bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Storage and Operation Changes of 256 Reservoirs Across the Contiguous United States
Authors: Chen Yanan , Cai Ximing 
Published: February 2025

AbstractReservoir operations face persistent challenges due to increasing water demand, more frequent extreme events, and stricter environmental requirements such as instream flow requirements for endangered species or other aspects of ecosystem health. This paper explores real‐world changes in reservoir storage and operation between 1990 and 2019 using historical data from 256 reservoirs across the Contiguous United States (CONUS). Statistical methods are applied to detecting changes in representative storage statistical metrics. Moreover, an empirical reservoir operation model which represents the dynamic change of operation over time is used to detect changes in reservoir operation rule and responses to different water availability and demand conditions under existing rules. The relationship between storage changes and operational changes is explored. Our results uncover significant trends in the storage metrics for 130 reservoirs, more of which show decreasing trends particularly in regions such as the Arkansas‐White‐Red basin, the Texas‐Gulf region, and the southwestern United States, where the storage declined mainly due to sedimentation and drought. Conversely, it is found that increasing trends do not show a clear spatial pattern, that is, the changes are not tied with regions but with operational changes. Additionally, 76 reservoirs are identified with changes in operations via an empirical reservoir operation model. Finally, examining the relationship of operational changes with external environment variables shows evidence of not only the effectiveness of the operations for some reservoirs, but also operation deficiencies for some reservoirs. Notably, sedimentation‐related issues and inadequate operational responses during extreme weather events emphasize the need for improved operational policies.
SUMOylation inhibition potentiates the glucocorticoid receptor to program growth arrest of acute lymphoblastic leukemia cells
Authors: Valima Emma , Varis Vera , Bureiko Kseniia , Lempiäinen Joanna K. , Schroderus Anna-Mari , Oksa Laura , Lohi Olli , Kinnunen Tuure , Varjosalo Markku , Niskanen Einari A. , Paakinaho Ville , Palvimo Jorma J. 
Published: February 2025

Abstract
Glucocorticoids are a mainstay in the treatment of B-cell acute lymphoblastic leukemia (B-ALL). The glucocorticoid receptor (GR), a ligand-activated transcription factor (TF), mediates their actions. Chromatin occupancy, chromatin-protein networks (chromatomes) and gene programmes of GR are regulated by SUMOylation, a post-translational modification with therapeutic implications in other hematomalignancies. To unravel the GR-SUMOylation crosstalk in B-ALL, we induced hypoSUMOylation in NALM6 B-ALL cells with a SUMOylation inhibitor (SUMOi, ML-792). Genome-wide profiling of GR and SUMO chromatin-binding and chromatin accessibility revealed that hypoSUMOylation augmented GR chromatin occupancy and altered chromatin openness. Association with transcriptome data indicated that the hypoSUMOylation-induced GR-binding sites predominantly repressed genes associated with cell cycle and DNA replication. Consistently, hypoSUMOylation potentiated glucocorticoid-induced cell cycle arrest and growth suppression. Moreover, our proteomic analyses revealed that the protein network of chromatin-bound GR is tightly intertwined with SUMO2/3 and that SUMOylation modulates the stability of the network. The chromatome contained several B-cell TFs with cognate binding motifs found on GR-adjacent chromatin sites, indicating their simultaneous occupancy on chromatin. In sum, our data imply potential for targeting SUMOylation to increase sensitivity to glucocorticoids in B-ALL, supported by ex vivo data of glucocorticoid and SUMOi TAK-981 combination-treated B-ALL patient samples.
Photothermal sensitive nanocomposite hydrogel for infectious bone defects
Authors: Wu Yanting , Xie Xi , Luo Guowen , Xie Jing , Ye Xiuwen , Gu Wanrong , Mo Anchun , Qian Zhiyong , Zhou Chenchen , Liao Jinfeng 
Published: February 2025

