vulnerability through increased malnutrition, poverty, and displacement. Understanding this relationship is crucial for public health preparedness and response, especially as conflicts become increasingly violent and protracted.

Published
2024

66. Datopotamab–deruxtecan plus durvalumab in early-stage breast cancer: the sequential multiple assignment randomized I-SPY2.2 phase 2 trial

Author

Shatsky, Rebecca A, Trivedi, Meghna S, Yau, Christina, Nanda, Rita, Rugo, Hope S, Davidian, Marie, Tsiatis, Butch, Wallace, Anne M, Chien, A Jo, Stringer-Reasor, Erica, Boughey, Judy C, Omene, Coral, Rozenblit, Mariya, Kalinsky, Kevin, Elias, Anthony D, Vaklavas, Christos, Beckwith, Heather, Williams, Nicole, Arora, Mili, Nangia, Chaitali, Roussos Torres, Evanthia T, Thomas, Brittani, Albain, Kathy S, Clark, Amy S, Falkson, Carla, Hershman, Dawn L, Isaacs, Claudine, Thomas, Alexandra, Tseng, Jennifer, Sanford, Amy, Yeung, Kay, Boles, Sarah, Chen, Yunni Yi, Huppert, Laura, Jahan, Nusrat, Parker, Catherine, Giridhar, Karthik, Howard, Frederick M, Blackwood, M Michele, Sanft, Tara, Li, Wen, Onishi, Natsuko, Asare, Adam L, Beineke, Philip, Norwood, Peter, Brown-Swigart, Lamorna, Hirst, Gillian L, Matthews, Jeffrey B, Moore, Brian, Symmans, W Fraser, Price, Elissa, Heditsian, Diane, LeStage, Barbara, Perlmutter, Jane, Pohlmann, Paula, DeMichele, Angela, Yee, Douglas, van ’t Veer, Laura J, Hylton, Nola M, and Esserman, Laura J

Subjects
Biomedical and Clinical Sciences, Oncology and Carcinogenesis, Clinical Trials and Supportive Activities, Precision Medicine, Women's Health, Cancer, Clinical Research, Breast Cancer, 6.1 Pharmaceuticals, Good Health and Well Being, Medical and Health Sciences, Immunology, Biomedical and clinical sciences, Health sciences
Abstract

Sequential adaptive trial designs can help accomplish the goals of personalized medicine, optimizing outcomes and avoiding unnecessary toxicity. Here we describe the results of incorporating a promising antibody-drug conjugate, datopotamab-deruxtecan (Dato-DXd) in combination with programmed cell death-ligand 1 inhibitor, durvalumab, as the first sequence of therapy in the I-SPY2.2 phase 2 neoadjuvant sequential multiple assignment randomization trial for high-risk stage 2/3 breast cancer. The trial includes three blocks of treatment, with initial randomization to different experimental agent(s) (block A), followed by a taxane-based regimen tailored to tumor subtype (block B), followed by doxorubicin-cyclophosphamide (block C). Subtype-specific algorithms based on magnetic resonance imaging volume change and core biopsy guide treatment redirection after each block, including the option of early surgical resection in patients predicted to have a high likelihood of pathologic complete response, which is the primary endpoint assessed when resection occurs. There are two primary efficacy analyses: after block A and across all blocks for six prespecified HER2-negative subtypes (defined by hormone receptor status and/or response-predictive subtypes). In total, 106 patients were treated with Dato-DXd/durvalumab in block A. In the immune-positive subtype, Dato-DXd/durvalumab exceeded the prespecified threshold for success (graduated) after block A; and across all blocks, pathologic complete response rates were equivalent to the rate expected for the standard of care (79%), but 54% achieved that result after Dato-DXd/durvalumab alone (block A) and 92% without doxorubicin-cyclophosphamide (after blocks A + B). The treatment strategy across all blocks graduated in the hormone-negative/immune-negative subtype. No new toxicities were observed. Stomatitis was the most common side effect in block A. No patients receiving block A treatment alone had adrenal insufficiency. Dato-DXd/durvalumab is a promising therapy combination that can eliminate standard chemotherapy in many patients, particularly the immune-positive subtype.ClinicalTrials.gov registration: NCT01042379 .

Published
2024

67. Prebiotic chiral transfer from self-aminoacylating ribozymes may favor either handedness.

Author

Kenchel, Josh, Vázquez-Salazar, Alberto, Wells, Reno, Brunton, Krishna, Janzen, Evan, Schultz, Kyle, Liu, Ziwei, Li, Weiwei, Parker, Eric, Dworkin, Jason, and Chen, Irene

Subjects
RNA, Catalytic, Aminoacylation, Amino Acids, Stereoisomerism, Nucleic Acid Conformation, RNA, Genetic Code
Abstract

Modern life is essentially homochiral, containing D-sugars in nucleic acid backbones and L-amino acids in proteins. Since coded proteins are theorized to have developed from a prebiotic RNA World, the homochirality of L-amino acids observed in all known life presumably resulted from chiral transfer from a homochiral D-RNA World. This transfer would have been mediated by aminoacyl-RNAs defining the genetic code. Previous work on aminoacyl transfer using tRNA mimics has suggested that aminoacylation using D-RNA may be inherently biased toward reactivity with L-amino acids, implying a deterministic path from a D-RNA World to L-proteins. Using a model system of self-aminoacylating D-ribozymes and epimerizable activated amino acid analogs, we test the chiral selectivity of 15 ribozymes derived from an exhaustive search of sequence space. All of the ribozymes exhibit detectable selectivity, and a substantial fraction react preferentially to produce the D-enantiomer of the product. Furthermore, chiral preference is conserved within sequence families. These results are consistent with the transfer of chiral information from RNA to proteins but do not support an intrinsic bias of D-RNA for L-amino acids. Different aminoacylation structures result in different directions of chiral selectivity, such that L-proteins need not emerge from a D-RNA World.

Published
2024

68. Immune proteins recovered in tooth enamel as a biochemical record of health in past populations: Paleoproteomic analysis of Mission Period Native Californians

Author

Buonasera, Tammy, Eerkens, Jelmer, Malarchik, Diana, Panich, Lee M, Canzonieri, Christopher, Zimmer, Christopher, Clough, Courtney, Ostrander, Thomas, Sutton, Aja, Salemi, Michelle, and Parker, Glendon

Subjects
Archaeology, History, Heritage and Archaeology, Dental/Oral and Craniofacial Disease, 1.1 Normal biological development and functioning, Inflammatory and immune system, Good Health and Well Being, Geochemistry, Geology
Abstract

The enamel proteome includes a range of proteins that are well-preserved in archaeological settings but have so far received less study than those associated with sex-estimation of enamel. We look beyond sex-specific sequencing of amelogenin to investigate the potential of several serum proteins, including immunoglobulin gamma (IgG), the major immunoglobulin found in blood serum, and C-reactive protein (CRP), which is associated with inflammatory response, to provide insight into the health and stresses experienced by individuals in the past. We apply this approach to enamel samples from Mission-Period ancestral Ohlone interred at Asistencia San Pedro y San Pablo (CA-SMA-71/H; n = 11). For comparison, we also examine enamel from historic-period European-Americans interred in the City Cemetery in San Francisco (n = 12), and extracted third molars from present-day military cadets (n = 8). Results indicate that IgG is elevated among individuals at the asistencia relative to samples from present-day military cadets, and historic City Cemetery individuals (ANOVA with post-hoc Tukey Kramer tests, p < .02). Further, the inflammatory protein CRP, normally expressed at much lower levels than IgG, was present in 55% (6 of 11) of the asistencia samples, and in 17% (2 of 12) of the historic City Cemetery samples, but was not detected in enamel samples from present-day military cadets. While more studies are needed, we argue that the difference in IgG could reflect higher levels of chronic diseases such as tuberculosis among Ohlone living within the Mission system, and the presence of measurable amounts of CRP could relate to higher degrees of physical, social, and emotional stresses. To our knowledge, this is the first paleoproteomic study of immune proteins in tooth enamel. The ability to track immune responses during tooth formation could provide valuable and high-resolution information on ancient health and disease at the level of the individual over archaeological time-scales.

Published
2024

69. Searching for GEMS: Characterizing Six Giant Planets around Cool Dwarfs

Author

Kanodia, Shubham, Gupta, Arvind F., Canas, Caleb I., Bernabo, Lia Marta, Reji, Varghese, Han, Te, Brady, Madison, Seifahrt, Andreas, Cochran, William D., Morrell, Nidia, Basant, Ritvik, Bean, Jacob, Bender, Chad F., de Beurs, Zoe L., Bieryla, Allyson, Birkholz, Alexina, Brown, Nina, Chapman, Franklin, Ciardi, David R., Clark, Catherine A., Cotter, Ethan G., Diddams, Scott A., Halverson, Samuel, Hawley, Suzanne, Hebb, Leslie, Holcomb, Rae, Howell, Steve B., Kobulnicky, Henry A., Kowalski, Adam F., Larsen, Alexander, Libby-Roberts, Jessica, Lin, Andrea S. J., Lund, Michael B., Luque, Rafael, Monson, Andrew, Ninan, Joe P., Parker, Brock A., Patel, Nishka, Rodruck, Michael, Ross, Gabrielle, Roy, Arpita, Schwab, Christian, Stefánsson, Guðmundur, Thoms, Aubrie, and Vanderburg, Andrew

Subjects
Astrophysics - Earth and Planetary Astrophysics
Abstract

Transiting giant exoplanets around M-dwarf stars (GEMS) are rare, owing to the low-mass host stars. However, the all-sky coverage of TESS has enabled the detection of an increasingly large number of them to enable statistical surveys like the \textit{Searching for GEMS} survey. As part of this endeavour, we describe the observations of six transiting giant planets, which includes precise mass measurements for two GEMS (K2-419Ab, TOI-6034b) and statistical validation for four systems, which includes validation and mass upper limits for three of them (TOI-5218b, TOI-5616b, TOI-5634Ab), while the fourth one -- TOI-5414b is classified as a `likely planet'. Our observations include radial velocities from the Habitable-zone Planet Finder on the Hobby-Eberly Telescope, and MAROON-X on Gemini-North, along with photometry and high-contrast imaging from multiple ground-based facilities. In addition to TESS photometry, K2-419Ab was also observed and statistically validated as part of the K2 mission in Campaigns 5 and 18, which provides precise orbital and planetary constraints despite the faint host star and long orbital period of $\sim 20.4$ days. With an equilibrium temperature of only 380 K, K2-419Ab is one of the coolest known well-characterized transiting planets. TOI-6034 has a late F-type companion about 40\arcsec~away, making it the first GEMS host star to have an earlier main-sequence binary companion. These confirmations add to the existing small sample of confirmed transiting GEMS., Comment: Accepted in AJ

Published
2024

70. A Customizable Modular Control System for Ultracold Experiments

Author

Wang, Kaiyue and Parker, Colin

Subjects
Physics - Atomic Physics, Physics - Instrumentation and Detectors
Abstract

We implemented a control system for ultracold atom experiments. The system includes hardware modules that generate synchronized experiment signals of different kinds, and a protocol to communicate with all the modules. We also implemented software that can automatically generate experiment sequences from declarative tables of parameters with variations. Both the hardware and the software are open-source for adaptation and customization in other experiment platforms.

Published
2024

71. On the Optimal Radius and Subcarrier Mapping for Binary Modulation on Conjugate-Reciprocal Zeros

Author

Huggins, Parker and Sahin, Alphan

Subjects
Electrical Engineering and Systems Science - Signal Processing
Abstract

In this work, we investigate the radius maximizing reliability for binary modulation on conjugate-reciprocal zeros (BMOCZ) implemented with both maximum likelihood (ML) and direct zero-testing (DiZeT) decoders. We first show that the optimal radius for BMOCZ is a function of the employed decoder and that the radius maximizing the minimum distance between polynomial zeros does not maximize the minimum distance of the final code. While maximizing zero separation offers an almost optimal solution with the DiZeT decoder, simulations show that the ML decoder outperforms the DiZeT decoder in both additive white Gaussian noise (AWGN) and fading channels when the radius is chosen to maximize codeword separation. Finally, we analyze different sequence-to-subcarrier mappings for BMOCZ-based orthogonal frequency division multiplexing (OFDM). We highlight a flexible time-frequency OFDM waveform that avoids distortion introduced by a frequency-selective channel at the expense of a higher peak-to-average power ratio (PAPR)., Comment: This work has been accepted for presentation at IEEE MILCOM 2024

Published
2024

72. 0ptical trapping with optical magnetic field and photonic Hall effect forces

Author

Li, Yanzeng, Valenton, Emmanuel, Nagasamudram, Spoorthi, Parker, John, Perez, Marcos, Manna, Uttam, Biswas, Mahua, Rice, Stuart A., and Scherer, Norbert F.

