bluuebunny/crossref_metadata_2025_split huggingface dataset:
Precise U–Pb zircon dates from silicic super-eruptions during late Ediacaran extension in the Avalonian Caledonia terrane of southern New Brunswick, Canada
Authors: Escribano Alicia P. , Barr Sandra M. , Crowley James L. 
Published: January 2023

The Coldbrook Group and related plutons in the Caledonian Highlands of southern New Brunswick contain voluminous late Ediacaran silicic rocks formed in a magmatic event not recognized in other parts of Avalonia in the northern Appalachian orogen. To better constrain the age and origin of these rocks, we used U–Pb zircon dating by laser ablation inductively coupled plasma mass spectrometry to check for older inherited zircon and obtain trace element data, followed by chemical abrasion isotope dilution thermal ionization mass spectrometry (CA-TIMS) to obtain precise dates. Four silicic samples were dated from the Coldbrook Group, one from the Bonnell Brook pluton, and, for comparison, a felsic lithic-crystal tuff sample from the older arc-related Broad River Group. Overlapping CA-TIMS dates of 551.57 ± 0.23, 551.38 ± 0.24, and 551.70 ± 0.20 Ma for samples from the lower, middle, and upper Coldbrook Group, respectively, and 551.71 ± 0.19 Ma for granite from the Bonnell Brook pluton show that these units crystallized in 760 000 years or less, consistent with a super-eruption event. Rhyolite from the uppermost unit of the Coldbrook Group yielded a younger date of 549.18 ± 0.09 Ma, but the large extent of that unit is consistent with the possibility of a second younger super-eruption. The felsic lithic-crystal tuff sample from the Broad River Group yielded a date of 615.48 ± 0.16 Ma, consistent with previously published dates from that group and associated plutons. Differences in zircon chemistry between the Broad River Group sample and the late Ediacaran samples are consistent with the contrasting subduction-related vs within-plate extensional tectonic settings as suggested by previous studies of whole-rock petrological characteristics of the two age groups.
SOLARIS National Synchrotron Radiation Centre in Krakow, Poland
Authors: Szlachetko Jakub , Szade Jacek , Beyer Edyta , Błachucki Wojciech , Ciochoń Piotr , Dumas Paul , Freindl Kinga , Gazdowicz Grzegorz , Glatt Sebastian , Guła Krzysztof , Hormes Josef , Indyka Paulina , Klonecka Agnieszka , Kołodziej Jacek , Kołodziej Tomasz , Korecki Józef , Korecki Paweł , Kosiorowski Filip , Kosowska Karolina , Kowalski Grzegorz , Kozak Maciej , Kozioł Paulina , Kwiatek Wojciech , Liberda Danuta , Lichtenberg Henning , Madej Ewa , Mandziak Anna , Marendziak Andrzej , Matlak Krzysztof , Maximenko Alexey , Nita Paweł , Olszowska Natalia , Panaś Roman , Partyka-Jankowska Ewa , Piszak Marcel , Prange Alexander , Rawski Michał , Roman Maciej , Rosmus Marcin , Sikora Marcin , Sławek Joanna , Sobol Tomasz , Sowa Katarzyna , Spiridis Nika , Stępień Joanna , Szczepanik Magdalena , Ślęzak Michał , Ślęzak Tomasz , Tyliszczak Tolek , Ważny Grzegorz , Wiechecki Jarosław , Wilgocka-Ślęzak Dorota , Wolanin Barbara , Wróbel Paweł , Wróbel Tomasz , Zając Marcin , Wawrzyniak Adriana , Stankiewicz Marek 
Published: January 2023

AbstractThe SOLARIS synchrotron located in Krakow, Poland, is a third-generation light source operating at medium electron energy. The first synchrotron light was observed in 2015, and the consequent development of infrastructure lead to the first users’ experiments at soft X-ray energies in 2018. Presently, SOLARIS expands its operation towards hard X-rays with continuous developments of the beamlines and concurrent infrastructure. In the following, we will summarize the SOLARIS synchrotron design, and describe the beamlines and research infrastructure together with the main performance parameters, upgrade, and development plans.
A diffuse-domain-based numerical method for a chemotaxis-fluid model
Authors: Wang Chenxi , Chertock Alina , Cui Shumo , Kurganov Alexander , Zhang Zhen 
Published: January 2023