Abstract
Infectious bone defects represent a substantial challenge in clinical practice, necessitating the deployment of advanced therapeutic strategies. This study presents a treatment modality that merges a mild photothermal therapy hydrogel with a pulsed drug delivery mechanism. The system is predicated on a hydrogel matrix that is thermally responsive, characteristic of bone defect sites, facilitating controlled and site-specific drug release. The cornerstone of this system is the incorporation of mild photothermal nanoparticles, which are activated within the temperature range of 40–43 °C, thereby enhancing the precision and efficacy of drug delivery. Our findings demonstrate that the photothermal response significantly augments the localized delivery of therapeutic agents, mitigating systemic side effects and bolstering efficacy at the defect site. The synchronized pulsed release, cooperated with mild photothermal therapy, effectively addresses infection control, and promotes bone regeneration. This approach signifies a considerable advancement in the management of infectious bone defects, offering an effective and patient-centric alternative to traditional methods. Our research endeavors to extend its applicability to a wider spectrum of tissue regeneration scenarios, underscoring its transformative potential in the realm of regenerative medicine.
Inherent strain and kinetic coupling determine the kinetics of ammonia synthesis over Ru nanoparticles
Authors: Yang Yuqi , Hellman Anders , Grönbeck Henrik 
Published: February 2025

Abstract
The large-scale ammonia synthesis using the Haber-Bosch process is crucial in modern society and the reaction is known to be facile over Ru-based catalysts. Herein, first-principles kinetic Monte Carlo (kMC) simulations are utilized to explore the reaction kinetics on Ru nanoparticles (NPs), extending the current knowledge that is mainly based on calculations of single crystal surfaces. It is only by accounting for the effects of kinetic couplings between different sites and inherent strain in the NPs that experimental turnover frequencies (TOFs) can be reproduced. The enhanced activity of inherently strained NPs is attributed to the co-existence of sites with both tensile and compressive strain, which simultaneously promotes N2 dissociation and NHx (x = 0, 1 and 2) hydrogenation. We propose that kinetic couplings on Ru NPs with tailored strain-patterns offer a strategy to break the limitations of linear scaling relations in the design of ammonia synthesis catalysts.
Proteomics profiling of research models for studying pancreatic ductal adenocarcinoma
Authors: Resell Mathilde , Rabben Hanne-Line , Sharma Animesh , Hagen Lars , Hoang Linh , Skogaker Nan T. , Aarvik Anne , Bjåstad Eirik Knudsen , Svensson Magnus K. , Amrutkar Manoj , Verbeke Caroline S. , Batra Surinder K. , Qvigstad Gunnar , Wang Timothy C. , Rustgi Anil , Chen Duan , Zhao Chun-Mei 
Published: February 2025

Abstract
Pancreatic ductal adenocarcinoma (PDAC) remains one of the most lethal malignancies, with a five-year survival rate of 10–15% due to late-stage diagnosis and limited efficacy of existing treatments. This study utilized proteomics-based systems modelling to generate multimodal datasets from various research models, including PDAC cells, spheroids, organoids, and tissues derived from murine and human samples. Identical mass spectrometry-based proteomics was applied across the different models. The preparation and validation of the research models and the proteomics were described in detail. The assembly datasets we present here contribute to the data collection on PDAC, which will be useful for systems modelling, data mining, knowledge discovery in databases, and bioinformatics of individual models. Further data analysis may lead to the generation of research hypotheses, predictions of targets for diagnosis and treatment, and relationships between data variables.
Ontology-guided machine learning outperforms zero-shot foundation models for cardiac ultrasound text reports
Authors: Subramaniam Suganya , Rizvi Sara , Ramesh Ramya , Sehgal Vibhor , Gurusamy Brinda , Arif Hikmatullah , Tran Jeffrey , Thamman Ritu , Anyanwu Emeka C , Mastouri Ronald , Mackensen G. Burkhard , Arnaout Rima 
Published: February 2025

