bluuebunny/crossref_metadata_2025_split huggingface dataset:
Fault segmentation, seismicity, and deformation rate of the Matano fault, Sulawesi, Indonesia
Authors: Patria Adi , Aulia Atin N. , Sabrian Panggea G. , Puji Anggraini R. , Daryono Mudrik R. , Hanif Muhammad , Natawidjaja Danny H. 
Published: December 2024

Abstract
The Matano fault is one of the fast-slipping faults in Indonesia with a slip rate of ~20 mm/yr, accommodating the motion between the Pacific and Australian plates. The fault has remained unruptured at least for the past two centuries. Recent paleoseismological study suggested that the Matano fault has accumulated enough slip for the next surface-rupturing earthquakes. However, studies on the structures, seismicity, and deformation rate of the Matano fault are very scarce. This study characterizes the fault’s segmentation, evaluates the modern seismicity, and calculates the deformation rate of the Matano fault. The segmentation model of the Matano fault comprises eight major geometric segments, separated by structural discontinuities. Analysis of modern seismicity shows the high a- and b-value on the Matano fault, suggesting the high tectonic activity. Result of InSAR modeling also shows the rapid deformation on the Matano fault, reaching 39 mm/yr. Integrating our results suggest that the Matano fault can be divided into two major portions, separated by Lake Matano, that could rupture independently and produce Mw ≥7 earthquakes, possibly similar to the 2018 Mw 7.5 Palu earthquake. This study highlights the importance of comprehensive approaches for better understanding the active fault behaviors.
A Laboratory Measurements for Quantification of the Effect of Fracture Frequency on Ultrasonic Velocity and Rock Mass Quality
Authors: Melati Sari , Kresna Wattimena Ridho , Prambudi Sahara David , Marihot Simangunsong Ganda , Hidayat Wahyu , Suharsono  
Published: December 2024

Abstract
A method interpreting velocity variations being the rock mass quality is crucial because micro seismic tomography has been implemented in most massive mining. So, geophysical data in velocity distribution should be optimized for geotechnical analysis and mining stability. Four samples of hard rock mass were drilled to obtain the core samples: Beser Andesite, Gunung Parang Gabro, Sentolo Limestone, and Wonosari Limestone. Artificial joints were prepared using a diamond rock cutter, producing the planar and parallel joints. The design of fracture frequency in this experiment varies from 0 to 20’s joints/meter as representative of rock mass. The ultrasonic velocity apparatus, Oyo Sonic Viewer SX, and Ultracon170 Concrete Tester were operated to measure the P-wave velocities from the P-wave form. The laboratory measurement of ultrasonic velocity on intact and jointed rock samples was successfully conducted. The empirical equation between fracture frequency and ultrasonic velocity was proposed as Vpj/Vp0 = e−0.041FF. It will be useful to determine the rock mass quality using velocity variation.
Determination of the significance of hydraulic fracturing success factors for shale reservoir
Authors: Wardani Lisna , Islami Nada , Erfando Tomi , Hidayat Fiki , Khairul Afdhol M. 
Published: December 2024

Abstract
Shale gas is a shale rock that has low permeability. The right way to explore it is to do hydraulic fracturing to increase well productivity by injecting fluid into the fracture using high pressure. The statistical method used to establish a relationship between one independent variable X or more with a response variable Y uses linear regression analysis. The method used in this research is simulation research, using a CMG GEM simulator for reservoir simulation modeling and running sensitivity analysis using CMOST for as much as 80 data, then performing multiple linear regression analysis with SPSS (Statistical Product for Service Solutions). This study aims to determine the factor parameters that are significant to the success of hydraulic fracturing in shale gas. Parameters used for sensitivity analysis were significant factors for successful hydraulic fracturing: fracture half-length, matrix porosity, young elastic modulus, natural fracture porosity, Poisson ratio, and Langmuir pressure. The results of the T-test, which were carried out partially sequentially, showed that the variable X1 (fracture half-length) effect with a significant value of 0.985 > 0.05, variable X3 (Young’s modulus of elasticity) significant value of 0.734, variable X4 (natural fracture porosity), dan variable X6 (pressure langmuir) significant value 0.088. In addition to the results of the F hypothesis, the calculated F value simultaneously (together) is 11.231. While the R-value Square (R2) is 0.480 if it is a percentage, the result is 48%. It can be concluded that the six independent variables affect the dependent variable by 48%. The remaining percentage, about 52%, is influenced by other independent variables, which are not examined in this study.
Dynamical generation and transfer of nonclassical states in strongly interacting light-matter systems in cavities
Authors: Tutunnikov Ilia , Rokaj Vasil , Cao Jianshu , Sadeghpour H R 
Published: December 2024