Subjects
Physics - Optics, Physics - Applied Physics
Abstract

Optical trapping is having ever-increasing impact in science $-$ particularly biophysics, photonics and most recently in quantum optomechanics $-$ owing to its superior capability for manipulating nanoscale structures and materials. However, essentially all experimental optical trapping studies in the optical dipole regime have, to date, been dominated by the interaction between a material's electric polarizability, $\alpha_{e}$, and the electric part of the incident electromagnetic field, and therefore described by electric field intensity gradient forces. Optical trapping based on optical magnetic light-matter interactions has not been experimentally addressed despite it's immediate extension of the boundaries of optical trapping research and applications. This paper addresses this long-standing deficiency through the realization of optical magnetic trapping of large index of refraction (i.e., Si) nanoparticles and also presents a formalism for quantitative understanding of the experimental findings. Our experimental optical trapping results require including optical magnetic polarizability, $\alpha_{m}$, and electric-magnetic scattering forces associated with the Photonic Hall effect that are qualitatively and quantitatively validated by Maxwell stress tensor calculations. Our findings bring new opportunities for nanoparticle manipulation, potentially relax the limitations Ashkin claimed based on the optical Earnshaw's theorem, motivate optical matter formation by optical magnetic interactions, and suggest new N-body effects and symmetry breaking to drive dynamics of optical matter systems.

Published
2024

73. First Discovery and Confirmation of PN Candidates Found from AI and Deep Learning Techniques Applied to VPHAS+ Survey Data

Author

Li, Yushan, Parker, Quentin, and Jia, Peng

Subjects
Astrophysics - Astrophysics of Galaxies, Astrophysics - Instrumentation and Methods for Astrophysics
Abstract

Context. We have developed deep learning (DL) and AI-based tools to search extant narrow-band wide-field H$\alpha$ surveys of the Galactic Plane for elusive planetary nebulae (PNe) which are hidden in dense star fields towards the Galactic center. They are faint, low-surface brightness, usually resolved sources, which are not discovered by previous automatic searches that depend on photometric data for point-like sources. These sources are very challenging to find by traditional visual inspection in such crowded fields and many have been missed. We have successfully adopted a novel 'Swin-Transformer' AI algorithm, which we described in detail in the preceding Techniques paper (Paper I). Aims. Here, we present preliminary results from our first spectroscopic follow-up run for 31 top-quality PN candidates found by the algorithm from the high-resolution H$\alpha$ survey VPHAS+. This survey has not yet undergone extensive manual, systematic searching. Methods. Our candidate PNe were observed with the SpUpNIC spectrograph on the 1.9 m telescope at the South African Astronomical Observatory (SAAO) in June 2023. We performed standard IRAF spectroscopic reduction and then followed our normal HASH PN identification and classification procedures. Results. Our reduced spectra confirmed that these candidates include 22 true, likely, and possible PNe (70.97\%), 3 emission-line galaxies, 2 emission-line stars, 2 late-type star contaminants, and 2 other H$\alpha$ sources including a newly identified detached fragment of SNR RCW 84. We present the imaging and spectral data of these candidates and a preliminary analysis of their properties. These data provide strong input to help evaluate and refine the behavior of the AI algorithm when searching for PNe in wide-field H$\alpha$ surveys.

Published
2024

74. Bayesian Inference analysis of jet quenching using inclusive jet and hadron suppression measurements

Author

Ehlers, R., Chen, Y., Mulligan, J., Ji, Y., Kumar, A., Mak, S., Jacobs, P. M., Majumder, A., Angerami, A., Arora, R., Bass, S. A., Datta, R., Du, L., Elfner, H., Fries, R. J., Gale, C., He, Y., Jacak, B. V., Jeon, S., Jonas, F., Kasper, L., Kordell II, M., Kunnawalkam-Elayavalli, R., Latessa, J., Lee, Y. -J., Lemmon, R., Luzum, M., Mankolli, A., Martin, C., Mehryar, H., Mengel, T., Nattrass, C., Norman, J., Parker, C., Paquet, J. -F., Putschke, J. H., Roch, H., Roland, G., Schenke, B., Schwiebert, L., Sengupta, A., Shen, C., Singh, M., Sirimanna, C., Soeder, D., Soltz, R. A., Soudi, I., Tachibana, Y., Velkovska, J., Vujanovic, G., Wang, X. -N., Wu, X., and Zhao, W.

Subjects
High Energy Physics - Phenomenology, Nuclear Experiment, Nuclear Theory
Abstract

The JETSCAPE Collaboration reports a new determination of the jet transport parameter $\hat{q}$ in the Quark-Gluon Plasma (QGP) using Bayesian Inference, incorporating all available inclusive hadron and jet yield suppression data measured in heavy-ion collisions at RHIC and the LHC. This multi-observable analysis extends the previously published JETSCAPE Bayesian Inference determination of $\hat{q}$, which was based solely on a selection of inclusive hadron suppression data. JETSCAPE is a modular framework incorporating detailed dynamical models of QGP formation and evolution, and jet propagation and interaction in the QGP. Virtuality-dependent partonic energy loss in the QGP is modeled as a thermalized weakly-coupled plasma, with parameters determined from Bayesian calibration using soft-sector observables. This Bayesian calibration of $\hat{q}$ utilizes Active Learning, a machine--learning approach, for efficient exploitation of computing resources. The experimental data included in this analysis span a broad range in collision energy and centrality, and in transverse momentum. In order to explore the systematic dependence of the extracted parameter posterior distributions, several different calibrations are reported, based on combined jet and hadron data; on jet or hadron data separately; and on restricted kinematic or centrality ranges of the jet and hadron data. Tension is observed in comparison of these variations, providing new insights into the physics of jet transport in the QGP and its theoretical formulation., Comment: 20 pages, 10 figures, 2 tables, submitted to PRC; updated acknowledgements

Published
2024

75. MedTsLLM: Leveraging LLMs for Multimodal Medical Time Series Analysis

Author

Chan, Nimeesha, Parker, Felix, Bennett, William, Wu, Tianyi, Jia, Mung Yao, Fackler, James, and Ghobadi, Kimia

Subjects
Computer Science - Machine Learning
Abstract

The complexity and heterogeneity of data in many real-world applications pose significant challenges for traditional machine learning and signal processing techniques. For instance, in medicine, effective analysis of diverse physiological signals is crucial for patient monitoring and clinical decision-making and yet highly challenging. We introduce MedTsLLM, a general multimodal large language model (LLM) framework that effectively integrates time series data and rich contextual information in the form of text to analyze physiological signals, performing three tasks with clinical relevance: semantic segmentation, boundary detection, and anomaly detection in time series. These critical tasks enable deeper analysis of physiological signals and can provide actionable insights for clinicians. We utilize a reprogramming layer to align embeddings of time series patches with a pretrained LLM's embedding space and make effective use of raw time series, in conjunction with textual context. Given the multivariate nature of medical datasets, we develop methods to handle multiple covariates. We additionally tailor the text prompt to include patient-specific information. Our model outperforms state-of-the-art baselines, including deep learning models, other LLMs, and clinical methods across multiple medical domains, specifically electrocardiograms and respiratory waveforms. MedTsLLM presents a promising step towards harnessing the power of LLMs for medical time series analysis that can elevate data-driven tools for clinicians and improve patient outcomes., Comment: published in Proceedings of Machine Learning Research, MLHC 2024

Published
2024

76. ESCAPE: Efficient Synthesis of Calibrations for Adaptive optics through Pseudo-synthetic and Empirical methods

Author

Taylor, Jacob, Swanson, Robin, Levesque, Parker, Lamb, Masen, Vaz, Amali, Montoya, Manny, Gardner, Andrew, Morzinski, Katie M., and Sivanandam, Suresh

Subjects
Astrophysics - Instrumentation and Methods for Astrophysics
Abstract

With the commissioning of the refurbished adaptive secondary mirror (ASM) for the 6.5-meter MMT Observatory under way, special consideration had to be made to properly calibrate the mirror response functions to generate an interaction matrix (IM). The commissioning of the ASM is part of the MMT Adaptive optics exoPlanet characterization System (MAPS) upgrade the observatory's legacy adaptive optics (AO) system. Unlike most AO systems, MAPS employs a convex ASM which prevents the introduction of a calibration source capable of simultaneously illuminating its ASM and wavefront sensor (WFS). This makes calibration of the AO system a significant hurdle in commissioning. To address this, we have employed a hybrid calibration strategy we call the Efficient Synthesis of Calibrations for Adaptive Optics through Pseudo-synthetic and Empirical methods (ESCAPE). ESCAPE combines the DO-CRIME on-sky calibration method with the SPRINT method for computing pseudo-synthetic calibration matrices. To monitor quasi-static system change, the ESCAPE methodology rapidly and continuously generates pseudo-synthetic calibration matrices using continual empirical feedback in either open or closed-loop. In addition, by measuring the current IM in the background while in close-loop, we are also able to measure the optical gains for pyramid wavefront sensor (PyWFS) systems. In this paper, we will provide the mathematical foundation of the ESCAPE calibration strategy and on-sky results from its application in calibrating the MMT Observatory's ASM. Additionally, we will showcase the validation of our approach from our AO testbed and share preliminary on-sky results from MMT., Comment: 16 pages, 9 figures, Submission to SPIE Adaptive Optics Systems IX

Published
2024

77. Dynamics of polymers in coarse-grained nematic solvents

Author

Valei, Zahra, Wamsler, Karolina, Parker, Alex J., Obara, Therese A., Klotz, Alexander R., and Shendruk, Tyler N.

Subjects
Condensed Matter - Soft Condensed Matter
Abstract

Polymers are a primary building block in many biomaterials, often interacting with anisotropic backgrounds. While previous studies have considered polymer dynamics within nematic solvents, rarely are the the effects of anisotropic viscosity and polymer elongation differentiated. Here, we study polymers embedded in nematic liquid crystals with isotropic viscosity via numerical simulations, to explicitly investigate the effect of nematicity on macromolecular conformation and how conformation alone can produce anisotropic dynamics. We employ a hybrid technique that captures nematic orientation, thermal fluctuations and hydrodynamic interactions. The coupling of the polymer backbone to the nematic field elongates the polymer, producing anisotropic diffusion even in nematic solvents with isotropic viscosity. For intermediate coupling, the competition between background anisotropy and macrmolecular entropy leads to hairpins - sudden kinks along the backbone of the polymer. Experiments of DNA embedded in a solution of rod-like fd viruses qualitatively support the role of hairpins in establishing characteristic conformational features that govern polymer dynamics. Hairpin diffusion along the backbone exponentially slows as coupling increases. Better understanding two-way coupling between polymers and their surroundings could allow the creation of more biomimetic composite materials., Comment: 13 pages, 7 figures, 2 appendices

Published
2024

78. Signatures of mass segregation from competitive accretion and monolithic collapse

Author

Parker, Richard J., Pinson, Emily J., Alcock, Hayley L., and Dale, James E.