In this paper, we consider a coupled chemotaxis-fluid system that models self-organized collective behavior of oxytactic bacteria in a sessile drop. This model describes the biological chemotaxis phenomenon in the fluid environment and couples a convective chemotaxis system for the oxygen-consuming and oxytactic bacteria with the incompressible Navier–Stokes equations subject to a gravitational force, which is proportional to the relative surplus of the cell density compared to the water density. We develop a new positivity preserving and high-resolution method for the studied chemotaxis-fluid system. Our method is based on the diffuse-domain approach, which we use to derive a new chemotaxis-fluid diffuse-domain (cf-DD) model for simulating bioconvection in complex geometries. The drop domain is imbedded into a larger rectangular domain, and the original boundary is replaced by a diffuse interface with finite thickness. The original chemotaxis-fluid system is reformulated on the larger domain with additional source terms that approximate the boundary conditions on the physical interface. We show that the cf-DD model converges to the chemotaxis-fluid model asymptotically as the width of the diffuse interface shrinks to zero. We numerically solve the resulting cf-DD system by a second-order hybrid finite-volume finite-difference method and demonstrate the performance of the proposed approach on a number of numerical experiments that showcase several interesting chemotactic phenomena in sessile drops of different shapes, where the bacterial patterns depend on the droplet geometries.
Marine bioturbation collapse during Early Jurassic deoxygenation: implications for post-extinction marine ecosystem functioning
Authors: Caswell Bryony A. , Herringshaw Liam 
Published: January 2023

Abstract

Climate change is undermining the health and integrity of seafloor ecosystems, with declines in bioturbation expected to impact future ecosystem functioning. We explored changes in the nature and degree of bioturbation during Early Jurassic global warming and ocean deoxygenation. Understanding how these communities responded can help anticipate how bioturbation and ecosystem functioning might change over large spatial and temporal scales. Trace and body fossils from outcrop and core in the Cleveland Basin, UK show how healthy seafloor communities deteriorated through the Pliensbachian
spinatum
Zone, and macroinfaunal behaviour fluctuated across the Pliensbachian–Toarcian boundary coincident with mass extinction. Deoxygenation began above the stage boundary, and conditions deteriorated until bioturbation ceased completely (upper
tenuicostatum
Zone) for 0.6–2.5 Ma, longer than anywhere else in NW Tethys. The macroinfaunal record revealed new details on the progression and timing of deoxygenation, benthic recovery and fluctuations in the palaeoredox boundary. After the oceanic anoxic event infauna were fewer, smaller and did not mix sediments to depth, and while the depth and diversity of bioturbation had increased by the
fibulatum
Subzone (
bifrons
Zone), the benthos had not recovered to late Pliensbachian pre-oceanic anoxic event state. Bioturbation collapse over large parts of the Northern Hemisphere probably contributed to regional-scale changes in ecosystem functioning.
Multi-FPGA Designs and Scaling of HPC Challenge Benchmarks via MPI and Circuit-switched Inter-FPGA Networks
Authors: Meyer Marius , Kenter Tobias , Plessl Christian 
Published: January 2023

While FPGA accelerator boards and their respective high-level design tools are maturing, there is still a lack of multi-FPGA applications, libraries, and not least, benchmarks and reference implementations towards sustained HPC usage of these devices. As in the early days of GPUs in HPC, for workloads that can reasonably be decoupled into loosely coupled working sets, multi-accelerator support can be achieved by using standard communication interfaces like MPI on the host side. However, for performance and productivity, some applications can profit from a tighter coupling of the accelerators. FPGAs offer unique opportunities here when extending the dataflow characteristics to their communication interfaces.In this work, we extend the HPCC FPGA benchmark suite by multi-FPGA support and three missing benchmarks that particularly characterize or stress inter-device communication: b_eff, PTRANS, and LINPACK. With all benchmarks implemented for current boards with Intel and Xilinx FPGAs, we established a baseline for multi-FPGA performance. Additionally, for the communication-centric benchmarks, we explored the potential of direct FPGA-to-FPGA communication with a circuit-switched inter-FPGA network that is currently only available for one of the boards. The evaluation with parallel execution on up to 26 FPGA boards makes use of one of the largest academic FPGA installations.
Highly Accessible Computational Prediction and In Vivo/In Vitro Experimental Validation: Novel Synthetic Phenyl Ketone Derivatives as Promising Agents against NAFLD via Modulating Oxidoreductase Activity
Authors: Qiao Yanan , Deng Huifang , Liu Lihua , Liu Shuran , Ren Luyao , Shi Chuandao , Chen Xi , Guan Lixia , Liu Weiran , Li Zehua , Li Yunlan 
Published: January 2023

