bluuebunny/crossref_metadata_2025_split huggingface dataset:
Ultra-high-resolution observations of persistent null-point reconnection in the solar corona
Authors: Cheng X. , Priest E. R. , Li H. T. , Chen J. , Aulanier G. , Chitta L. P. , Wang Y. L. , Peter H. , Zhu X. S. , Xing C. , Ding M. D. , Solanki S. K. , Berghmans D. , Teriaca L. , Aznar Cuadrado R. , Zhukov A. N. , Guo Y. , Long D. , Harra L. , Smith P. J. , Rodriguez L. , Verbeeck C. , Barczynski K. , Parenti S. 
Published: April 2023

AbstractMagnetic reconnection is a key mechanism involved in solar eruptions and is also a prime possibility to heat the low corona to millions of degrees. Here, we present ultra-high-resolution extreme ultraviolet observations of persistent null-point reconnection in the corona at a scale of about 390 km over one hour observations of the Extreme-Ultraviolet Imager on board Solar Orbiter spacecraft. The observations show formation of a null-point configuration above a minor positive polarity embedded within a region of dominant negative polarity near a sunspot. The gentle phase of the persistent null-point reconnection is evidenced by sustained point-like high-temperature plasma (about 10 MK) near the null-point and constant outflow blobs not only along the outer spine but also along the fan surface. The blobs appear at a higher frequency than previously observed with an average velocity of about 80 km s−1and life-times of about 40 s. The null-point reconnection also occurs explosively but only for 4 minutes, its coupling with a mini-filament eruption generates a spiral jet. These results suggest that magnetic reconnection, at previously unresolved scales, proceeds continually in a gentle and/or explosive way to persistently transfer mass and energy to the overlying corona.
Serum but not cerebrospinal fluid levels of allantoin are increased in de novo Parkinson’s disease
Authors: Hasíková Lenka , Závada Jakub , Serranová Tereza , Kozlík Petr , Kalíková Květa , Kotačková Lenka , Trnka Jiří , Zogala David , Šonka Karel , Růžička Evžen , Dušek Petr 
Published: April 2023

AbstractOxidative stress supposedly plays a role in the pathogenesis of Parkinson’s disease (PD). Uric acid (UA), a powerful antioxidant, is lowered in PD while allantoin, the oxidation product of UA and known biomarker of oxidative stress, was not systematically studied in PD. We aim to compare serum and cerebrospinal fluid (CSF) levels of UA, allantoin, and allantoin/UA ratio in de novo PD patients and controls, and evaluate their associations with clinical severity and the degree of substantia nigra degeneration in PD. We measured serum and CSF levels of UA, allantoin, and allantoin/UA ratio in 86 PD patients (33 females, mean age 57.9 (SD 12.6) years; CSF levels were assessed in 51 patients) and in 40 controls (19 females, 56.7 (14.1) years). PD patients were examined using Movement Disorder Society-Unified Parkinson’s Disease Rating Scale (MDS-UPDRS), Montreal Cognitive Assessment (MoCA), Scales for Outcomes in Parkinson Disease-Autonomic (SCOPA-AUT), the University of Pennsylvania Smell Identification Test (UPSIT), one-night video-polysomnography, and dopamine transporter single-photon emission computed tomography (DAT-SPECT). Serum allantoin and allantoin/UA ratio were significantly increased in the PD group compared to controls (p < 0.001 and p = 0.002, respectively). Allantoin/UA ratios in serum and CSF were positively associated with the SCOPA-AUT score (p = 0.005 and 0.031, respectively) and RBD presence (p = 0.044 and 0.028, respectively). In conclusion, serum allantoin and allantoin/UA ratio are elevated in patients with de novo PD. Allantoin/UA ratio in serum and CSF is associated with autonomic dysfunction and RBD presence, indicating that higher systemic oxidative stress occurs in PD patients with more diffuse neurodegenerative changes.
Scaling and intermittency in turbulent flows of elastoviscoplastic fluids
Authors: Abdelgawad Mohamed S. , Cannon Ianto , Rosti Marco E. 
Published: April 2023