Subjects
Astrophysics - Solar and Stellar Astrophysics, Astrophysics - Astrophysics of Galaxies
Abstract

The two main competing theories proposed to explain the formation of massive ($>10$M$_\odot$) stars -- competitive accretion and monolithic core collapse -- make different observable predictions for the environment of the massive stars during, and immediately after, their formation. Proponents of competitive accretion have long predicted that the most massive stars should have a different spatial distribution to lower-mass stars, either through the stars being mass segregated, or being in areas of higher relative densities, or sitting deeper in gravitational potential wells. We test these predictions by analysing a suite of SPH simulations where star clusters form massive stars via competitive accretion with and without feedback. We find that the most massive stars have higher relative densities, and sit in deeper potential wells, only in simulations in which feedback is not present. When feedback is included, only half of the simulations have the massive stars residing in deeper potential wells, and there are no other distinguishing signals in their spatial distributions. Intriguingly, in our simple models for monolithic core collapse, the massive stars may also end up in deeper potential wells, because if massive cores fragment the stars are still massive, and dominate their local environs. We find no robust diagnostic test in the spatial distributions of massive stars that can distinguish their formation mechanisms, and so other predictions for distinguishing between competitive accretion and monolithic collapse are required., Comment: 18 pages, 7 figures, with an Appendix containing a further 18 figures showing all the SPH simulation results. Accepted for publication in ApJ

Published
2024

79. AI Foundation Models in Remote Sensing: A Survey

Author

Lu, Siqi, Guo, Junlin, Zimmer-Dauphinee, James R, Nieusma, Jordan M, Wang, Xiao, VanValkenburgh, Parker, Wernke, Steven A, and Huo, Yuankai

Subjects
Computer Science - Computer Vision and Pattern Recognition, Computer Science - Machine Learning
Abstract

Artificial Intelligence (AI) technologies have profoundly transformed the field of remote sensing, revolutionizing data collection, processing, and analysis. Traditionally reliant on manual interpretation and task-specific models, remote sensing has been significantly enhanced by the advent of foundation models--large-scale, pre-trained AI models capable of performing a wide array of tasks with unprecedented accuracy and efficiency. This paper provides a comprehensive survey of foundation models in the remote sensing domain, covering models released between June 2021 and June 2024. We categorize these models based on their applications in computer vision and domain-specific tasks, offering insights into their architectures, pre-training datasets, and methodologies. Through detailed performance comparisons, we highlight emerging trends and the significant advancements achieved by these foundation models. Additionally, we discuss the technical challenges, practical implications, and future research directions, addressing the need for high-quality data, computational resources, and improved model generalization. Our research also finds that pre-training methods, particularly self-supervised learning techniques like contrastive learning and masked autoencoders, significantly enhance the performance and robustness of foundation models in remote sensing tasks such as scene classification, object detection, and other applications. This survey aims to serve as a resource for researchers and practitioners by providing a panorama of advances and promising pathways for continued development and application of foundation models in remote sensing.

Published
2024

80. Certifiably Robust Policies for Uncertain Parametric Environments

Author

Schnitzer, Yannik, Abate, Alessandro, and Parker, David

Subjects
Computer Science - Machine Learning, Computer Science - Artificial Intelligence, Electrical Engineering and Systems Science - Systems and Control
Abstract

We present a data-driven approach for producing policies that are provably robust across unknown stochastic environments. Existing approaches can learn models of a single environment as an interval Markov decision processes (IMDP) and produce a robust policy with a probably approximately correct (PAC) guarantee on its performance. However these are unable to reason about the impact of environmental parameters underlying the uncertainty. We propose a framework based on parametric Markov decision processes (MDPs) with unknown distributions over parameters. We learn and analyse IMDPs for a set of unknown sample environments induced by parameters. The key challenge is then to produce meaningful performance guarantees that combine the two layers of uncertainty: (1) multiple environments induced by parameters with an unknown distribution; (2) unknown induced environments which are approximated by IMDPs. We present a novel approach based on scenario optimisation that yields a single PAC guarantee quantifying the risk level for which a specified performance level can be assured in unseen environments, plus a means to trade-off risk and performance. We implement and evaluate our framework using multiple robust policy generation methods on a range of benchmarks. We show that our approach produces tight bounds on a policy's performance with high confidence.

Published
2024

81. SEP environment in the inner heliosphere from Solar Orbiter and Parker Solar Probe

Author

Wimmer-Schweingruber, Robert F., Rodriguez-Pacheco, Javier, Ho, George C., Cohen, Christina M., Mason, Glenn M., EPD, the Solar Orbiter, and teams, Parker Solar Probe ISIS

Subjects
Astrophysics - Solar and Stellar Astrophysics, Physics - Space Physics
Abstract

The Sun drives a supersonic wind which inflates a giant plasma bubble in our very local interstellar neighborhood, the heliosphere. It is bathed in an extremely variable background of energetic ions and electrons which originate from a number of sources. Solar energetic particles (SEPs) are accelerated in the vicinity of the Sun, whereas shocks driven by solar disturbances are observed to accelerate energetic storm particles (ESPs). Moreover, a dilute population with a distinct composition forms the anomalous cosmic rays (ACRs) which are of a mixed interstellar-heliospheric origin. Particles are also accelerated at planetary bow shocks. We will present recent observations of energetic particles by Solar Orbiter and Parker Solar Probe, as well as other spacecraft that allow us to study the acceleration and transport of energetic particles at multiple locations in the inner heliosphere., Comment: 10 pages, one figure, proceedings IAU Symposium 388

Published
2024

82. Tensor Network Python (TeNPy) version 1

Author

Hauschild, Johannes, Unfried, Jakob, Anand, Sajant, Andrews, Bartholomew, Bintz, Marcus, Borla, Umberto, Divic, Stefan, Drescher, Markus, Geiger, Jan, Hefel, Martin, Hémery, Kévin, Kadow, Wilhelm, Kemp, Jack, Kirchner, Nico, Liu, Vincent S., Möller, Gunnar, Parker, Daniel, Rader, Michael, Romen, Anton, Scalet, Samuel, Schoonderwoerd, Leon, Schulz, Maximilian, Soejima, Tomohiro, Thoma, Philipp, Wu, Yantao, Zechmann, Philip, Zweng, Ludwig, Mong, Roger S. K., Zaletel, Michael P., and Pollmann, Frank

Subjects
Condensed Matter - Strongly Correlated Electrons
Abstract

TeNPy (short for 'Tensor Network Python') is a python library for the simulation of strongly correlated quantum systems with tensor networks. The philosophy of this library is to achieve a balance of readability and usability for new-comers, while at the same time providing powerful algorithms for experts. The focus is on MPS algorithms for 1D and 2D lattices, such as DMRG ground state search, as well as dynamics using TEBD, TDVP, or MPO evolution. This article is a companion to the recent version 1.0 release of TeNPy and gives a brief overview of the package., Comment: v2: updated funding acknowledgement

Published
2024

83. Gemma 2: Improving Open Language Models at a Practical Size

Author

Gemma Team, Riviere, Morgane, Pathak, Shreya, Sessa, Pier Giuseppe, Hardin, Cassidy, Bhupatiraju, Surya, Hussenot, Léonard, Mesnard, Thomas, Shahriari, Bobak, Ramé, Alexandre, Ferret, Johan, Liu, Peter, Tafti, Pouya, Friesen, Abe, Casbon, Michelle, Ramos, Sabela, Kumar, Ravin, Lan, Charline Le, Jerome, Sammy, Tsitsulin, Anton, Vieillard, Nino, Stanczyk, Piotr, Girgin, Sertan, Momchev, Nikola, Hoffman, Matt, Thakoor, Shantanu, Grill, Jean-Bastien, Neyshabur, Behnam, Bachem, Olivier, Walton, Alanna, Severyn, Aliaksei, Parrish, Alicia, Ahmad, Aliya, Hutchison, Allen, Abdagic, Alvin, Carl, Amanda, Shen, Amy, Brock, Andy, Coenen, Andy, Laforge, Anthony, Paterson, Antonia, Bastian, Ben, Piot, Bilal, Wu, Bo, Royal, Brandon, Chen, Charlie, Kumar, Chintu, Perry, Chris, Welty, Chris, Choquette-Choo, Christopher A., Sinopalnikov, Danila, Weinberger, David, Vijaykumar, Dimple, Rogozińska, Dominika, Herbison, Dustin, Bandy, Elisa, Wang, Emma, Noland, Eric, Moreira, Erica, Senter, Evan, Eltyshev, Evgenii, Visin, Francesco, Rasskin, Gabriel, Wei, Gary, Cameron, Glenn, Martins, Gus, Hashemi, Hadi, Klimczak-Plucińska, Hanna, Batra, Harleen, Dhand, Harsh, Nardini, Ivan, Mein, Jacinda, Zhou, Jack, Svensson, James, Stanway, Jeff, Chan, Jetha, Zhou, Jin Peng, Carrasqueira, Joana, Iljazi, Joana, Becker, Jocelyn, Fernandez, Joe, van Amersfoort, Joost, Gordon, Josh, Lipschultz, Josh, Newlan, Josh, Ji, Ju-yeong, Mohamed, Kareem, Badola, Kartikeya, Black, Kat, Millican, Katie, McDonell, Keelin, Nguyen, Kelvin, Sodhia, Kiranbir, Greene, Kish, Sjoesund, Lars Lowe, Usui, Lauren, Sifre, Laurent, Heuermann, Lena, Lago, Leticia, McNealus, Lilly, Soares, Livio Baldini, Kilpatrick, Logan, Dixon, Lucas, Martins, Luciano, Reid, Machel, Singh, Manvinder, Iverson, Mark, Görner, Martin, Velloso, Mat, Wirth, Mateo, Davidow, Matt, Miller, Matt, Rahtz, Matthew, Watson, Matthew, Risdal, Meg, Kazemi, Mehran, Moynihan, Michael, Zhang, Ming, Kahng, Minsuk, Park, Minwoo, Rahman, Mofi, Khatwani, Mohit, Dao, Natalie, Bardoliwalla, Nenshad, Devanathan, Nesh, Dumai, Neta, Chauhan, Nilay, Wahltinez, Oscar, Botarda, Pankil, Barnes, Parker, Barham, Paul, Michel, Paul, Jin, Pengchong, Georgiev, Petko, Culliton, Phil, Kuppala, Pradeep, Comanescu, Ramona, Merhej, Ramona, Jana, Reena, Rokni, Reza Ardeshir, Agarwal, Rishabh, Mullins, Ryan, Saadat, Samaneh, Carthy, Sara Mc, Cogan, Sarah, Perrin, Sarah, Arnold, Sébastien M. R., Krause, Sebastian, Dai, Shengyang, Garg, Shruti, Sheth, Shruti, Ronstrom, Sue, Chan, Susan, Jordan, Timothy, Yu, Ting, Eccles, Tom, Hennigan, Tom, Kocisky, Tomas, Doshi, Tulsee, Jain, Vihan, Yadav, Vikas, Meshram, Vilobh, Dharmadhikari, Vishal, Barkley, Warren, Wei, Wei, Ye, Wenming, Han, Woohyun, Kwon, Woosuk, Xu, Xiang, Shen, Zhe, Gong, Zhitao, Wei, Zichuan, Cotruta, Victor, Kirk, Phoebe, Rao, Anand, Giang, Minh, Peran, Ludovic, Warkentin, Tris, Collins, Eli, Barral, Joelle, Ghahramani, Zoubin, Hadsell, Raia, Sculley, D., Banks, Jeanine, Dragan, Anca, Petrov, Slav, Vinyals, Oriol, Dean, Jeff, Hassabis, Demis, Kavukcuoglu, Koray, Farabet, Clement, Buchatskaya, Elena, Borgeaud, Sebastian, Fiedel, Noah, Joulin, Armand, Kenealy, Kathleen, Dadashi, Robert, and Andreev, Alek

Subjects
Computer Science - Computation and Language, Computer Science - Artificial Intelligence
Abstract

In this work, we introduce Gemma 2, a new addition to the Gemma family of lightweight, state-of-the-art open models, ranging in scale from 2 billion to 27 billion parameters. In this new version, we apply several known technical modifications to the Transformer architecture, such as interleaving local-global attentions (Beltagy et al., 2020a) and group-query attention (Ainslie et al., 2023). We also train the 2B and 9B models with knowledge distillation (Hinton et al., 2015) instead of next token prediction. The resulting models deliver the best performance for their size, and even offer competitive alternatives to models that are 2-3 times bigger. We release all our models to the community.