Nonalcoholic fatty liver disease (NAFLD) has reached epidemic proportions with no pharmacological treatment approved. Several highly accessible computational tools were employed to predict the activities of twelve novel compounds prior to actual chemical synthesis. We began our work by designing two or three hydroxyl groups appended to the phenyl ketone core, followed by prediction of drug-likeness and targets. Most predicted targets for each compound overlapped with NAFLD targets (≥80%). Enrichment analysis showed that these compounds might regulate oxidoreductase activity. Then, these compounds were synthesized and confirmed by IR, MS, 1H, and 13C NMR. Their cell viability demonstrated that twelve compounds exhibited appreciable potencies against NAFLD (

E

C

50

values
≤
13.5

μ
M

). Furthermore, the most potent compound 5f effectively prevented NAFLD progression as evidenced by the change in histological features. 5f significantly reduced total cholesterol and triglyceride levels in vitro/in vivo, and the effects of 5f were significantly stronger than those of the control drug. The proteomic data showed that oxidoreductase activity was the most significantly enriched, and this finding was consistent with docking results. In summary, this validated presynthesis prediction approach was cost-saving and worthy of popularization. The novel synthetic phenyl ketone derivative 5f holds great therapeutic potential by modulating oxidoreductase activity to counter NAFLD.
Chronic Exposure to Drinking Water Arsenic and Gallbladder Cancer Risk: Preliminary Evidence from Endemic Regions of India
Authors: Shridhar Krithiga , Krishnatreya Manigreeva , Sarkar Soumyajit , Kumar Ranjit , Kondal Dimple , Kuriakose Steena , RS Vinutha , Singh Amulya K. , Kataki Amal Chandra , Ghosh Ashok , Mukherjee Abhijit , Prabhakaran D. , Mondal Debapriya , Prabhakaran Poornima , Dhillon Preet K. 
Published: January 2023

AbstractBackground:Evidence linking arsenic in drinking water to digestive tract cancers is limited. We evaluated the association between arsenic levels in groundwater and gallbladder cancer risk in a case–control study (2019–2021) of long-term residents (≥10years) in two arsenic-impacted and high gallbladder cancer risk states of India—Assam and Bihar.Methods:We recruited men and women aged 30 to 69 years from hospitals (73.4% women), with newly diagnosed, biopsy-confirmed gallbladder cancer (N = 214) and unrelated controls frequency-matched for 5-year age, sex, and state (N = 166). Long-term residential history, lifestyle factors, family history, socio-demographics, and physical measurements were collected. Average-weighted arsenic concentration (AwAC) was extrapolated from district-level groundwater monitoring data (2017–2018) and residential history. We evaluated gallbladder cancer risk for tertiles of AwAC (μg/L) in multivariable logistic regression models adjusted for important confounders [Range: 0–448.39; median (interquartile range), T1–0.45 (0.0–1.19); T2–3.75 (2.83–7.38); T3–17.6 (12.34–20.54)].Results:We observed a dose–response increase in gallbladder cancer risk based on AwAC tertiles [OR = 2.00 (95% confidence interval, 1.05–3.79) and 2.43 (1.30–4.54); Ptrend = 0.007]. Participants in the highest AwAC tertile consumed more tubewell water (67.7% vs. 27.9%) and reported more sediments (37.9% vs. 18.7%) with unsatisfactory color, odor, and taste (49.2% vs. 25.0%) than those in the lowest tertile.Conclusions:These findings suggest chronic arsenic exposure in drinking water at low-moderate levels may be a potential risk factor for gallbladder cancer.Impact:Risk factors for gallbladder cancer, a lethal digestive tract cancer, are not fully understood. Data from arsenic-endemic regions of India, with a high incidence of gallbladder cancer, may offer unique insights. Tackling ‘arsenic pollution’ may help reduce the burden of several health outcomes.
Moving beyond the “Health Halo” of Alcohol: What Will it Take to Achieve Population Awareness of the Cancer Risks of Alcohol?
Authors: Hay Jennifer L. , Kiviniemi Marc T. , Orom Heather , Waters Erika A. 
Published: January 2023