Abstract
We propose leveraging strong and ultrastrong light-matter coupling to efficiently generate and exchange nonclassical light and quantum matter states. Two initial conditions are considered: (a) a displaced quadrature-squeezed matter state, and (b) a coherent state in a cavity. In both scenarios, polaritons mediate the dynamical generation and transfer of nonclassical states between light and matter. By monitoring the dynamics of both subsystems, we uncover the emergence of cavity-induced beatings in the collective matter oscillations. The beating period depends on the particle density through the vacuum Rabi splitting and peaks sharply under light-matter resonance conditions. For initial condition (a), nonclassicality is efficiently transferred from matter to photons under strong and ultrastrong coupling. However, for initial condition (b), nonclassical photonic states are generated only in the ultrastrong coupling regime due to the counter-rotating terms, highlighting the advantages of ultrastrong coupling. Furthermore, in the ultrastrong coupling regime, distinctive asymmetries relative to cavity detuning emerge in dynamical observables of both light and matter. The nonclassical photons can be extracted through a semi-transparent cavity mirror, while nonclassical matter states can be detected via time-resolved spectroscopy. This work highlights that polariton states may serve as a tool for dynamically generating and transferring nonclassical states, with potential applications in quantum technology.
Exploring blockchain: technological foundations, applications, and security concerns
Authors: Dutta Debarati , Priya G 
Published: December 2024

Abstract
Blockchain technology is increasingly capturing the interest and adoption of numerous enterprises globally. This paper offers an extensive analysis of blockchain technology, emphasizing its evolution, classifications, underlying technologies, consensus mechanisms, architectural frameworks, and layers. It further delineates a broad spectrum of blockchain applications spanning various sectors including stock trading, healthcare, insurance, digital identity verification, data management, the Internet of Things (IoT), supply chain logistics, electoral systems, and data storage. The inherent benefits of blockchain, including decentralization, anonymity, immutability, integrity, auditability, and transparency, are driving its integration across various industries. Despite these merits, blockchain faces certain impediments that hinder its widespread acceptance among the general populace. This study categorizes these impediments into two primary domains: security issues and blockchain-specific attacks, providing an exhaustive analysis of each. Distinct from other scholarly works that concentrate on security, IoT, or cryptocurrency, this document emphasizes blockchain technology’s state-of-the-art developments and broad adoption. It specifically emphasizes applications that extend beyond digital currencies. Conclusively, the paper explores prospective avenues for future research and developmental goals within the blockchain domain.
Annotating publicly-available samples and studies using interpretable modeling of unstructured metadata
Authors: Yuan Hao , Hicks Parker , Ahmadian Mansooreh , Johnson Kayla A , Valtadoros Lydia , Krishnan Arjun 
Published: December 2024

Abstract
Reusing massive collections of publicly available biomedical data can significantly impact knowledge discovery. However, these public samples and studies are typically described using unstructured plain text, hindering the findability and further reuse of the data. To combat this problem, we propose txt2onto 2.0, a general-purpose method based on natural language processing and machine learning for annotating biomedical unstructured metadata to controlled vocabularies of diseases and tissues. Compared to the previous version (txt2onto 1.0), which uses numerical embeddings as features, this new version uses words as features, resulting in improved interpretability and performance, especially when few positive training instances are available. Txt2onto 2.0 uses embeddings from a large language model during prediction to deal with unseen-yet-relevant words related to each disease and tissue term being predicted from the input text, thereby explaining the basis of every annotation. We demonstrate the generalizability of txt2onto 2.0 by accurately predicting disease annotations for studies from independent datasets, using proteomics and clinical trials as examples. Overall, our approach can annotate biomedical text regardless of experimental types or sources. Code, data, and trained models are available at https://github.com/krishnanlab/txt2onto2.0.
RiceSNP-ABST: a deep learning approach to identify abiotic stress-associated single nucleotide polymorphisms in rice
Authors: Lu Quan , Xu Jiajun , Zhang Renyi , Liu Hangcheng , Wang Meng , Liu Xiaoshuang , Yue Zhenyu , Gao Yujia 
Published: December 2024