Published
2024

84. The Llama 3 Herd of Models

Author

Dubey, Abhimanyu, Jauhri, Abhinav, Pandey, Abhinav, Kadian, Abhishek, Al-Dahle, Ahmad, Letman, Aiesha, Mathur, Akhil, Schelten, Alan, Yang, Amy, Fan, Angela, Goyal, Anirudh, Hartshorn, Anthony, Yang, Aobo, Mitra, Archi, Sravankumar, Archie, Korenev, Artem, Hinsvark, Arthur, Rao, Arun, Zhang, Aston, Rodriguez, Aurelien, Gregerson, Austen, Spataru, Ava, Roziere, Baptiste, Biron, Bethany, Tang, Binh, Chern, Bobbie, Caucheteux, Charlotte, Nayak, Chaya, Bi, Chloe, Marra, Chris, McConnell, Chris, Keller, Christian, Touret, Christophe, Wu, Chunyang, Wong, Corinne, Ferrer, Cristian Canton, Nikolaidis, Cyrus, Allonsius, Damien, Song, Daniel, Pintz, Danielle, Livshits, Danny, Esiobu, David, Choudhary, Dhruv, Mahajan, Dhruv, Garcia-Olano, Diego, Perino, Diego, Hupkes, Dieuwke, Lakomkin, Egor, AlBadawy, Ehab, Lobanova, Elina, Dinan, Emily, Smith, Eric Michael, Radenovic, Filip, Zhang, Frank, Synnaeve, Gabriel, Lee, Gabrielle, Anderson, Georgia Lewis, Nail, Graeme, Mialon, Gregoire, Pang, Guan, Cucurell, Guillem, Nguyen, Hailey, Korevaar, Hannah, Xu, Hu, Touvron, Hugo, Zarov, Iliyan, Ibarra, Imanol Arrieta, Kloumann, Isabel, Misra, Ishan, Evtimov, Ivan, Copet, Jade, Lee, Jaewon, Geffert, Jan, Vranes, Jana, Park, Jason, Mahadeokar, Jay, Shah, Jeet, van der Linde, Jelmer, Billock, Jennifer, Hong, Jenny, Lee, Jenya, Fu, Jeremy, Chi, Jianfeng, Huang, Jianyu, Liu, Jiawen, Wang, Jie, Yu, Jiecao, Bitton, Joanna, Spisak, Joe, Park, Jongsoo, Rocca, Joseph, Johnstun, Joshua, Saxe, Joshua, Jia, Junteng, Alwala, Kalyan Vasuden, Upasani, Kartikeya, Plawiak, Kate, Li, Ke, Heafield, Kenneth, Stone, Kevin, El-Arini, Khalid, Iyer, Krithika, Malik, Kshitiz, Chiu, Kuenley, Bhalla, Kunal, Rantala-Yeary, Lauren, van der Maaten, Laurens, Chen, Lawrence, Tan, Liang, Jenkins, Liz, Martin, Louis, Madaan, Lovish, Malo, Lubo, Blecher, Lukas, Landzaat, Lukas, de Oliveira, Luke, Muzzi, Madeline, Pasupuleti, Mahesh, Singh, Mannat, Paluri, Manohar, Kardas, Marcin, Oldham, Mathew, Rita, Mathieu, Pavlova, Maya, Kambadur, Melanie, Lewis, Mike, Si, Min, Singh, Mitesh Kumar, Hassan, Mona, Goyal, Naman, Torabi, Narjes, Bashlykov, Nikolay, Bogoychev, Nikolay, Chatterji, Niladri, Duchenne, Olivier, Çelebi, Onur, Alrassy, Patrick, Zhang, Pengchuan, Li, Pengwei, Vasic, Petar, Weng, Peter, Bhargava, Prajjwal, Dubal, Pratik, Krishnan, Praveen, Koura, Punit Singh, Xu, Puxin, He, Qing, Dong, Qingxiao, Srinivasan, Ragavan, Ganapathy, Raj, Calderer, Ramon, Cabral, Ricardo Silveira, Stojnic, Robert, Raileanu, Roberta, Girdhar, Rohit, Patel, Rohit, Sauvestre, Romain, Polidoro, Ronnie, Sumbaly, Roshan, Taylor, Ross, Silva, Ruan, Hou, Rui, Wang, Rui, Hosseini, Saghar, Chennabasappa, Sahana, Singh, Sanjay, Bell, Sean, Kim, Seohyun Sonia, Edunov, Sergey, Nie, Shaoliang, Narang, Sharan, Raparthy, Sharath, Shen, Sheng, Wan, Shengye, Bhosale, Shruti, Zhang, Shun, Vandenhende, Simon, Batra, Soumya, Whitman, Spencer, Sootla, Sten, Collot, Stephane, Gururangan, Suchin, Borodinsky, Sydney, Herman, Tamar, Fowler, Tara, Sheasha, Tarek, Georgiou, Thomas, Scialom, Thomas, Speckbacher, Tobias, Mihaylov, Todor, Xiao, Tong, Karn, Ujjwal, Goswami, Vedanuj, Gupta, Vibhor, Ramanathan, Vignesh, Kerkez, Viktor, Gonguet, Vincent, Do, Virginie, Vogeti, Vish, Petrovic, Vladan, Chu, Weiwei, Xiong, Wenhan, Fu, Wenyin, Meers, Whitney, Martinet, Xavier, Wang, Xiaodong, Tan, Xiaoqing Ellen, Xie, Xinfeng, Jia, Xuchao, Wang, Xuewei, Goldschlag, Yaelle, Gaur, Yashesh, Babaei, Yasmine, Wen, Yi, Song, Yiwen, Zhang, Yuchen, Li, Yue, Mao, Yuning, Coudert, Zacharie Delpierre, Yan, Zheng, Chen, Zhengxing, Papakipos, Zoe, Singh, Aaditya, Grattafiori, Aaron, Jain, Abha, Kelsey, Adam, Shajnfeld, Adam, Gangidi, Adithya, Victoria, Adolfo, Goldstand, Ahuva, Menon, Ajay, Sharma, Ajay, Boesenberg, Alex, Vaughan, Alex, Baevski, Alexei, Feinstein, Allie, Kallet, Amanda, Sangani, Amit, Yunus, Anam, Lupu, Andrei, Alvarado, Andres, Caples, Andrew, Gu, Andrew, Ho, Andrew, Poulton, Andrew, Ryan, Andrew, Ramchandani, Ankit, Franco, Annie, Saraf, Aparajita, Chowdhury, Arkabandhu, Gabriel, Ashley, Bharambe, Ashwin, Eisenman, Assaf, Yazdan, Azadeh, James, Beau, Maurer, Ben, Leonhardi, Benjamin, Huang, Bernie, Loyd, Beth, De Paola, Beto, Paranjape, Bhargavi, Liu, Bing, Wu, Bo, Ni, Boyu, Hancock, Braden, Wasti, Bram, Spence, Brandon, Stojkovic, Brani, Gamido, Brian, Montalvo, Britt, Parker, Carl, Burton, Carly, Mejia, Catalina, Wang, Changhan, Kim, Changkyu, Zhou, Chao, Hu, Chester, Chu, Ching-Hsiang, Cai, Chris, Tindal, Chris, Feichtenhofer, Christoph, Civin, Damon, Beaty, Dana, Kreymer, Daniel, Li, Daniel, Wyatt, Danny, Adkins, David, Xu, David, Testuggine, Davide, David, Delia, Parikh, Devi, Liskovich, Diana, Foss, Didem, Wang, Dingkang, Le, Duc, Holland, Dustin, Dowling, Edward, Jamil, Eissa, Montgomery, Elaine, Presani, Eleonora, Hahn, Emily, Wood, Emily, Brinkman, Erik, Arcaute, Esteban, Dunbar, Evan, Smothers, Evan, Sun, Fei, Kreuk, Felix, Tian, Feng, Ozgenel, Firat, Caggioni, Francesco, Guzmán, Francisco, Kanayet, Frank, Seide, Frank, Florez, Gabriela Medina, Schwarz, Gabriella, Badeer, Gada, Swee, Georgia, Halpern, Gil, Thattai, Govind, Herman, Grant, Sizov, Grigory, Guangyi, Zhang, Lakshminarayanan, Guna, Shojanazeri, Hamid, Zou, Han, Wang, Hannah, Zha, Hanwen, Habeeb, Haroun, Rudolph, Harrison, Suk, Helen, Aspegren, Henry, Goldman, Hunter, Damlaj, Ibrahim, Molybog, Igor, Tufanov, Igor, Veliche, Irina-Elena, Gat, Itai, Weissman, Jake, Geboski, James, Kohli, James, Asher, Japhet, Gaya, Jean-Baptiste, Marcus, Jeff, Tang, Jeff, Chan, Jennifer, Zhen, Jenny, Reizenstein, Jeremy, Teboul, Jeremy, Zhong, Jessica, Jin, Jian, Yang, Jingyi, Cummings, Joe, Carvill, Jon, Shepard, Jon, McPhie, Jonathan, Torres, Jonathan, Ginsburg, Josh, Wang, Junjie, Wu, Kai, U, Kam Hou, Saxena, Karan, Prasad, Karthik, Khandelwal, Kartikay, Zand, Katayoun, Matosich, Kathy, Veeraraghavan, Kaushik, Michelena, Kelly, Li, Keqian, Huang, Kun, Chawla, Kunal, Lakhotia, Kushal, Huang, Kyle, Chen, Lailin, Garg, Lakshya, A, Lavender, Silva, Leandro, Bell, Lee, Zhang, Lei, Guo, Liangpeng, Yu, Licheng, Moshkovich, Liron, Wehrstedt, Luca, Khabsa, Madian, Avalani, Manav, Bhatt, Manish, Tsimpoukelli, Maria, Mankus, Martynas, Hasson, Matan, Lennie, Matthew, Reso, Matthias, Groshev, Maxim, Naumov, Maxim, Lathi, Maya, Keneally, Meghan, Seltzer, Michael L., Valko, Michal, Restrepo, Michelle, Patel, Mihir, Vyatskov, Mik, Samvelyan, Mikayel, Clark, Mike, Macey, Mike, Wang, Mike, Hermoso, Miquel Jubert, Metanat, Mo, Rastegari, Mohammad, Bansal, Munish, Santhanam, Nandhini, Parks, Natascha, White, Natasha, Bawa, Navyata, Singhal, Nayan, Egebo, Nick, Usunier, Nicolas, Laptev, Nikolay Pavlovich, Dong, Ning, Zhang, Ning, Cheng, Norman, Chernoguz, Oleg, Hart, Olivia, Salpekar, Omkar, Kalinli, Ozlem, Kent, Parkin, Parekh, Parth, Saab, Paul, Balaji, Pavan, Rittner, Pedro, Bontrager, Philip, Roux, Pierre, Dollar, Piotr, Zvyagina, Polina, Ratanchandani, Prashant, Yuvraj, Pritish, Liang, Qian, Alao, Rachad, Rodriguez, Rachel, Ayub, Rafi, Murthy, Raghotham, Nayani, Raghu, Mitra, Rahul, Li, Raymond, Hogan, Rebekkah, Battey, Robin, Wang, Rocky, Maheswari, Rohan, Howes, Russ, Rinott, Ruty, Bondu, Sai Jayesh, Datta, Samyak, Chugh, Sara, Hunt, Sara, Dhillon, Sargun, Sidorov, Sasha, Pan, Satadru, Verma, Saurabh, Yamamoto, Seiji, Ramaswamy, Sharadh, Lindsay, Shaun, Feng, Sheng, Lin, Shenghao, Zha, Shengxin Cindy, Shankar, Shiva, Zhang, Shuqiang, Wang, Sinong, Agarwal, Sneha, Sajuyigbe, Soji, Chintala, Soumith, Max, Stephanie, Chen, Stephen, Kehoe, Steve, Satterfield, Steve, Govindaprasad, Sudarshan, Gupta, Sumit, Cho, Sungmin, Virk, Sunny, Subramanian, Suraj, Choudhury, Sy, Goldman, Sydney, Remez, Tal, Glaser, Tamar, Best, Tamara, Kohler, Thilo, Robinson, Thomas, Li, Tianhe, Zhang, Tianjun, Matthews, Tim, Chou, Timothy, Shaked, Tzook, Vontimitta, Varun, Ajayi, Victoria, Montanez, Victoria, Mohan, Vijai, Kumar, Vinay Satish, Mangla, Vishal, Albiero, Vítor, Ionescu, Vlad, Poenaru, Vlad, Mihailescu, Vlad Tiberiu, Ivanov, Vladimir, Li, Wei, Wang, Wenchen, Jiang, Wenwen, Bouaziz, Wes, Constable, Will, Tang, Xiaocheng, Wang, Xiaofang, Wu, Xiaojian, Wang, Xiaolan, Xia, Xide, Wu, Xilun, Gao, Xinbo, Chen, Yanjun, Hu, Ye, Jia, Ye, Qi, Ye, Li, Yenda, Zhang, Yilin, Zhang, Ying, Adi, Yossi, Nam, Youngjin, Yu, Wang, Hao, Yuchen, Qian, Yundi, He, Yuzi, Rait, Zach, DeVito, Zachary, Rosnbrick, Zef, Wen, Zhaoduo, Yang, Zhenyu, and Zhao, Zhiwei

Subjects
Computer Science - Artificial Intelligence, Computer Science - Computation and Language, Computer Science - Computer Vision and Pattern Recognition
Abstract

Modern artificial intelligence (AI) systems are powered by foundation models. This paper presents a new set of foundation models, called Llama 3. It is a herd of language models that natively support multilinguality, coding, reasoning, and tool usage. Our largest model is a dense Transformer with 405B parameters and a context window of up to 128K tokens. This paper presents an extensive empirical evaluation of Llama 3. We find that Llama 3 delivers comparable quality to leading language models such as GPT-4 on a plethora of tasks. We publicly release Llama 3, including pre-trained and post-trained versions of the 405B parameter language model and our Llama Guard 3 model for input and output safety. The paper also presents the results of experiments in which we integrate image, video, and speech capabilities into Llama 3 via a compositional approach. We observe this approach performs competitively with the state-of-the-art on image, video, and speech recognition tasks. The resulting models are not yet being broadly released as they are still under development.