AbstractNon-Newtonian fluids have a viscosity that varies with applied stress. Elastoviscoplastic fluids, the elastic, viscous and plastic properties of which are interconnected in a non-trivial way, belong to this category. We have performed numerical simulations to investigate turbulence in elastoviscoplastic fluids at very high Reynolds-number values, as found in landslides and lava flows, focusing on the effect of plasticity. We find that the range of active scales in the energy spectrum reduces when increasing the fluid plasticity; when plastic effects dominate, a new scaling range emerges between the inertial range and the dissipative scales. An extended self-similarity analysis of the structure functions reveals that intermittency is present and grows with the fluid plasticity. The enhanced intermittency is caused by the non-Newtonian dissipation rate, which also exhibits an intermittent behaviour. These findings have relevance to catastrophic events in natural flows, such as landslides and lava flows, where the enhanced intermittency results in stronger extreme events, which are thus more destructive and difficult to predict.
Interactome dynamics of RAF1-BRAF kinase monomers and dimers
Authors: Iglesias-Martinez Luis F. , Rauch Nora , Wynne Kieran , McCann Brendan , Kolch Walter , Rauch Jens 
Published: April 2023

AbstractRAF kinases play major roles in cancer. BRAFV600E mutants drive ~6% of human cancers. Potent kinase inhibitors exist but show variable effects in different cancer types, sometimes even inducing paradoxical RAF kinase activation. Both paradoxical activation and drug resistance are frequently due to enhanced dimerization between RAF1 and BRAF, which maintains or restores the activity of the downstream MEK-ERK pathway. Here, using quantitative proteomics we mapped the interactomes of RAF1 monomers, RAF1-BRAF and RAF1-BRAFV600E dimers identifying and quantifying >1,000 proteins. In addition, we examined the effects of vemurafenib and sorafenib, two different types of clinically used RAF inhibitors. Using regression analysis to compare different conditions we found a large overlapping core interactome but also distinct condition specific differences. Given that RAF proteins have kinase independent functions such dynamic interactome changes could contribute to their functional diversification. Analysing this dataset may provide a deeper understanding of RAF signalling and mechanisms of resistance to RAF inhibitors.
Establishment of an artificial particulate matter-induced lung disease model through analyzing pathological changes and transcriptomic profiles in mice
Authors: Kim Dong Im , Song Mi-Kyung , Yuk Ji Eun , Seo Hyeon Jin , Lee Kyuhong 
Published: April 2023

AbstractParticulate matter (PM), an environmental risk factor, is linked with health risks such as respiratory diseases. This study aimed to establish an animal model of PM-induced lung injury with artificial PM (APM) and identify the potential of APM for toxicological research. APM was generated from graphite at 600 °C and combined with ethylene. We analyzed diesel exhaust particulate (DEP) and APM compositions and compared toxicity and transcriptomic profiling in lungs according to the exposure. For the animal study, C57BL/6 male mice were intratracheally administered vehicle, DEP, or APM. DEP or APM increased relative lung weight, inflammatory cell numbers, and inflammatory protein levels compared with the vehicle control. Histological assessments showed an increase in particle-pigment alveolar macrophages and slight inflammation in the lungs of DEP and APM mice. In the only APM group, granulomatous inflammation, pulmonary fibrosis, and mucous hyperplasia were observed in the lungs of some individuals. This is the first study to compare pulmonary toxicity between DEP and APM in an animal model. Our results suggest that the APM-treated animal model may contribute to understanding the harmful effects of PM in toxicological studies showing that APM can induce various lung diseases according to different doses of APM.
Large-scale effects of offshore wind farms on seabirds of high conservation concern
Authors: Garthe Stefan , Schwemmer Henriette , Peschko Verena , Markones Nele , Müller Sabine , Schwemmer Philipp , Mercker Moritz 
Published: April 2023

AbstractThe North Sea is a key area worldwide for the installation of offshore wind farms (OWFs). We analysed data from multiple sources to quantify the effects of OWFs on seabirds from the family Gaviidae (loons) in the German North Sea. The distribution and abundance of loons changed substantially from the period before to the period after OWF construction. Densities of loons were significantly reduced at distances of up to 9–12 km from the OWF footprints. Abundance declined by 94% within the OWF + 1 km zone and by 52% within the OWF + 10 km zone. The observed redistribution was a large-scale effect, with birds aggregating within the study area at large distances from the OWFs. Although renewable energies will be needed to provide a large share of our energy demands in the future, it is necessary to minimize the costs in terms of less-adaptable species, to avoid amplifying the biodiversity crisis.
An interpretable and interactive deep learning algorithm for a clinically applicable retinal fundus diagnosis system by modelling finding-disease relationship
Authors: Son Jaemin , Shin Joo Young , Kong Seo Taek , Park Jeonghyuk , Kwon Gitaek , Kim Hoon Dong , Park Kyu Hyung , Jung Kyu-Hwan , Park Sang Jun 
Published: April 2023