Abstract
Given the adverse effects faced by rice due to abiotic stresses, the precise and rapid identification of single nucleotide polymorphisms (SNPs) associated with abiotic stress traits (ABST-SNPs) in rice is crucial for developing resistant rice varieties. The scarcity of high-quality data related to abiotic stress in rice has hindered the development of computational models and constrained research efforts aimed at rice improvement and breeding. Genome-wide association studies provide a better statistical power to consider ABST-SNPs in rice. Meanwhile, deep learning methods have shown their capability in predicting disease- or phenotype-associated loci, but have primarily focused on human species. Therefore, developing predictive models for identifying ABST-SNPs in rice is both urgent and valuable. In this paper, a model called RiceSNP-ABST is proposed for predicting ABST-SNPs in rice. Firstly, six training datasets were generated using a novel strategy for negative sample construction. Secondly, four feature encoding methods were proposed based on DNA sequence fragments, followed by feature selection. Finally, convolutional neural networks with residual connections were used to determine whether the sequences contained rice ABST-SNPs. RiceSNP-ABST outperformed traditional machine learning and state-of-the-art methods on the benchmark dataset and demonstrated consistent generalization on an independent dataset and cross-species datasets. Notably, multi-granularity causal structure learning was employed to elucidate the relationships among DNA structural features, aiming to identify key genetic variants more effectively. The web-based tool for the RiceSNP-ABST can be accessed at http://rice-snp-abst.aielab.cc.
The early-onset Alzheimer’s disease MRI signature: a replication and extension analysis in early-stage AD
Authors: Mehta Rashi I , Keith Cierra M , Teixeira Camila Vieira Ligo , Worhunsky Patrick D , Phelps Holly E , Ward Melanie , Miller Mark , Navia R Osvaldo , Pockl Stephanie , Rajabalee Nafiisah , Coleman Michelle M , D’Haese Pierre-François , Rezai Ali R , Wilhelmsen Kirk C , Haut Marc W 
Published: December 2024

Abstract
Early-onset Alzheimer’s disease (EOAD) is less investigated than the more common late-onset Alzheimer’s disease (LOAD) despite its more aggressive course. A cortical signature of EOAD was recently proposed and may facilitate EOAD investigation. Here, we aimed to validate this proposed MRI biomarker of EOAD neurodegeneration in an Appalachian clinical cohort. We also compared differences in EOAD signature atrophy in participants with biomarker-positive EOAD, LOAD, early-onset non-AD pathologies, and cognitively normal individuals. Cortical thinning was reliably detected in eight of nine signature areas of persons with EOAD relative to cognitively normal individuals despite very early disease stage. Additionally, individuals with EOAD showed thinner cortex in most signature regions relative to those with early-onset non-AD pathologies. EOAD and LOAD showed similar cortical atrophy within most EOAD signature regions. Whole-brain vertex-wise cortical analyses supported these findings. Furthermore, signature cortical atrophy showed expected relationships with measures of global and specific cognitive and functional status. This investigation further validates and expands upon the recently defined EOAD signature and suggests its robustness within a rural population, even at early disease stage. Larger scale and longitudinal studies employing this marker of EOAD neurodegeneration are needed to further understand clinical effects and appropriate management of persons with EOAD.
Greater Fatigue and Reduced Neurocognitive Speed With Symptomatic Crohn’s Disease
Authors: Bonhomme Brittaney , Nandi Neilanjan , Berera Shivali , Lee Helen , Leung Galen , Tse Chung Sang , Weiss Alexandra , Nessel Lisa , Ren Yue , Li Hongzhe , Aberra Faten N , Lewis James D 
Published: December 2024

Abstract

Background
While patients with Crohn’s disease commonly report fatigue, an association of Crohn’s disease with mild neurocognitive impairment has also been suggested. This study investigated the relationship between Crohn’s disease activity, fatigue, and neurocognitive functioning.