Published
2024

85. ToF-SIMS data analysis of Shewanella oneidensis MR-1 biofilms

Author

Parker, Gabriel D., Plymale, Andrew, Hanley, Luke, and Yu, Xiao-Ying

Subjects
Quantitative Biology - Biomolecules
Abstract

Analysis of bacterial biofilms is particularly challenging and important with diverse applications from systems biology to biotechnology. Among the variety of techniques that have been applied, time-of-flight secondary ion mass spectrometry (ToF-SIMS) has many promising features in studying the surface characteristics of biofilms. ToF-SIMS offers high spatial resolution and high mass accuracy, which permit surface sensitive analysis of biofilm components. Thus, ToF-SIMS provides a powerful solution to addressing the challenge of bacterial biofilm analysis. This dataset covers ToF-SIMS analysis of Shewanella oneidensis MR-1 isolated from freshwater lake sediment in New York state. The MR-1 strain is known to have metal and sulfur reducing properties and it can be used for bioremediation and wastewater treatment. There is a current need to identify small molecules and fragments produced from bacterial biofilms. Static ToF-SIMS spectra of MR-1 were obtained using an IONTOF TOF.SIMS V instrument equipped with a 25 keV Bi3+ metal ion gun. Identified molecules and molecular fragments are compared against known biological databases and the reported peaks have at least 65 ppm mass accuracy. These molecules range from lipids and fatty acids to flavonoids, quinolones, and other naturally occurring organic compounds. It is anticipated that the spectral identification of key peaks will assist detection of metabolites, extracellular polymeric substance molecules like polysaccharides, and biologically relevant small molecules using ToF-SIMS in future surface and interface research., Comment: 7 pages, 2 figures

Published
2024

86. Uncertainty Propagation and Filtering via the Koopman Operator in Astrodynamics

Author

Servadio, Simone, Parker, William, and Linares, Richard

Subjects
Computer Science - Information Theory
Abstract

The Koopman Operator (KO) provides an analytical solution of dynamical systems in terms of orthogonal polynomials. This work exploits this representation to include the propagation of uncertainties, where the polynomials are modified to work with stochastic variables. Thus, a new uncertainty quantification technique is proposed, where the KO solution is expanded to include the prediction of central moments, up to an arbitrary order. The propagation of uncertainties is then expanded to develop a new filtering algorithm, where measurements are considered as additional observables in the KO mathematics. Numerical simulations in astrodynamics assess the accuracy and performance of the new methodologies., Comment: 2022 AAS/AIAA Astrodynamics Specialist Conference

Published
2024

87. Electro-Optic Comb Generation Via Cascaded Harmonic Modulation

Author

Eliason, Todd, Parker, Payton A., and Reber, Melanie A. R.

Subjects
Physics - Optics
Abstract

Electro-optical modulation of a continuous wave laser is a highly stable way to generate frequency combs, gaining popularity in telecommunication and spectroscopic applications. These combs are generated by modulating non-linear electro-optic crystals with radio frequencies, creating equally spaced side-bands centered around the single-frequency seed laser. Electro-optic frequency comb architectures often choose between optical bandwidth (cascaded GHz combs) or higher mode density (chirped RF generation). This work demonstrates an electro-optic frequency comb with > 120 GHz of bandwidth and a 75 MHz repetition rate. The comb has three cascaded electro-optic modulators driven at sequentially lower harmonics, the last megahertz modulation dictating the repetition rate. This architecture can modulate at any individual harmonic and repetition rate without changes to the components. This comb can be used in any applications where a stable and tunable repetition rate is needed., Comment: 8 figures, 11 pages

Published
2024

88. Hybrid Skyrmions in Magnetic Multilayer Thin Films are Half-Integer Hopfions

Author

Parker, William S., Reddinger, Jacques A., and McMorran, Benjamin J.

Subjects
Condensed Matter - Materials Science
Abstract

Magnetic skyrmions are chiral spin textures which have attracted intense research for their fundamentally novel physics and potential applications as spintronic information carriers. The stability which makes them so potentially useful is a result of their underlying non-trivial topology. While skyrmions were originally predicted and observed in crystalline materials lacking inversion symmetry, some of the most promising host systems for skyrmions are multilayer thin films, where skyrmions have been stabilized at ambient conditions, which is critical for their use in real world devices. The skyrmions found in multilayer thin films have additional three-dimensional structure, with their domain wall helicities twisting through the thickness of the film to create a hybrid skyrmion composed of a Bloch-type core with N\'eel-type caps of opposite chiralities at the surfaces. In this work, we show that this three-dimensional variation creates additional knotted topological structure, providing an explanation for their exceptional stability in ambient conditions. We show that hybrid skyrmions can be described as half-integer Hopfions, and that their field lines have the knotted structure of the Hopf fibration. Furthermore, we show that the topological charge of partially twisted hybrid skyrmions can be related to the domain wall helicity at the surfaces, providing a straightforward way to connect experimental measurements to underlying topology., Comment: 8 pages, 6 figures, 1 table

Published
2024

89. The Double-Sided Silicon Strip Detector Tracker onboard the ComPair Balloon Flight

Author

Kirschner, Nicholas, Kierans, Carolyn, Wasti, Sambid, Schoenwald, Adam J., Caputo, Regina, Griffin, Sean, Liceaga-Indart, Iker, Parker, Lucas, Perkins, Jeremy S., and Zajczyk, Anna

Subjects
Astrophysics - Instrumentation and Methods for Astrophysics
Abstract

The ComPair balloon instrument is a prototype of the All-sky Medium Energy Gamma-ray Observatory (AMEGO) mission concept. AMEGO aims to bridge the spectral gap in sensitivity that currently exists from $\sim$100 keV to $\sim$100 MeV by being sensitive to both Compton and pair-production events. This is made possible through the use of four subsystems working together to reconstruct events: a double-sided silicon strip detector (DSSD) Tracker, a virtual Frisch grid cadmium zinc telluride (CZT) Low Energy Calorimeter, a ceasium iodide (CsI) High Energy Calorimeter, and an anti-coincidence detector (ACD) to reject charged particle backgrounds. Composed of 10 layers of DSSDs, ComPair's Tracker is designed to measure the position of photons that Compton scatter in the silicon, as well as reconstruct the tracks of electrons and positrons from pair-production as they propagate through the detector. By using these positions, as well as the absorbed energies in the Tracker and 2 Calorimeters, the energy and direction of the incident photon can be determined. This proceeding will present the development, testing, and calibration of the ComPair DSSD Tracker and early results from its balloon flight in August 2023., Comment: SPIE Astronomical Telescopes + Instrumentation Conference

Published
2024

90. Measurement of the $^8$B Solar Neutrino Flux Using the Full SNO+ Water Phase

Author

Collaboration, SNO, Allega, A., Anderson, M. R., Andringa, S., Askins, M., Auty, D. J., Bacon, A., Baker, J., Barão, F., Barros, N., Bayes, R., Beier, E. W., Bialek, A., Biller, S. D., Blucher, E., Caden, E., Callaghan, E. J., Chen, M., Cheng, S., Cleveland, B., Cookman, D., Corning, J., Cox, M. A., Dehghani, R., Deloye, J., Depatie, M. M., Di Lodovico, F., Dima, C., Dittmer, J., Dixon, K. H., Esmaeilian, M. S., Falk, E., Fatemighomi, N., Ford, R., Gaur, A., González-Reina, O. I., Gooding, D., Grant, C., Grove, J., Hall, S., Hallin, A. L., Hallman, D., Heintzelman, W. J., Helmer, R. L., Hewitt, C., Howard, V., Hreljac, B., Hu, J., Huang, P., Hunt-Stokes, R., Hussain, S. M. A., Inácio, A. S., Jillings, C. J., Kaluzienski, S., Kaptanoglu, T., Khan, H., Kladnik, J., Klein, J. R., Kormos, L. L., Krar, B., Kraus, C., Krauss, C. B., Kroupová, T., Lake, C., Lebanowski, L., Lefebvre, C., Lozza, V., Luo, M., Maio, A., Manecki, S., Maneira, J., Martin, R. D., McCauley, N., McDonald, A. B., Milton, G., Colina, A. Molina, Morris, D., Mubasher, M., Naugle, S., Nolan, L. J., O'Keeffe, H. M., Gann, G. D. Orebi, Page, J., Paleshi, K., Parker, W., Paton, J., Peeters, S. J. M., Pickard, L., Quenallata, B., Ravi, P., Reichold, A., Riccetto, S., Rose, J., Rosero, R., Semenec, I., Simms, J., Skensved, P., Smiley, M., Smith, J., Svoboda, R., Tam, B., Tseng, J., Vázquez-Jáuregui, E., Veinot, J. G. C., Virtue, C. J., Ward, M., Weigand, J. J., Wilson, J. R., Wilson, J. D., Wright, A., Yang, S., Yeh, M., Ye, Z., Yu, S., Zhang, Y., Zuber, K., and Zummo, A.

Subjects
High Energy Physics - Experiment
Abstract

The SNO+ detector operated initially as a water Cherenkov detector. The implementation of a sealed covergas system midway through water data taking resulted in a significant reduction in the activity of $^{222}$Rn daughters in the detector and allowed the lowest background to the solar electron scattering signal above 5 MeV achieved to date. This paper reports an updated SNO+ water phase $^8$B solar neutrino analysis with a total livetime of 282.4 days and an analysis threshold of 3.5 MeV. The $^8$B solar neutrino flux is found to be $\left(2.32^{+0.18}_{-0.17}\text{(stat.)}^{+0.07}_{-0.05}\text{(syst.)}\right)\times10^{6}$ cm$^{-2}$s$^{-1}$ assuming no neutrino oscillations, or $\left(5.36^{+0.41}_{-0.39}\text{(stat.)}^{+0.17}_{-0.16}\text{(syst.)} \right)\times10^{6}$ cm$^{-2}$s$^{-1}$ assuming standard neutrino oscillation parameters, in good agreement with both previous measurements and Standard Solar Model Calculations. The electron recoil spectrum is presented above 3.5 MeV.

Published
2024

91. A soft-hard framework with exact four momentum conservation for small systems

Author

Soudi, I., Zhao, W., Majumder, A., Shen, C., Putschke, J. H., Boudreaux, B., Angerami, A., Arora, R., Bass, S. A., Chen, Y., Datta, R., Du, L., Ehlers, R., Elfner, H., Fries, R. J., Gale, C., He, Y., Jacak, B. V., Jacobs, P. M., Jeon, S., Ji, Y., Kasper, L., Kelsey, M., Kordell II, M., Kumar, A., Kunnawalkam-Elayavalli, R., Latessa, J., Lee, Y. -J., Lemmon, R., Luzum, M., Mak, S., Mankolli, A., Martin, C., Mehryar, H., Mengel, T., Nattrass, C., Norman, J., Parker, C., Paquet, J. -F., Roch, H., Roland, G., Schenke, B., Schwiebert, L., Sengupta, A., Singh, M., Sirimanna, C., Soeder, D., Soltz, R. A., Tachibana, Y., Velkovska, J., Vujanovic, G., Wang, X. -N., and Wu, X.