Abstract
We discuss the implications of Seidenberg and colleagues’ report confirming low levels of accurate awareness of the cancer harms associated with alcohol use, including wine, beer, and liquor consumption. The authors propose that academic and lay messaging describing consumption of wine and other forms of alcohol as reducing heart disease risk has created generalized beliefs about the health benefits of drinking alcohol. This “health halo” surrounding alcohol consumption leads the public to overgeneralize alcohol health benefits to other diseases, including cancer. We discuss the need to address high levels of perceived risk uncertainty to help the public distinguish between the impact of alcohol on heart disease versus cancer, and to overcome other barriers to including alcohol use reduction as a cancer prevention strategy. Given recent increases in U.S. population drinking rates, as well as morbidity and mortality associated with alcohol use, the time is right to marshal multilevel efforts to educate the public regarding the fact that alcohol is carcinogenic. If successful, these efforts will have multiple downstream benefits, including the ability of the lay public to use the most up-to-date scientific evidence to make informed decisions about whether, and how much, to engage in a risky behavior.
See related article by Seidenberg et al., p. 46
Nifuroxazide Activates the Parthanatos to Overcome TMPRSS2:ERG Fusion-Positive Prostate Cancer
Authors: Li Chengxun , Zhang Jiale , Wu Qiming , Kumar Anuj , Pan Guihong , Kelvin David J. 
Published: January 2023

AbstractFusion of the E-26 transformation-specific (ETS)-related gene (ERG) with transmembrane serine protease 2 (TMPRSS2) is a crucial step in the occurrence and progression of approximately 50% of prostate cancers. Despite significant progress in drug discovery, ERG inhibitors have yet to be approved for the clinical treatment of prostate cancer. In this study, we used computer-aided drug design (CADD)–based virtual screening to screen for potential inhibitors of ERG. In vivo and in vitro methods revealed that nifuroxazide (NFZ) inhibited the proliferation of a TMPRSS2:ERG fusion-positive prostate cancer cell line (VCaP) with an IC50 lower than that of ERG-negative prostate cancer cell lines (LNCaP, DU145, and WPMY cells). Poly [ADP-ribose] polymerase 1, the critical mediator of parthanatos, is known to bind ERG and is required for ERG-mediated transcription. NFZ blocked this interaction and overly activated PARP1, leading to cell death that was reduced by olaparib, a PARP1 inhibitor. These results show that NFZ inhibits ERG, leading to parthanatic cell death.
Abstract A023: Racial differences in lung cancer burden: A retrospective analysis of TriNetX data
Authors: Park SoHye , Urdang Zachary , Barta Julie , Wen Kuang-Yi , Curry Joseph , Juon Hee-Soon 
Published: January 2023