Methods
In this cross-sectional study, adults with Crohn’s disease (n = 25) and healthy controls (n = 26) completed the PROMIS Fatigue 7a form and Multidimensional Fatigue Inventory and neurocognitive testing across 6 domains. Symptomatic and endoscopic remission were assessed with a short Crohn’s Disease Activity Index and Simple Endoscopic Score for Crohn’s Disease. Linear regression adjusting for age and sex was used to compare fatigue and neurocognition among patients with Crohn’s disease versus controls and those with active Crohn’s disease versus those in remission.

Results
Compared to controls, adults with Crohn’s disease reported greater overall and domain-specific fatigue (general, physical, and mental) (P &lt; .05 for all comparisons). Patients in symptomatic remission had significantly less fatigue (P &lt; .05). No differences were found in neurocognitive accuracy or speed between Crohn’s disease and controls. Disease activity was not associated with accuracy on neurocognitive testing; however, patients with symptomatic Crohn’s disease had longer correct response times for social cognition and episodic memory compared to asymptomatic patients (P &lt; .05). Endoscopic disease activity was associated with longer correct response times for tasks linked to social cognition, episodic memory, and complex cognition (P &lt; .05). These differences persisted after adjusting for fatigue.

Conclusions
Patients with symptomatic Crohn’s disease experience greater fatigue and have slower response times on neurocognitive testing. However, fatigue does not appear to mediate the slower response times.
Growth of the Program of All-Inclusive Care for the Elderly and the role of for-profit programs
Authors: Miller Katherine E M , Gupta Ravi , Polsky Daniel 
Published: December 2024

Abstract
The Program of All-Inclusive Care for the Elderly (PACE) is a managed care program financed by capitated government payments that primarily serves adults aged 55 or older requiring nursing home level of care who are dual-eligible for Medicare and Medicaid. While PACE programs have historically been nonprofit entities, in 2016, a regulation change allowed for-profit PACE programs to help expand the program. We describe PACE program growth from 2010 to 2022. Both the number of PACE programs and enrollees grew from 2010 to 2022. Yet, after allowing for-profits to enter the market, the enrollment rate of growth slowed overall (13.4% vs 7.0%), though for-profit program enrollment grew more rapidly compared to nonprofit programs (13.2% vs 5.7%). Entry of new programs drove for-profit growth primarily. Despite the growth of for-profit programs, most enrollees continued to receive care from nonprofit programs (78%) by 2022. Allowing for-profit programs did not increase PACE enrollment rates overall. Given emerging evidence that for-profit ownership in other health care sectors may reduce quality compared to nonprofits, policymakers should carefully monitor care quality and patient outcomes in PACE as for-profit entities increase.
Staff Safety and Experiences with Electronic Safety Devices among a Sample of Veterans Affairs Homeless Service Providers
Authors: Edwards-Stewart Amanda , Anderson Amanda Joy , Tsai Jack 
Published: December 2024

Abstract
The current survey examined Veterans Affairs (VA) homeless service providers’ experiences with electronic personal protective safety devices (EPPSDs). The survey was completed by 153 homeless service providers based at VA medical centers in New York, New Jersey, and Florida. The survey asked about feelings of safety while performing work duties, safety incidents, use of EPPSDs, and experiences with EPPSDs. Forty-three percent of respondents reported using an EPPSD at work. Respondents who used an EPPSD described using the technology primarily to check in while working in the community. Overall, feelings of safety and confidence in the ability to call for help while at work did not differ between providers who used an EPPSD and those who did not. These findings need replication in a larger sample. EPPSDs may not increase feelings of safety among homeless service providers. VA homeless service providers generally reported feeling safe at work. Feelings of safety were not significantly associated with using an electronic safety device.
Facilitating Interdisciplinary Collaboration in Large-Scale Research Networks: Tackling Uncertainties in Knowledge Building and the Designing of Robotic Systems in Healthcare
Authors: Paluch Richard , Weiler Tim , Nieder Aaron , Fricke Christa , Meyer Sibylle , Randall David , Müller Claudia 
Published: December 2024