AbstractThe identification of abnormal findings manifested in retinal fundus images and diagnosis of ophthalmic diseases are essential to the management of potentially vision-threatening eye conditions. Recently, deep learning-based computer-aided diagnosis systems (CADs) have demonstrated their potential to reduce reading time and discrepancy amongst readers. However, the obscure reasoning of deep neural networks (DNNs) has been the leading cause to reluctance in its clinical use as CAD systems. Here, we present a novel architectural and algorithmic design of DNNs to comprehensively identify 15 abnormal retinal findings and diagnose 8 major ophthalmic diseases from macula-centered fundus images with the accuracy comparable to experts. We then define a notion of counterfactual attribution ratio (CAR) which luminates the system’s diagnostic reasoning, representing how each abnormal finding contributed to its diagnostic prediction. By using CAR, we show that both quantitative and qualitative interpretation and interactive adjustment of the CAD result can be achieved. A comparison of the model’s CAR with experts’ finding-disease diagnosis correlation confirms that the proposed model identifies the relationship between findings and diseases similarly as ophthalmologists do.
Influencing factors of community residents' pro-environmental behavior in East Dongting Lake National Nature Reserve under the policy intervention
Authors: Tang Xianglong , Yuan Jianqiong , Zeng Xitong 
Published: April 2023

AbstractIn the study of protected areas, the "Fences & fines" approach is increasingly becoming acknowledged as obsolete and ineffectual, and there is mounting evidence suggesting that the "Community-based conservation" approach is acquiring consideration. It is significant to identify which protection model or factors perform a definitive part in China. Taking the East Dongting Lake National Nature Reserve in China as a survey site, this paper utilizes semi-structured interviews and random questionnaires surveyed 431 households to investigate the relationship between "community-based conservation" approaches such aslegal system, ecological compensation, environmental education, community participation, concessions, livelihoods, job provision, intrinsic motivation and pro-environmental behavior. The regression results declare that intrinsic motivation (β = 0.390) and legal system (β = 0.212) are the most effective factors impacting on pro-environmental behavior; concessions has a negative conflict on preservation;but other "community-based conservation" approaches had insignificant positive impacts on pro-environmental behavior. Further mediating effects analysis indicated that intrinsic motivation (B = 0.3899, t = 11.9694, p < 0.01) mediates between legal system and pro-environmental behavior of community residents, legal system promotes pro-environmental behavior by promoting intrinsic motivation, which is more effective than legal system promoting pro-environmental behavior directly. This demonstrates that “Fence and fine approach" still is an effective management tool which can shape community residents' positive attitude towards conservation and pro-environmental behavior especially protected areas with large communities. And appropriate "community-based conservation" approaches can mitigate conflicts between special groups with the combination of these two approaches, the management of protected areas can be successful. This supplies a valuable real-world case for the current debate on conservation and improved human livelihoods.
Warning regarding hematological toxicity of tamoxifen activated CreERT2 in young Rosa26CreERT2 mice
Authors: Rossi Martina , Salomon Aude , Chaumontel Nicolas , Molet Jenny , Bailly Sabine , Tillet Emmanuelle , Bouvard Claire 
Published: April 2023