Abstract
Big data can revolutionize research and quality improvement for cardiac ultrasound. Text reports are a critical part of such analyses. Cardiac ultrasound reports include structured and free text and vary across institutions, hampering attempts to mine text for useful insights. Natural language processing (NLP) can help and includes both statistical- and large language model based techniques. We tested whether we could use NLP to map cardiac ultrasound text to a three-level hierarchical ontology. We used statistical machine learning (EchoMap) and zero-shot inference using GPT. We tested eight datasets from 24 different institutions and compared both methods against clinician-scored ground truth. Despite all adhering to clinical guidelines, institutions differed in their structured reporting. EchoMap performed best with validation accuracy of 98% for the first ontology level, 93% for first and second levels, and 79% for all three. EchoMap retained performance across external test datasets and could extrapolate to examples not included in training. EchoMap’s accuracy was comparable to zero-shot GPT at the first level of the ontology and outperformed GPT at second and third levels. We show that statistical machine learning can map text to structured ontology and may be especially useful for small, specialized text datasets.
RENEB interlaboratory comparison for biological dosimetry based on dicentric chromosome analysis and cobalt-60 exposures higher than 2.5 Gy
Authors: Bucher Martin , Endesfelder David , Pojtinger Stefan , Baeyens Ans , Barquinero Joan-Francesc , Beinke Christina , Bobyk Laure , Gregoire Eric , Hristova Rositsa , Martinez Juan S. , Meher Prabodha Kumar , Milanova Marcela , Gil Octávia Monteiro , Montoro Alegria , Moquet Jayne , Moreno Domene Mercedes , Prieto María Jesús , Pujol-Canadell Monica , Sun Mingzhu , Terzoudi Georgia I. , Tichy Ales , Triantopoulou Sotiria , Valente Marco , Vral Anne , Wojcik Andrzej , Oestreicher Ursula 
Published: February 2025

Abstract
In previous RENEB interlaboratory comparisons based on the manual scoring of dicentric chromosomes, a tendency for systematic overestimation for doses > 2.5 Gy was found. However, these exercises included only very few doses in the high dose range, and they were heterogeneous in terms of radiation quality and evaluation mode, and comparable only to a limited extent. Here, this presumed deviation was explored by investigating three doses > 2.5 Gy. Blood samples were irradiated (2.56, 3.41 and 4.54 Gy) using a 60Co source and sent to 14 member laboratories of the RENEB network, which performed the dicentric chromosome assay (manual and/or semi-automatic scoring) and reported dose estimates. Most participants provided estimates that agreed very well with the physical reference doses and all provided dose estimates were in the correct clinical category (> 2 Gy). The previously observed tendency for a systematic bias across all laboratories was not confirmed. However, tendencies for systematic underestimation were detected for dose estimations for reference doses given in terms of absorbed dose to blood and for some participants, a laboratory-specific trend of systematic under- or overestimation was observed. The importance of regularly performed quality checks for a broad dose range became obvious to avoid misinterpretation of results.
Investigating the role of gut microbiota in diabetic nephropathy through plasma proteome mediated analysis
Authors: Fu Shaojie , Li Fan , Yu Jinyu , Ma Shengjie , Zhang Li , Cheng Yanli 
Published: February 2025

Abstract
Diabetic nephropathy (DN) is the leading cause of end-stage renal disease and poses significant threats to individuals with diabetes. The concept of gut–kidney axis has gained increasing attention in recent years and the in the occurrence and development of DN, alterations in the gut microbiota also plays a crucial and indispensable role. However, the specific causal relationships between various gut microbial communities and DN, as well as the underlying molecular mechanisms, remains unclear. This study utilized data from genome-wide association studies. After screening for qualified instrumental variables, mendelian randomization causal analyses were performed by inverse variance weighting, MR-Egger, weighted median, weighted mode and MR-RAPS methods. Additionally, sensitivity analyses such as heterogeneity, multiplicity, and the direction of the causal effect were carried out to ensure that the results were robust. After identifying significant gut microbiota, protein-proteomics mediation analysis was conducted on potential 3282 plasma proteins to determine those with mediating effects. Finally, Reactome enrichment analysis was performed to ascertain metabolic or signaling pathways with mediating effects. Mendelian randomization analysis indicated associations between 21 gut microbiota and DN. After adjusting significance levels, Catenibacterium and Parasutterella were found to have causal effects on the onset of DN. Subsequently, we identified 22 plasma proteins with mediating effects, along with 27 metabolic or signaling pathways including activated propionic acid metabolism. Increased in the abundance of Catenibacterium and Parasutterella intestinal bacteria are causative factors for DN. More importantly, the underlying mechanism by which the increased abundance of Catenibacterium and Parasutterella intestinal bacteria lead to DN were revealed, providing a blueprint for the involvement of gut–kidney axis in the pathogenesis of DN and paving the way for future studies.
Differences in walking access to healthcare facilities between formal and informal areas in 19 sub-Saharan African cities
Authors: Friesen John , Georganos Stefanos , Haas Jan 
Published: February 2025

Abstract

Background
Spatial accessibility to healthcare is a critical factor in ensuring equitable health outcomes. While studies on a global, continental, and national level exist, our understanding of intra-urban differences, particularly between formal and informal areas within cities in sub-Saharan Africa, remains limited.