Subjects
High Energy Physics - Phenomenology, High Energy Physics - Experiment, High Energy Physics - Theory, Nuclear Theory
Abstract

A new framework, called x-scape, for the combined study of both hard and soft transverse momentum sectors in high energy proton-proton ($p$-$p$) and proton-nucleus ($p$-$A$) collisions is set up. A dynamical initial state is set up using the 3d-Glauber model with transverse locations of hotspots within each incoming nucleon. A hard scattering that emanates from two colliding hotspots is carried out using the Pythia generator. Initial state radiation from the incoming hard partons is carried out in a new module called I-matter, which includes the longitudinal location of initial splits. The energy-momentum of both the initial hard partons and their associated beam remnants is removed from the hot spots, depleting the energy-momentum available for the formation of the bulk medium. Outgoing showers are simulated using the matter generator, and results are presented for both cases, allowing for and not allowing for energy loss. First comparisons between this hard-soft model and single inclusive hadron and jet data from $p$-$p$ and minimum bias $p$-$Pb$ collisions are presented. Single hadron spectra in $p$-$p$ are used to carry out a limited (in number of parameters) Bayesian calibration of the model. Fair comparisons with data are indicative of the utility of this new framework. Theoretical studies of the correlation between jet $p_T$ and event activity at mid and forward rapidity are carried out., Comment: 18 pages, 15 figures

Published
2024

92. Systematic study of High $E_J/E_C$ transmon qudits up to $d = 12$

Author

Wang, Z., Parker, R. W., Champion, E., and Blok, M. S.

Subjects
Quantum Physics
Abstract

Qudits provide a resource-efficient alternative to qubits for quantum information processing. The multilevel nature of the transmon, with its individually resolvable transition frequencies, makes it an attractive platform for superconducting circuit-based qudits. In this work, we systematically analyze the trade-offs associated with encoding high-dimensional quantum information in fixed-frequency transmons. Designing high $E_J/E_C$ ratios of up to 325, we observe up to 12 levels ($d=12$) on a single transmon. Despite the decreased anharmonicity, we demonstrate process infidelities $e_f < 3 \times 10^{-3}$ for qubit-like operations in each adjacent-level qubit subspace in the lowest 10 levels. Furthermore, we achieve a 10-state readout assignment fidelity of 93.8% with the assistance of deep neural network classification of a multi-tone dispersive measurement. We find that the Hahn echo time $T_{2E}$ for the higher levels is close to the limit of $T_1$ decay, primarily limited by bosonic enhancement. We verify the recently introduced Josephson harmonics model, finding that it yields better predictions for the transition frequencies and charge dispersion. Finally, we show strong $ZZ$-like coupling between the higher energy levels in a two-transmon system. Our high-fidelity control and readout methods, in combination with our comprehensive characterization of the transmon model, suggest that the high-$E_J/E_C$ transmon is a powerful tool for exploring excited states in circuit quantum electrodynamics., Comment: 18 pages, 9 figures

Published
2024

93. Advancing Ultraviolet Detector Technology for future missions: Investigating the dark current plateau in silicon detectors using photon-counting EMCCDs

Author

Khan, Aafaque R., Hamden, Erika, Kyne, Gillian, Jewell, April D., Henessey, John, Nikzad, Shouleh, Picouet, Vincent, Jones, Olivia, Bradley, Harrison, Kerkeser, Nazende, Lin, Zeren, Parker, Brock, West, Grant, Ford, John, Gacon, Frank, Beaty, Dave, and Vider, Jacob

Subjects
Astrophysics - Instrumentation and Methods for Astrophysics, Physics - Instrumentation and Detectors
Abstract

Understanding the noise characteristics of high quantum efficiency silicon-based ultraviolet detectors, developed by the Microdevices Lab at the Jet Propulsion Laboratory, is critical for current and proposed UV missions using these devices. In this paper, we provide an overview of our detector noise characterization test bench that uses delta-doped, photon counting, Electron-multiplying CCDs (EMCCDs) to understand the fundamental noise properties relevant to all silicon CCDs and CMOS arrays. This work attempts to identify the source of the dark current plateau that has been previously measured with photon-counting EMCCDs and is known to be prevalent in other silicon-based arrays. It is suspected that the plateau could be due to a combination of detectable photons in the tail of blackbody radiation of the ambient instrument, low-level light leaks, and a non-temperature-dependent component that varies with substrate voltage. Our innovative test setup delineates the effect of the ambient environment during dark measurements by independently controlling the temperature of the detector and surrounding environment. We present the design of the test setup and preliminary results., Comment: Submitted for Proceedings of SPIE Astronomical Telescopes+Instrumentation 2024, Paper number: 13093-26

Published
2024

94. Stable Audio Open

Author

Evans, Zach, Parker, Julian D., Carr, CJ, Zukowski, Zack, Taylor, Josiah, and Pons, Jordi

Subjects
Computer Science - Sound, Computer Science - Artificial Intelligence, Electrical Engineering and Systems Science - Audio and Speech Processing
Abstract

Open generative models are vitally important for the community, allowing for fine-tunes and serving as baselines when presenting new models. However, most current text-to-audio models are private and not accessible for artists and researchers to build upon. Here we describe the architecture and training process of a new open-weights text-to-audio model trained with Creative Commons data. Our evaluation shows that the model's performance is competitive with the state-of-the-art across various metrics. Notably, the reported FDopenl3 results (measuring the realism of the generations) showcase its potential for high-quality stereo sound synthesis at 44.1kHz., Comment: Demo: https://stability-ai.github.io/stable-audio-open-demo/ Weights: https://huggingface.co/stabilityai/stable-audio-open-1.0 Code: https://github.com/Stability-AI/stable-audio-tools. arXiv admin note: text overlap with arXiv:2404.10301

Published
2024

95. Coupling Fluid Plasma and Kinetic Neutral Models using Correlated Monte Carlo Methods

Author

Parker, Gregory J., Umansky, Maxim V., and Dudson, Benjamin D.

Subjects
Physics - Plasma Physics, Mathematics - Numerical Analysis, Physics - Computational Physics
Abstract

While boundary plasmas in present day tokamaks generally fall in a fluid regime, neutral species near the boundary often require kinetic models due to long mean-free-paths compared to characteristic spatial scales in the region. Monte-Carlo (MC) methods provide a complete, high-fidelity approach to solving kinetic models, and must be coupled to fluid plasma models to simulate the full plasma-neutrals system. The statistical nature of MC methods, however, prevents convergence of coupled fluid-kinetic simulations to an exact self-consistent steady-state. Moreover, this forces the use of explicit methods that can suffer from numerical errors and require huge computational resources. Correlated Monte-Carlo (CMC) methods are expected to alleviate these issues, but have historically enjoyed only mixed success. Here, a fully implicit method for coupled plasma-neutral systems is demonstrated in 1D using the UEDGE plasma code and a homemade CMC code. In particular, it is shown that ensuring the CMC method is a differentiable function of the background plasma is sufficient to employ a Jacobian-Free Newton-Krylov solver for implicit time steps. The convergence of the implicit coupling method is explored and compared with explicit coupling and uncorrelated methods. It is shown that ensuring differentiability by controlling random seeds in the MC is sufficient to achieve convergence, and that the use of implicit time-stepping methods has the potential for improved stability and runtimes over explicit coupling methods., Comment: 6 pages, 6 figures. Comments welcome!

Published
2024

96. $\mathbb Z_2$-Harmonic Spinors and 1-forms on Connected sums and Torus sums of 3-manifolds

Author

He, Siqi and Parker, Gregory J.

Subjects
Mathematics - Differential Geometry, Mathematics - Analysis of PDEs, Mathematics - Geometric Topology
Abstract

Given a pair of $\mathbb{Z}_2$-harmonic spinors (resp. 1-forms) on closed Riemannian 3-manifolds $(Y_1, g_1)$ and $(Y_2,g_2)$, we construct $\mathbb{Z}_2$-harmonic spinors (resp. 1-forms) on the connected sum $Y_1 \# Y_2$ and the torus sum $Y_1 \cup_{T^2} Y_2$ using a gluing argument. The main tool in the proof is a parameterized version of the Nash-Moser implicit function theorem established by Donaldson and the second author. We use these results to construct an abundance of new examples of $\mathbb Z_2$-harmonic spinors and 1-forms. In particular, we prove that for every closed 3-manifold $Y$, there exist infinitely many $\mathbb{Z}_2$-harmonic spinors with singular sets representing infinitely many distinct isotopy classes of embedded links, strengthening an existence theorem of Doan-Walpuski. Moreover, combining this with previous results, our construction implies that if $b_1(Y) > 0$, there exist infinitely many $\mathrm{spin}^c$ structures on $Y$ such that the moduli space of solutions to the two-spinor Seiberg-Witten equations is non-empty and non-compact., Comment: 38 pages, comments welcome!

Published
2024

97. Imaging Coulomb interactions and migrating Dirac cones in twisted graphene by local quantum oscillations

Author

Bocarsly, Matan, Roy, Indranil, Bhardwaj, Vishal, Uzan, Matan, Ledwith, Patrick, Shavit, Gal, Banu, Nasrin, Zhou, Yaozhang, Myasoedov, Yuri, Watanabe, Kenji, Taniguchi, Takashi, Oreg, Yuval, Parker, Dan, Ronen, Yuval, and Zeldov, Eli

Subjects
Condensed Matter - Mesoscale and Nanoscale Physics, Condensed Matter - Quantum Gases, Condensed Matter - Strongly Correlated Electrons, Quantum Physics
Abstract

Flat band moir\'e graphene systems have emerged as a quintessential platform to investigate correlated phases of matter. A plethora of interaction-driven ground states have been proposed, and yet despite extensive experimental effort, there has been little direct evidence that distinguishes between the various phases, in particular near charge neutrality point. Here, we use a nanoscale scanning superconducting quantum interference device to image the local thermodynamic quantum oscillations in alternating-twist trilayer graphene at magnetic fields as low as 56 mT, which reveal ultrafine details of the density of states and of the renormalization of the single-particle band structure by Coulomb interactions. We find that the charging self-energy due to occupied electronic states, is critical in explaining the high carrier density physics. At half-filling of the conduction flat band, we observe a Stoner-like symmetry breaking, suggesting that it is the most robust mechanism in the hierarchy of phase transitions. On approaching charge neutrality, where the charging energy is negligible and exchange energy is dominant, we find the ground state to be a nematic semimetal which is favored over gapped states in the presence of heterostrain. In the revealed semimetallic phase, the flat-band Dirac cones migrate towards the mini-Brillouin zone center, spontaneously breaking the C_3 rotational symmetry. Our low-field local quantum oscillations technique presents an alluring avenue to explore the ground states of diverse strongly interacting van der Waals systems., Comment: 30 pages, 4 main text figures, 6 Extended Data figures