Abstract
Robots used for care purposes have been the subject of considerable research effort, often interdisciplinary. However, our work has shown that there are frequently difficulties in working together to produce interdisciplinary knowledge on human–robot and human–computer interaction. We describe an initiative to enable participants within and across research projects to improve collaboration. Mandated by the funding body, we developed the Research Practice Workshop tool to bring together 10 projects and more than 100 people from science, technology and healthcare in a large-scale funding stream. Our tool creates space for interdisciplinary participation, despite its top-down project structure. We present data from seven Research Practice Workshops that illustrate how knowledge sharing worked and what challenges we faced in accordance with our iterative and participatory approach. The aim is to show how networks of practice transfer knowledge, facilitate interdisciplinary cooperation and create imaginaries of robotics for care. The Research Practice Workshops are a valuable tool for creating shared visions and practical implementations with all stakeholders in a democratic process. This demonstrates how design knowledge can become relevant in interdisciplinary collaboration and how Research Practice Workshops can support large scale research networks. Ultimately, our paper contributes both to best practices in heterodox scientific project management and to an understanding of how disciplinary perspectives mediate research.
Optimal dosage regimens of cefiderocol administered by short, prolonged or continuous infusion: a PK/PD simulation study
Authors: Goutelle Sylvain , Ammour Najib , Ferry Tristan , Schramm Frédéric , Lepeule Raphael , Friggeri Arnaud 
Published: December 2024

Abstract

Background and objectives
Cefiderocol approved dosages are based on a prolonged infusion (PI) of 3 h that may not be adequate in all settings The objective of this study was to identify alternative cefiderocol dosage regimens based on short infusion (SI) or continuous infusion (CI).

Methods
We performed 1000-patient pharmacokinetic/pharmacodynamic (PK/PD) simulations based on a reference population model. Drug penetration into the epithelial lining fluid (ELF) was considered for pneumonia. For various stages of creatinine clearance (CLCR), we simulated the recommended PI as well as various SI (1 h-infusion) and CI regimens. The PK/PD targets were set at 75% or 100% of the dosing interval during which the free concentration of cefiderocol was above the MIC (fT &gt; MIC) in plasma and ELF. The PTAs were computed considering the cefiderocol MIC breakpoint (2 mg/L).

Results
In plasma, all recommended PI regimens were associated with a PTA  ≥ 90%. Some SI regimens also showed acceptable PTAs. CI regimens were associated with high PTAs, even for doses as low as 2 g over 24 h and in patients with high CLCR. Recommended dosages failed to achieve acceptable PTAs in ELF for the 100% fT &gt; MIC target in patients with CLCR  ≥ 90 mL/min. CI regimens showed the highest PTAs for the high target, but high doses of 6 to 8 g over 24 h were required in patients with CLCR  ≥ 90 mL/min.

Conclusions
We identified SI and CI regimens of cefiderocol that may be useful alternatives to the PI regimens in some patients. Continuous administration of cefiderocol may be especially relevant for patients with pneumonia. However, further clinical evaluation is necessary.
Embracing native diversity to enhance the maximum quantum efficiency of photosystem II in maize
Authors: Urzinger Sebastian , Avramova Viktoriya , Frey Monika , Urbany Claude , Scheuermann Daniela , Presterl Thomas , Reuscher Stefan , Ernst Karin , Mayer Manfred , Marcon Caroline , Hochholdinger Frank , Brajkovic Sarah , Ordas Bernardo , Westhoff Peter , Ouzunova Milena , Schön Chris-Carolin 
Published: December 2024

Abstract
The sustainability of maize cultivation would benefit tremendously from early sowing, but is hampered by low temperatures during early development in temperate climates. We show that allelic variation within the gene encoding subunit M of the NADH-dehydrogenase-like (NDH) complex (ndhm1) in a European maize landrace affects several quantitative traits that are relevant during early development in cold climates through NDH-mediated cyclic electron transport around photosystem I, a process crucial for photosynthesis and photoprotection. Beginning with a genome-wide association study for maximum potential quantum yield of photosystem II in dark-adapted leaves (Fv/Fm), we capitalized on the large phenotypic effects of a hAT transposon insertion in ndhm1 on multiple quantitative traits (early plant height [EPH], Fv/Fm, chlorophyll content, and cold tolerance) caused by the reduced protein levels of NDHM and associated NDH components. Analysis of the ndhm1 native allelic series revealed a rare allele of ndhm1 that is associated with small albeit significant improvements of Fv/Fm, photosystem II efficiency in light-adapted leaves (ΦPSII), and EPH compared with common alleles. Our work showcases the extraction of favorable alleles from locally adapted landraces, offering an efficient strategy for broadening the genetic variation of elite germplasm by breeding or genome editing.