Methods
This study integrates openly available datasets on land use in 19 sub-Saharan cities, healthcare facilities in the region, and street networks from OpenStreetMap. Using these datasets, we calculate service areas around hospitals, considering travel times ranging from 1 to 120 minutes with walking as the mode of travel. The resulting service areas are then merged with population data from WorldPop, allowing us to assess the proportion of the population with specific travel times to healthcare facilities from informal and formal residential areas.

Results
Our analysis reveals that 33% of the urban population can reach hospitals within 15 minutes, 58% within 30 minutes, and 78% within 60 minutes. Importantly, for some cities, we observe significant differences between formal and informal areas, with informal areas experiencing a disadvantage in terms of spatial accessibility to healthcare facilities. The population in informal areas is particularly disadvantaged in medium-sized cities.

Conclusions
This study sheds light on the spatial accessibility of healthcare facilities in sub-Saharan African cities, emphasizing the need to consider intra-urban disparities, particularly in informal areas. The findings underscore the importance of targeted interventions and urban planning strategies to address these disparities and ensure that healthcare services are accessible to all segments of the urban population.
Rapid visual detection of laser welding defects in bright stainless steel thin plates
Authors: Xin Tian , Yan Zhihong , Xu Tongxin , Li Songhao , Duan Renjie , Peng Moxuan 
Published: February 2025

Abstract
Stainless steel sheets with bright surfaces have been widely used in household appliances, decorative materials, highway and railway vehicles, and other fields. In order to reduce welding deformation while maintaining overall aesthetics, the commonly used welding method is laser welding. In laser welding, various welding defects are the main causes of weld failure. At present, the main detection method for defects in such slender welds is laser structured light visual scanning detection. However, due to the fact that the reflection of high gloss stainless steel material is mainly mirror reflection, there will be a substantial amount of signal loss in structured light visual inspection. This article proposes a characterization and detection method for the surface morphology and defects of laser welding of high reflective materials. The method uses latitude and longitude RGB light sources for illumination, which can form distinct and different forms of rainbow bars on various types of weld defects, providing powerful conditions for defect recognition. Unlike laser structured light vision, this method fully utilizes the specular reflection characteristics of the material surface and has a faster detection speed. This article uses a ball model to reveal the decoupled correspondence between material surface color and gradient direction and magnitude under latitude-distributed and longitude-distributed RGB light source illumination, explaining the mechanism and reliability of the detection method, and providing conditions for further quantification of defects. Finally, this article combines U-Net network and its various improved versions to achieve high-precision welding defect detection, with an average accuracy of 89.88% and a recall rate of 92%.
An iterative-cluster domain adaptation fault diagnosis method for incremental multi-target domain adaptation
Authors: Wang Cheng , Zhang Qidong , Deng Lili 
Published: February 2025

Abstract
Domain adaptation methods have demonstrated considerable potential in enhancing the performance of fault diagnosis models across diverse operating conditions. While single-target domain adaptation has been extensively explored, its efficacy is reduced in scenarios involving multi-target and incremental-target domains. However, such scenarios are common in real-world projects, necessitating the exploration of more sophisticated, multi-domain, and incremental domain adaptation methods. In response, we propose an iterative-cluster domain adaptation (ICDA) method, which is tailored to address incremental multi-target domain adaptation challenges. On the basis of single-target domain adaptation, ICDA enhances domain alignment through cyclic iteration and clustering algorithms. Notably, it has been demonstrated to be effective in a range of domain adaptation scenarios, including single-target, multi-target, and incremental-target adaptation, even in the unlabeled target domains. The efficacy and superiority of ICDA over baseline models has been substantiated through validation on the CWRU and WINDEY datasets.
Back to the figure-8 stellarator
Authors: Plunk G G , Drevlak M , Rodríguez E , Babin R , Goodman A , Hindenlang F 
Published: February 2025