Published
2024

98. Swift-BAT GUANO follow-up of gravitational-wave triggers in the third LIGO-Virgo-KAGRA observing run

Author

Raman, Gayathri, Ronchini, Samuele, Delaunay, James, Tohuvavohu, Aaron, Kennea, Jamie A., Parsotan, Tyler, Ambrosi, Elena, Bernardini, Maria Grazia, Campana, Sergio, Cusumano, Giancarlo, D'Ai, Antonino, D'Avanzo, Paolo, D'Elia, Valerio, De Pasquale, Massimiliano, Dichiara, Simone, Evans, Phil, Hartmann, Dieter, Kuin, Paul, Melandri, Andrea, O'Brien, Paul, Osborne, Julian P., Page, Kim, Palmer, David M., Sbarufatti, Boris, Tagliaferri, Gianpiero, Troja, Eleonora, Abac, A. G., Abbott, R., Abe, H., Abouelfettouh, I., Acernese, F., Ackley, K., Adamcewicz, C., Adhicary, S., Adhikari, N., Adhikari, R. X., Adkins, V. K., Adya, V. B., Affeldt, C., Agarwal, D., Agathos, M., Aguiar, O. D., Aguilar, I., Aiello, L., Ain, A., Akutsu, T., Albanesi, S., Alfaidi, R. A., Al-Jodah, A., Alléné, C., Allocca, A., Al-Shammari, S., Altin, P. A., Alvarez-Lopez, S., Amato, A., Amez-Droz, L., Amorosi, A., Amra, C., Anand, S., Ananyeva, A., Anderson, S. B., Anderson, W. G., Andia, M., Ando, M., Andrade, T., Andres, N., Andrés-Carcasona, M., Andrić, T., Anglin, J., Ansoldi, S., Antelis, J. M., Antier, S., Aoumi, M., Appavuravther, E. Z., Appert, S., Apple, S. K., Arai, K., Araya, A., Araya, M. C., Areeda, J. S., Aritomi, N., Armato, F., Arnaud, N., Arogeti, M., Aronson, S. M., Ashton, G., Aso, Y., Assiduo, M., Melo, S. Assis de Souza, Aston, S. M., Astone, P., Aubin, F., AultONeal, K., Avallone, G., Babak, S., Badaracco, F., Badger, C., Bae, S., Bagnasco, S., Bagui, E., Bai, Y., Baier, J. G., Bajpai, R., Baka, T., Ball, M., Ballardin, G., Ballmer, S. W., Banagiri, S., Banerjee, B., Bankar, D., Baral, P., Barayoga, J. C., Barish, B. C., Barker, D., Barneo, P., Barone, F., Barr, B., Barsotti, L., Barsuglia, M., Barta, D., Barthelmy, S. D., Barton, M. A., Bartos, I., Basak, S., Basalaev, A., Bassiri, R., Basti, A., Bawaj, M., Baxi, P., Bayley, J. C., Baylor, A. C., Bazzan, M., Bécsy, B., Bedakihale, V. M., Beirnaert, F., Bejger, M., Belardinelli, D., Bell, A. S., Benedetto, V., Beniwal, D., Benoit, W., Bentley, J. D., Yaala, M. Ben, Bera, S., Berbel, M., Bergamin, F., Berger, B. K., Bernuzzi, S., Beroiz, M., Berry, C. P. L., Bersanetti, D., Bertolini, A., Betzwieser, J., Beveridge, D., Bevins, N., Bhandare, R., Bhardwaj, U., Bhatt, R., Bhattacharjee, D., Bhaumik, S., Bhowmick, S., Bianchi, A., Bilenko, I. A., Billingsley, G., Binetti, A., Bini, S., Birnholtz, O., Biscoveanu, S., Bisht, A., Bitossi, M., Bizouard, M. -A., Blackburn, J. K., Blair, C. D., Blair, D. G., Bobba, F., Bode, N., Bogaert, G., Boileau, G., Boldrini, M., Bolingbroke, G. N., Bolliand, A., Bonavena, L. D., Bondarescu, R., Bondu, F., Bonilla, E., Bonilla, M. S., Bonino, A., Bonnand, R., Booker, P., Borchers, A., Boschi, V., Bose, S., Bossilkov, V., Boudart, V., Boumerdassi, A., Bozzi, A., Bradaschia, C., Brady, P. R., Braglia, M., Branch, A., Branchesi, M., Breschi, M., Briant, T., Brillet, A., Brinkmann, M., Brockill, P., Brockmueller, E., Brooks, A. F., Brown, D. D., Brozzetti, M. L., Brunett, S., Bruno, G., Bruntz, R., Bryant, J., Bucci, F., Buchanan, J., Bulashenko, O., Bulik, T., Bulten, H. J., Buonanno, A., Burtnyk, K., Buscicchio, R., Buskulic, D., Buy, C., Byer, R. L., Davies, G. S. Cabourn, Cabras, G., Cabrita, R., Cadonati, L., Cagnoli, G., Cahillane, C., Bustillo, J. Calderón, Callaghan, J. D., Callister, T. A., Calloni, E., Camp, J. B., Canepa, M., Santoro, G. Caneva, Cannavacciuolo, M., Cannon, K. C., Cao, H., Cao, Z., Capistran, L. A., Capocasa, E., Capote, E., Carapella, G., Carbognani, F., Carlassara, M., Carlin, J. B., Carpinelli, M., Carrillo, G., Carter, J. J., Carullo, G., Diaz, J. Casanueva, Casentini, C., Castaldi, G., Castro-Lucas, S. Y., Caudill, S., Cavaglià, M., Cavalieri, R., Cella, G., Cerdá-Durán, P., Cesarini, E., Chaibi, W., Chakraborty, P., Subrahmanya, S. Chalathadka, Chan, C., Chan, J. C. L., Chan, K. H. M., Chan, M., Chan, W. L., Chandra, K., Chang, R. -J., Chanial, P., Chao, S., Chapman-Bird, C., Charlton, E. L., Charlton, P., Chassande-Mottin, E., Chatterjee, C., Chatterjee, Debarati, Chatterjee, Deep, Chaturvedi, M., Chaty, S., Chen, A., Chen, A. H. -Y., Chen, D., Chen, H., Chen, H. Y., Chen, K. H., Chen, X., Chen, Yi-Ru, Chen, Yanbei, Chen, Yitian, Cheng, H. P., Chessa, P., Cheung, H. T., Chia, H. Y., Chiadini, F., Chiang, C., Chiarini, G., Chiba, A., Chiba, R., Chierici, R., Chincarini, A., Chiofalo, M. L., Chiummo, A., Chou, C., Choudhary, S., Christensen, N., Chua, S. S. Y., Chung, K. W., Ciani, G., Ciecielag, P., Cieślar, M., Cifaldi, M., Ciobanu, A. A., Ciolfi, R., Clara, F., Clark, J. A., Clarke, T. A., Clearwater, P., Clesse, S., Cleva, F., Coccia, E., Codazzo, E., Cohadon, P. -F., Colleoni, M., Collette, C. G., Collins, J., Colloms, S., Colombo, A., Colpi, M., Compton, C. M., Conti, L., Cooper, S. J., Corbitt, T. R., Cordero-Carrión, I., Corezzi, S., Cornish, N. J., Corsi, A., Cortese, S., Costa, C. A., Cottingham, R., Coughlin, M. W., Couineaux, A., Coulon, J. -P., Countryman, S. T., Coupechoux, J. -F., Cousins, B., Couvares, P., Coward, D. M., Cowart, M. J., Coyne, D. C., Coyne, R., Craig, K., Creed, R., Creighton, J. D. E., Creighton, T. D., Cremonese, P., Criswell, A. W., Crockett-Gray, J. C. G., Croquette, M., Crouch, R., Crowder, S. G., Cudell, J. R., Cullen, T. J., Cumming, A., Cuoco, E., Cusinato, M., Dabadie, P., Canton, T. Dal, Dall'Osso, S., Dálya, G., D'Angelo, B., Danilishin, S., D'Antonio, S., Danzmann, K., Darroch, K. E., Dartez, L. P., Dasgupta, A., Datta, S., Dattilo, V., Daumas, A., Davari, N., Dave, I., Davenport, A., Davier, M., Davies, T. F., Davis, D., Davis, L., Davis, M. C., Daw, E. J., Dax, M., De Bolle, J., Deenadayalan, M., Degallaix, J., De Laurentis, M., Deléglise, S., Del Favero, V., De Lillo, F., Dell'Aquila, D., Del Pozzo, W., De Marco, F., De Matteis, F., D'Emilio, V., Demos, N., Dent, T., Depasse, A., DePergola, N., De Pietri, R., De Rosa, R., De Rossi, C., De Simone, R., Dhani, A., Dhurandhar, S., Diab, R., Díaz, M. C., Di Cesare, M., Dideron, G., Didio, N. A., Dietrich, T., Di Fiore, L., Di Fronzo, C., Di Giovanni, F., Di Giovanni, M., Di Girolamo, T., Diksha, D., Di Michele, A., Ding, J., Di Pace, S., Di Palma, I., Di Renzo, F., Divyajyoti, Dmitriev, A., Doctor, Z., Dohmen, E., Doleva, P. P., Donahue, L., D'Onofrio, L., Donovan, F., Dooley, K. L., Dooney, T., Doravari, S., Dorosh, O., Drago, M., Driggers, J. C., Drori, Y., Ducoin, J. -G., Dunn, L., Dupletsa, U., D'Urso, D., Duval, H., Duverne, P. -A., Dwyer, S. E., Eassa, C., Ebersold, M., Eckhardt, T., Eddolls, G., Edelman, B., Edo, T. B., Edy, O., Effler, A., Eichholz, J., Einsle, H., Eisenmann, M., Eisenstein, R. A., Ejlli, A., Emma, M., Engelby, E., Engl, A. J., Errico, L., Essick, R. C., Estellés, H., Estevez, D., Etzel, T., Evans, M., Evstafyeva, T., Ewing, B. E., Ezquiaga, J. M., Fabrizi, F., Faedi, F., Fafone, V., Fairhurst, S., Fan, P. C., Farah, A. M., Farr, B., Farr, W. M., Favaro, G., Favata, M., Fays, M., Fazio, M., Feicht, J., Fejer, M. M., Fenyvesi, E., Ferguson, D. L., Ferrante, I., Ferreira, T. A., Fidecaro, F., Fiori, A., Fiori, I., Fishbach, M., Fisher, R. P., Fittipaldi, R., Fiumara, V., Flaminio, R., Fleischer, S. M., Fleming, L. S., Floden, E., Foley, E. M., Fong, H., Font, J. A., Fornal, B., Forsyth, P. W. F., Franceschetti, K., Franchini, N., Frasca, S., Frasconi, F., Mascioli, A. Frattale, Frei, Z., Freise, A., Freitas, O., Frey, R., Frischhertz, W., Fritschel, P., Frolov, V. V., Fronzé, G. G., Fuentes-Garcia, M., Fujii, S., Fukunaga, I., Fulda, P., Fyffe, M., Gabella, W. E., Gadre, B., Gair, J. R., Galaudage, S., Gallardo, S., Gallego, B., Gamba, R., Gamboa, A., Ganapathy, D., Ganguly, A., Gaonkar, S. G., Garaventa, B., Garcia-Bellido, J., García-Núñez, C., García-Quirós, C., Gardner, J. W., Gardner, K. A., Gargiulo, J., Garron, A., Garufi, F., Gasbarra, C., Gateley, B., Gayathri, V., Gemme, G., Gennai, A., George, J., George, R., Gerberding, O., Gergely, L., Ghadiri, N., Ghosh, Archisman, Ghosh, Shaon, Ghosh, Shrobana, Ghosh, Suprovo, Ghosh, Tathagata, Giacoppo, L., Giaime, J. A., Giardina, K. D., Gibson, D. R., Gibson, D. T., Gier, C., Giri, P., Gissi, F., Gkaitatzis, S., Glanzer, J., Gleckl, A. E., Glotin, F., Godfrey, J., Godwin, P., Goebbels, N. L., Goetz, E., Golomb, J., Lopez, S. Gomez, Goncharov, B., González, G., Goodarzi, P., Goodwin-Jones, A. W., Gosselin, M., Göttel, A. S., Gouaty, R., Gould, D. W., Goyal, S., Grace, B., Grado, A., Graham, V., Granados, A. E., Granata, M., Granata, V., Argianas, L. Granda, Gras, S., Grassia, P., Gray, C., Gray, R., Greco, G., Green, A. C., Green, S. M., Green, S. R., Gretarsson, A. M., Gretarsson, E. M., Griffith, D., Griffiths, W. L., Griggs, H. L., Grignani, G., Grimaldi, A., Grimaud, C., Grote, H., Gruson, A. S., Guerra, D., Guetta, D., Guidi, G. M., Guimaraes, A. R., Gulati, H. K., Gulminelli, F., Gunny, A. M., Guo, H., Guo, W., Guo, Y., Gupta, Anchal, Gupta, Anuradha, Gupta, Ish, Gupta, N. C., Gupta, P., Gupta, S. K., Gupta, T., Gupte, N., Gurav, R., Gurs, J., Gutierrez, N., Guzman, F., Haba, D., Haberland, M., Haegel, L., Hain, G., Haino, S., Hall, E. D., Hamilton, E. Z., Hammond, G., Han, W. -B., Haney, M., Hanks, J., Hanna, C., Hannam, M. D., Hannuksela, O. A., Hanselman, A. G., Hansen, H., Hanson, J., Harada, R., Harder, T., Haris, K., Harmark, T., Harms, J., Harry, G. M., Harry, I. W., Haskell, B., Haster, C. -J., Hathaway, J. S., Haughian, K., Hayakawa, H., Hayama, K., Healy, J., Heffernan, A., Heidmann, A., Heintze, M. C., Heinze, J., Heinzel, J., Heitmann, H., Hellman, F., Hello, P., Helmling-Cornell, A. F., Hemming, G., Hendry, M., Heng, I. S., Hennes, E., Hennig, J. -S., Hennig, M., Henshaw, C., Hernandez, A., Hertog, T., Heurs, M., Hewitt, A. L., Higginbotham, S., Hild, S., Hill, P., Hill, S., Himemoto, Y., Hines, A. S., Hirata, N., Hirose, C., Ho, J., Hoang, S., Hochheim, S., Hofman, D., Holland, N. A., Holley-Bockelmann, K., Hollows, I. J., Holmes, Z. J., Holz, D. E., Hong, C., Hornung, J., Hoshino, S., Hough, J., Hourihane, S., Howell, E. J., Hoy, C. G., Hoyland, D., Hrishikesh, C. A., Hsieh, H. -F., Hsiung, C., Hsu, H. C., Hsu, S. -C., Hsu, W. -F., Hu, P., Hu, Q., Huang, H. Y., Huang, Y. -J., Huang, Y., Huang, Y. T., Huddart, A. D., Hughey, B., Hui, D. C. Y., Hui, V., Hur, R., Husa, S., Huxford, R., Huynh-Dinh, T., Iakovlev, A., Iandolo, G. A., Iess, A., Inayoshi, K., Inoue, Y., Iorio, G., Irwin, J., Isi, M., Ismail, M. A., Itoh, Y., Iwaya, M., Iyer, B. R., JaberianHamedan, V., Jacquet, P. -E., Jadhav, S. J., Jadhav, S. P., Jain, T., James, A. L., James, P. A., Jamshidi, R., Jan, A. Z., Jani, K., Janiurek, L., Janquart, J., Janssens, K., Janthalur, N. N., Jaraba, S., Jaranowski, P., Jasal, P., Jaume, R., Javed, W., Jennings, A., Jia, W., Jiang, J., Jin, H. -B., Johansmeyer, K., Johns, G. R., Johnson, N. A., Johnston, R., Johny, N., Jones, D. H., Jones, D. I., Jones, R., Jose, S., Joshi, P., Ju, L., Jung, K., Junker, J., Juste, V., Kajita, T., Kalaghatgi, C., Kalogera, V., Kamiizumi, M., Kanda, N., Kandhasamy, S., Kang, G., Kanner, J. B., Kapadia, S. J., Kapasi, D. P., Karat, S., Karathanasis, C., Karki, S., Kashyap, R., Kasprzack, M., Kastaun, W., Kato, J., Kato, T., Katsanevas, S., Katsavounidis, E., Katzman, W., Kaur, T., Kaushik, R., Kawabe, K., Keitel, D., Kelley-Derzon, J., Kennington, J., Kesharwani, R., Key, J. S., Khadka, S., Khalili, F. Y., Khan, F., Khan, I., Khanam, T., Khazanov, E. A., Khursheed, M., Kiendrebeogo, W., Kijbunchoo, N., Kim, C., Kim, J. C., Kim, K., Kim, M. H., Kim, S., Kim, W. S., Kim, Y. -M., Kimball, C., Kimura, N., Kinley-Hanlon, M., Kinnear, M., Kissel, J. S., Kiyota, T., Klimenko, S., Klinger, T., Knee, A. M., Knust, N., Koch, P., Koehlenbeck, S. M., Koekoek, G., Kohri, K., Kokeyama, K., Koley, S., Kolitsidou, P., Kolstein, M., Komori, K., Kong, A. K. H., Kontos, A., Korobko, M., Kossak, R. V., Kou, X., Koushik, A., Kouvatsos, N., Kovalam, M., Koyama, N., Kozak, D. B., Kranzhoff, S. L., Kringel, V., Krishnendu, N. V., Królak, A., Kuehn, G., Kuijer, P., Kulkarni, S., Ramamohan, A. Kulur, Kumar, A., Kumar, Praveen, Kumar, Prayush, Kumar, Rahul, Kumar, Rakesh, Kume, J., Kuns, K., Kuroyanagi, S., Kuwahara, S., Kwak, K., Kwan, K., Lacaille, G., Lagabbe, P., Laghi, D., Lai, S., Laity, A. H., Lakkis, M. H., Lalande, E., Lalleman, M., Landry, M., Lane, B. B., Lang, R. N., Lange, J., Lantz, B., La Rana, A., La Rosa, I., Lartaux-Vollard, A., Lasky, P. D., Lawrence, J., Laxen, M., Lazzarini, A., Lazzaro, C., Leaci, P., LeBohec, S., Lecoeuche, Y. K., Lee, H. M., Lee, H. W., Lee, K., Lee, R. -K., Lee, R., Lee, S., Lee, Y., Legred, I. N., Lehmann, J., Lehner, L., Lemaître, A., Lenti, M., Leonardi, M., Leonova, E., Lequime, M., Leroy, N., Lesovsky, M., Letendre, N., Lethuillier, M., Levesque, C., Levin, Y., Leyde, K., Li, A. K. Y., Li, K. L., Li, T. G. F., Li, X., Lin, Chien-Yu, Lin, Chun-Yu, Lin, E. T., Lin, F., Lin, H., Lin, L. C. -C., Linde, F., Linker, S. D., Littenberg, T. B., Liu, A., Liu, G. C., Liu, Jian, Llamas, F., Llobera-Querol, J., Lo, R. K. L., Locquet, J. -P., London, L., Longo, A., Lopez, D., Portilla, M. Lopez, Lorenzini, M., Loriette, V., Lormand, M., Losurdo, G., Lott IV, T. P., Lough, J. D., Loughlin, H. A., Lousto, C. O., Lowry, M. J., Lück, H., Lumaca, D., Lundgren, A. P., Lussier, A. W., Ma, L. -T., Ma, S., Ma'arif, M., Macas, R., MacInnis, M., Maciy, R. R., Macleod, D. M., MacMillan, I. A. O., Macquet, A., Macri, D., Maeda, K., Maenaut, S., Hernandez, I. Magaña, Magare, S. S., Magazzù, C., Magee, R. M., Maggio, E., Maggiore, R., Magnozzi, M., Mahesh, M., Mahesh, S., Maini, M., Majhi, S., Majorana, E., Makarem, C. N., Malaquias-Reis, J. A., Maliakal, S., Malik, A., Man, N., Mandic, V., Mangano, V., Mannix, B., Mansell, G. L., Manske, M., Mantovani, M., Mapelli, M., Marchesoni, F., Pina, D. Marín, Marion, F., Márka, S., Márka, Z., Markakis, C., Markosyan, A. S., Markowitz, A., Maros, E., Marquina, A., Marsat, S., Martelli, F., Martin, I. W., Martin, R. M., Martinez, B. B., Martinez, M., Martinez, V., Martini, A., Martinovic, K., Martins, J. C., Martynov, D. V., Marx, E. J., Massaro, L., Masserot, A., Masso-Reid, M., Mastrodicasa, M., Mastrogiovanni, S., Mateu-Lucena, M., Matiushechkina, M., Matsuyama, M., Mavalvala, N., Maxwell, N., McCarrol, G., McCarthy, R., McClelland, D. E., McCormick, S., McCuller, L., McGhee, G. I., McGowan, K. B. M., Mchedlidze, M., McIsaac, C., McIver, J., McKinney, K., McLeod, A., McRae, T., McWilliams, S. T., Meacher, D., Mehta, A. K., Meijer, Q., Melatos, A., Mellaerts, S., Menendez-Vazquez, A., Menoni, C. S., Mercer, R. A., Mereni, L., Merfeld, K., Merilh, E. L., Mérou, J. R., Merritt, J. D., Merzougui, M., Messenger, C., Messick, C., Meyer-Conde, M., Meylahn, F., Mhaske, A., Miani, A., Miao, H., Michaloliakos, I., Michel, C., Michimura, Y., Middleton, H., Miller, A. L., Miller, S., Millhouse, M., Milotti, E., Minenkov, Y., Mio, N., Mir, Ll. M., Mirasola, L., Miravet-Tenés, M., Miritescu, C. -A., Mishra, A. K., Mishra, A., Mishra, C., Mishra, T., Mitchell, A. L., Mitchell, J. G., Mitra, S., Mitrofanov, V. P., Mitselmakher, G., Mittleman, R., Miyakawa, O., Miyamoto, S., Miyoki, S., Mo, G., Mobilia, L., Modafferi, L. M., Mohapatra, S. R. P., Mohite, S. R., Molina-Ruiz, M., Mondal, C., Mondin, M., Montani, M., Moore, C. 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C., Zhang, J., Zhang, L., Zhang, R., Zhang, T., Zhang, Y., Zhao, C., Zhao, Yue, Zhao, Yuhang, Zheng, Y., Zhong, H., Zhong, S., Zhou, R., Zhu, Z. -H., Zimmerman, A. B., Zucker, M. E., and Zweizig, J.