Abstract
Background. Lung cancer is the number one cause of cancer-related deaths in the U.S. and many other countries. Lung cancer incidence and mortality rates have decreased for all races over the past 20 years, in part because of decreased tobacco use. Yet, there have been few clinical studies of lung cancer morbidity and mortality by race. The purpose of this study is to examine racial differences in lung cancer mortality in the U.S. using the electronic health records (EHR) database, TriNetX. Method. This retrospective cohort study was conducted based on the data from US Collaborative Network in TriNetX, a real-time, EHR database providing 42.7-million patient data from 49 health care organizations (HCOs). The cohort of interest was lung cancer patients in the U.S., which were identified using the ICD-10 code of C34 with an index diagnosis date of January 1, 2010. Kaplan-Meier curves, log-rank chi-square statistics, and hazard ratio (HR) were compared among different racial groups in the EHR data. Results. Of 42.7-million patients in the U.S., the majority (60.3%) were people who are non-Hispanic white (NHW) followed by people who are Black/African American (15.4%), Hispanic (7.2%), Asian (4.6%), and others (Native Hawaiian/Pacific Islander, 0.5%). 394,560 lung cancer patients were identified. Kaplan-Meier survival curves showed that Asians had the highest survival probability with median overall survival (OS) from the initial lung cancer diagnosis of 127.3 months, compared to 92.1 months for Hispanic, 69.1 months for African American/Black, 61.4 months for others, and 53.8 months for NHW. The HR was highest among NHW (HR=1.71, 95% CI=1.62-1.81), others (HR=1.62, 95% CI=1.41-1.85), African American/Black (HR=1.52, 95% CI=1.43-1.61), and Hispanic patients (HR=1.40, 95% CI=1.30-1.52) compared to Asian patients Conclusion. These findings suggest racial disparities in lung cancer survival, with NHW having the lowest and Asians having the highest median survival. These findings are inconsistent with the results from the Multiethnic Cohort study (prospective population based study), which reported blacks having the lowest median survival. It indicates that there are different racial burdens of lung cancer from clinical data and population data. Further analyses are needed to adjust potential confounders such as smoking status and stage of diagnosis.
Citation Format: SoHye Park, Zachary Urdang, Julie Barta, Kuang-Yi Wen, Joseph Curry, Hee-Soon Juon. Racial differences in lung cancer burden: A retrospective analysis of TriNetX data [abstract]. In: Proceedings of the 15th AACR Conference on the Science of Cancer Health Disparities in Racial/Ethnic Minorities and the Medically Underserved; 2022 Sep 16-19; Philadelphia, PA. Philadelphia (PA): AACR; Cancer Epidemiol Biomarkers Prev 2022;31(1 Suppl):Abstract nr A023.
Abstract B105: Patient-reported access to telehealth: An important and unmeasured social determinant of health
Authors: Iasiello John A. , Rajan Arvind , Zervos Emmanuel , Parikh Alexander A. , Snyder Rebecca A. 
Published: January 2023

Abstract
Background: The recent COVID-19 pandemic expanded opportunities for remote oncology telehealth visits. However, reliable internet connectivity, digital literacy, and patient comfort with virtual medical visits may differ among patients, especially socially disadvantaged groups. The primary aim of this study was to identify patient demographics and social determinants of health (SDOH) which might limit access to remote telehealth services. Methods: First, a retrospective analysis was performed of composite administrative data of all patient visits to a large regional cancer center over the COVID-19 pandemic (3/2020-4/2022). Second, a prospective, cross-sectional study was conducted of patients with known or suspected malignancy presenting to the same center over six-months (11/2021-5/2022). Participants were asked a standard set of survey questions regarding telehealth accessibility during an in-person clinic visit. Demographics and SDOH were abstracted from the electronic health record (EHR). Results: Although Black patients comprised 43% (n=9,021) of all patient visits (n=20,953), the proportion of telehealth visits conducted among Black patients (29%; n=889) was significantly lower compared to White patients (71%, n=2,142, p&lt;0.0001). Within the cross-sectional study cohort (n=149), 51% (n=76) were Black, 39% (n=58) resided in a rural county, and 8.7% (n=13) were uninsured or Medicaid-insured. Black participants were more likely to self-report lack of internet access (73.7% vs. 90.4%, p&lt;0.01) and were less likely to report having access to or actively using a patient portal in the EHR compared to White patients (47.4% and 79.5%, respectively; p&lt;0.001). Rates of self-reported access to video-capable devices (82.9% vs. 90.4%) and confidence in conducting video visits without assistance (59.2% vs. 68.5%) were similar among Black and White patients (p&gt;0.05). The most common self-identified challenge to telehealth usage among both races was limited digital literacy. Conclusions: Black patients disproportionally under-participated in telehealth visits, suggesting underlying structural disparities in access to digital care. A greater proportion of Black participants self-reported lack of internet access and access to a patient portal to the EHR compared to White patients. Ensuring equal internet access and digital literacy will be critical to reduce further disparities in cancer care among racial minorities.
Citation Format: John A. Iasiello, Arvind Rajan, Emmanuel Zervos, Alexander A. Parikh, Rebecca A. Snyder. Patient-reported access to telehealth: An important and unmeasured social determinant of health [abstract]. In: Proceedings of the 15th AACR Conference on the Science of Cancer Health Disparities in Racial/Ethnic Minorities and the Medically Underserved; 2022 Sep 16-19; Philadelphia, PA. Philadelphia (PA): AACR; Cancer Epidemiol Biomarkers Prev 2022;31(1 Suppl):Abstract nr B105.