AbstractThe Cre-lox system is a versatile and powerful tool used in mouse genetics. It allows spatial and/or temporal control of the deletion of a target gene. The Rosa26-CreERT2 (R26CreERT2) mouse model allows ubiquitous expression of CreERT2. Once activated by tamoxifen, CreERT2 will enter into the nuclei and delete floxed DNA sequences. Here, we show that intraperitoneal injection of tamoxifen in young R26CreERT2 mice leads to morbidity and mortality within 10 days after the first injection, in the absence of a floxed allele. Activation of CreERT2 by tamoxifen led to severe hematological defects, with anemia and a strong disorganization of the bone marrow vascular bed. Cell proliferation was significantly reduced in the bone marrow and the spleen resulting in the depletion of several hematopoietic cells. However, not all cell types or organs were affected to the same extent. We realized that many research groups are not aware of the potential toxicity of Cre recombinases, resulting in misinterpretation of the observed phenotype and in a waste of time and resources. We discuss the necessity to include tamoxifen injected CreERT2 controls lacking a floxed allele in experimental designs and to improve communication about the limitations of Cre-lox mouse models among the scientific community.
The paucity of morality in everyday talk
Authors: Atari Mohammad , Mehl Matthias R. , Graham Jesse , Doris John M. , Schwarz Norbert , Davani Aida Mostafazadeh , Omrani Ali , Kennedy Brendan , Gonzalez Elaine , Jafarzadeh Nikki , Hussain Alyzeh , Mirinjian Arineh , Madden Annabelle , Bhatia Rhea , Burch Alexander , Harlan Allison , Sbarra David A. , Raison Charles L. , Moseley Suzanne A. , Polsinelli Angelina J. , Dehghani Morteza 
Published: April 2023

AbstractGiven its centrality in scholarly and popular discourse, morality should be expected to figure prominently in everyday talk. We test this expectation by examining the frequency of moral content in three contexts, using three methods: (a) Participants’ subjective frequency estimates (N = 581); (b) Human content analysis of unobtrusively recorded in-person interactions (N = 542 participants;n = 50,961 observations); and (c) Computational content analysis of Facebook posts (N = 3822 participants;n = 111,886 observations). In their self-reports, participants estimated that 21.5% of their interactions touched on morality (Study 1), but objectively, only 4.7% of recorded conversational samples (Study 2) and 2.2% of Facebook posts (Study 3) contained moral content. Collectively, these findings suggest that morality may be far less prominent in everyday life than scholarly and popular discourse, and laypeople, presume.
Water stabilizes an alternate turn conformation in horse heart myoglobin
Authors: Bronstein Alex , Marx Ailie 
Published: April 2023

AbstractComparison of myoglobin structures reveals that protein isolated from horse heart consistently adopts an alternate turn conformation in comparison to its homologues. Analysis of hundreds of high-resolution structures discounts crystallization conditions or the surrounding amino acid protein environment as explaining this difference, that is also not captured by the AlphaFold prediction. Rather, a water molecule is identified as stabilizing the conformation in the horse heart structure, which immediately reverts to the whale conformation in molecular dynamics simulations excluding that structural water.
Parameter inference for enzyme and temperature constrained genome-scale models
Authors: Pettersen Jakob Peder , Almaas Eivind 
Published: April 2023

AbstractThe metabolism of all living organisms is dependent on temperature, and therefore, having a good method to predict temperature effects at a system level is of importance. A recently developed Bayesian computational framework for enzyme and temperature constrained genome-scale models (etcGEM) predicts the temperature dependence of an organism’s metabolic network from thermodynamic properties of the metabolic enzymes, markedly expanding the scope and applicability of constraint-based metabolic modelling. Here, we show that the Bayesian calculation method for inferring parameters for an etcGEM is unstable and unable to estimate the posterior distribution. The Bayesian calculation method assumes that the posterior distribution is unimodal, and thus fails due to the multimodality of the problem. To remedy this problem, we developed an evolutionary algorithm which is able to obtain a diversity of solutions in this multimodal parameter space. We quantified the phenotypic consequences on six metabolic network signature reactions of the different parameter solutions resulting from use of the evolutionary algorithm. While two of these reactions showed little phenotypic variation between the solutions, the remainder displayed huge variation in flux-carrying capacity. This result indicates that the model is under-determined given current experimental data and that more data is required to narrow down the model predictions. Finally, we made improvements to the software to reduce the running time of the parameter set evaluations by a factor of 8.5, allowing for obtaining results faster and with less computational resources.
Differential privacy protection algorithm for network sensitive information based on singular value decomposition
Authors: Ma Xuan , Chang Xing , Chen Hongxiu 
Published: April 2023