Subjects
Astrophysics - High Energy Astrophysical Phenomena, General Relativity and Quantum Cosmology
Abstract

We present results from a search for X-ray/gamma-ray counterparts of gravitational-wave (GW) candidates from the third observing run (O3) of the LIGO-Virgo-KAGRA (LVK) network using the Swift Burst Alert Telescope (Swift-BAT). The search includes 636 GW candidates received in low latency, 86 of which have been confirmed by the offline analysis and included in the third cumulative Gravitational-Wave Transient Catalogs (GWTC-3). Targeted searches were carried out on the entire GW sample using the maximum--likelihood NITRATES pipeline on the BAT data made available via the GUANO infrastructure. We do not detect any significant electromagnetic emission that is temporally and spatially coincident with any of the GW candidates. We report flux upper limits in the 15-350 keV band as a function of sky position for all the catalog candidates. For GW candidates where the Swift-BAT false alarm rate is less than 10$^{-3}$ Hz, we compute the GW--BAT joint false alarm rate. Finally, the derived Swift-BAT upper limits are used to infer constraints on the putative electromagnetic emission associated with binary black hole mergers., Comment: 50 pages, 10 figures, 4 tables

Published
2024

99. Frequency and Generalisation of Periodic Activation Functions in Reinforcement Learning

Author

Mavor-Parker, Augustine N., Sargent, Matthew J., Barry, Caswell, Griffin, Lewis, and Lyle, Clare

Subjects
Computer Science - Machine Learning, Computer Science - Artificial Intelligence, Computer Science - Neural and Evolutionary Computing
Abstract

Periodic activation functions, often referred to as learned Fourier features have been widely demonstrated to improve sample efficiency and stability in a variety of deep RL algorithms. Potentially incompatible hypotheses have been made about the source of these improvements. One is that periodic activations learn low frequency representations and as a result avoid overfitting to bootstrapped targets. Another is that periodic activations learn high frequency representations that are more expressive, allowing networks to quickly fit complex value functions. We analyse these claims empirically, finding that periodic representations consistently converge to high frequencies regardless of their initialisation frequency. We also find that while periodic activation functions improve sample efficiency, they exhibit worse generalization on states with added observation noise -- especially when compared to otherwise equivalent networks with ReLU activation functions. Finally, we show that weight decay regularization is able to partially offset the overfitting of periodic activation functions, delivering value functions that learn quickly while also generalizing.

Published
2024

100. Examining Long-Context Large Language Models for Environmental Review Document Comprehension

Author

Phan, Hung, Acharya, Anurag, Meyur, Rounak, Chaturvedi, Sarthak, Sharma, Shivam, Parker, Mike, Nally, Dan, Jannesari, Ali, Pazdernik, Karl, Halappanavar, Mahantesh, Munikoti, Sai, and Horawalavithana, Sameera

Subjects
Computer Science - Computation and Language
Abstract

As LLMs become increasingly ubiquitous, researchers have tried various techniques to augment the knowledge provided to these models. Long context and retrieval-augmented generation (RAG) are two such methods that have recently gained popularity. In this work, we examine the benefits of both of these techniques by utilizing question answering (QA) task in a niche domain. While the effectiveness of LLM-based QA systems has already been established at an acceptable level in popular domains such as trivia and literature, it has not often been established in niche domains that traditionally require specialized expertise. We construct the NEPAQuAD1.0 benchmark to evaluate the performance of five long-context LLMs -- Claude Sonnet, Gemini, GPT-4, Llama 3.1, and Mistral -- when answering questions originating from Environmental Impact Statements prepared by U.S. federal government agencies in accordance with the National Environmental Environmental Act (NEPA). We specifically measure the ability of LLMs to understand the nuances of legal, technical, and compliance-related information present in NEPA documents in different contextual scenarios. We test the LLMs' internal prior NEPA knowledge by providing questions without any context, as well as assess how LLMs synthesize the contextual information present in long NEPA documents to facilitate the question/answering task. We compare the performance of the models in handling different types of questions (e.g., problem-solving, divergent, etc.). Our results suggest that RAG powered models significantly outperform those provided with only the PDF context in terms of answer accuracy, regardless of the choice of the LLM. Our further analysis reveals that many models perform better answering closed type questions (Yes/No) than divergent and problem-solving questions., Comment: 14 pages

Published
2024

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