Abstract
The first stellarator design was a simple tube of plasma twisted and closed on itself in the form of a figure-8. The line of such devices, however, was quickly ended over concerns related to plasma stability. We revisit the figure-8 concept, re-imagined as a modern optimized stellarator, and find the potential for a high degree of stability, as well as exceptionally simple construction. In particular, the design that we find admits planar coils, and is the first quasi-isodynamic stellarator design to have this property. Our work is made possible by recent theoretical progress in the near-axis theory of quasi-isodynamic stellarators, combined with fundamental progress in the numerical solution of three-dimensional magnetohydrodynamic equilibria that cannot be well represented using traditional cylindrical coordinates.
Electron impact partial ionization cross section and thermal rate coefficients of gaseous refrigerants
Authors: Shanmugasundaram Suriyaprasanth , Gupta Dhanoj 
Published: February 2025

Abstract
We have calculated the electron impact partial and total ionization cross sections of important gaseous targets which are used in gas-based detectors at high-energy physics experiments. The present work uses the Binary encounter Bethe model and its variants along with the mass spectrometry data for the calculation of cross sections. Trifluoromethane (CHF3), 1,1,1-Trifluoroethane

(

C
2

H
3

F
3

)

or R143a, 1,1,1-Trifluoropropane

(

C
3

H
5

F
3

)

or R263fb, 3,3,3-Trifluoropropene

(

C
3

H
3

F
3

)

or R1243zf, and 1,1,1,2-Tetrafluoroethane

(

C
2

H
2

F
4

)

or R134a are studied for the total and partial ionization cross sections along with the corresponding rate coefficients. The rate coefficients are calculated using Maxwell’s velocity distribution function. The rates for the ionization cross sections are fitted with the Arrhenius function, and the fit parameters are also presented. The cross section and the rates are compared with the available data for CHF3 and a good comparison is found.
Modelling cross-diffusion with Beverton-Holt-like additional food dynamics
Authors: Mandal Gourav , Guin Lakshmi Narayan , Chakravarty Santabrata 
Published: February 2025

Abstract
The dynamics of a ratio-dependent interacting species system in space and time, concerning Beverton-Holt-like additional food for predators, are explored within the present framework. Initially, the non-spatial scenario is examined, revealing a variety of dynamical phenomena, including co-dimension 1 and 2 bifurcations in both local and global contexts, through the application of dynamical systems in biology and normal form theory. Additionally, bi-stability phenomena are observed in distinct regions under appropriate parameter values. In the two-phase mathematical analysis, the second phase focuses on the corresponding reaction-diffusion system, uncovering various rich spatiotemporal patterns. Comprehensive numerical simulations are subsequently performed to support the analytical results. The relationship between Beverton-Holt-like additional food and cross-diffusion structures gives rise to spatiotemporal complexity, as demonstrated by the simulation results that validate the behaviour of both temporal and spatiotemporal models.
Effects of indenter radius and temperature on mechanical capacities of crystalline Cu/Cu50Ta50 metallic glasses multilayers during nanoindentation
Authors: Nguyen Van-Ha , Tran Anh-Son , Chu Van-Tuan , Doan Dinh-Quan , Pham Anh-Vu , Nguyen Van-Thoai , Hoang Van-Han , Vu Hong-Son , Pham The-Tan 
Published: February 2025

Abstract
This work uses molecular dynamics simulation method to investigate the effects of indenter radius (R) and temperature (T) on mechanical capacities of crystalline Cu/Cu50Ta50 metallic glasses multilayers under nanoindentation. The mechanical capacities are evaluated by the common neighbour analysis (CNA)-shear strain configurations, dislocations, fraction of atoms with high shear strain (f), indented force (F), elastic recovery (E

r
), and von Mises stress distribution. The shear transformation zones (STZs) formed are more pronounced in the cases with smaller R and higher T. The total dislocation length increases as R increases, while it reduces as T increases. In contrast, f reduces as R increases but it increases as T increases. The F increases linearly as R rises and it reduces as T increases. The elastic recovery of the 4-layer Cu/Cu50Ta50 sample is appreciably greater compared to the other cases and the von Mises stress does not change much with changing R, while E

r
reduces and the von Mises stress increases as T increases.