AbstractIn order to reduce the risk of data privacy disclosure and improve the effect of information privacy protection, a differential privacy protection algorithm for network sensitive information based on singular value decomposition is proposed. TF-IDF method is used to extract network sensitive information text. By comparing the word frequency of network sensitive information, high word frequency word elements in network information content are collected to obtain the mining results of network sensitive information text. According to the decision tree theory, the equal difference privacy budget allocation mechanism is improved to achieve equal difference privacy budget allocation. By discarding some small singular values and corresponding spectral vectors, the data can be disturbed, and the availability of the original data can be retained, so that it can truly represent the original data set structure. According to the results of equal difference privacy budget allocation and singular value decomposition disturbance, the data of high-dimensional network graph is reduced by random projection, singular value decomposition is performed on the reduced data, and Gaussian noise is added to the singular value. Finally, the matrix to be published is generated through the inverse operation of singular value decomposition to achieve differential privacy protection of network sensitive information. The experimental results show that the privacy protection quality of this algorithm is high and the data availability is effectively improved.
Factors affecting the ORR after neoadjuvant therapy of TP regimen combined with PD-1 inhibitors for esophageal cancer
Authors: Ma Rulan , Yuan Dawei , Mo Caijing , Zhu Kun , Dang Chengxue , Zhang Yong , Yin Jianhao , Li Kang 
Published: April 2023

AbstractThe aim of this study is to evaluate the factors affecting the objective response rate (ORR) after neoadjuvant therapy of taxol plus platinum (TP) regimen combined with programmed cell death protein-1 (PD-1) inhibitors for esophageal cancer, and establish a predictive model for forecasting ORR. According to the inclusion and exclusion criteria, consecutive esophageal cancer patients who were treated in the First Affiliated Hospital of Xi’an Jiaotong University from January 2020 to February 2022 were enrolled in this study as a training cohort, while patients who were treated in the Shaanxi Provincial Cancer Hospital Affiliated to Medical College of Xi’an Jiaotong University from January 2020 to December 2021 were enrolled as a validation cohort. All patients were treated with resectable locally advanced esophageal cancer and received neoadjuvant chemotherapy combined with immunotherapy. The ORR was defined as the sum of complete pathological response, major pathological response and partial pathological response. Logistic regression analysis was performed to determine the factors that might be related to the ORR of the patients after neoadjuvant therapy. The nomogram based on the result of regression analysis was established and verified to predict the ORR. In this study, 42 patients were included as training cohort and 53 patients were included as validation cohort. Chi-square analysis showed that neutrophil, platelet, platelet-to-lymphocytes ratio (PLR), systemic immune-inflammation index (SII), D-dimer and carcinoembryonic antigen (CEA) between ORR group and non-ORR group were significantly different. Logistic regression analysis showed that aspartate aminotransferase (AST), D-dimer and CEA were independent predictors of ORR after neoadjuvant immunotherapy. Finally, a nomogram was established based on AST, D-dimer and CEA. Internal validation and external validation revealed that the nomogram had a good ability to predict ORR after neoadjuvant immunotherapy. In conclusion, AST, D-dimer and CEA were the independent predictors of ORR after neoadjuvant immunotherapy. The nomogram based on these three indicators showed a good predictive ability.
Functional reorganisation of the cranial skeleton during the cynodont–mammaliaform transition
Authors: Lautenschlager Stephan , Fagan Michael J. , Luo Zhe-Xi , Bird Charlotte M. , Gill Pamela , Rayfield Emily J. 
Published: April 2023

AbstractSkeletal simplification occurred in multiple vertebrate clades over the last 500 million years, including the evolution from premammalian cynodonts to mammals. This transition is characterised by the loss and reduction of cranial bones, the emergence of a novel jaw joint, and the rearrangement of the jaw musculature. These modifications have long been hypothesised to increase skull strength and efficiency during feeding. Here, we combine digital reconstruction and biomechanical modelling to show that there is no evidence for an increase in cranial strength and biomechanical performance. Our analyses demonstrate the selective functional reorganisation of the cranial skeleton, leading to reduced stresses in the braincase and the skull roof but increased stresses in the zygomatic region through this transition. This cranial functional reorganisation, reduction in mechanical advantage, and overall miniaturisation in body size are linked with a dietary specialisation to insectivory, permitting the subsequent morphological and ecological diversification of the mammalian lineage.