bluuebunny/crossref_metadata_2025_split huggingface dataset:
Influence of a Rapidly Uplifting Orogen on the Preservation of Climate Oscillations
Authors: Hsieh Amy I. , Vaucher Romain , Löwemark Ludvig , Dashtgard Shahin E. , Horng Chorng‐Shern , Lin Andrew T. , Zeeden Christian 
Published: May 2023

AbstractClimate oscillations preserved in sedimentary archives tend to decrease in resolution further back in Earth's history. High‐frequency climate cycles (e.g., ∼20‐Kyr precession cycles) are especially prone to poor preservation due to sediment reworking. Recent studies have shown, however, that given sufficient basin accommodation space and sedimentation rate, shallow‐marine paleoclimate archives record precession‐driven hydroclimate change in mid‐low latitude regions. Our study evaluates how the evolution of a rapidly uplifting orogen influences the recording of astronomical climate forcing in shallow‐marine sedimentary strata in the Taiwan Western Foreland Basin (WFB). Time‐series analysis of gamma‐ray records through the late Miocene–Pliocene Kueichulin Formation shows that during early stages of Taiwan orogenesis (before 5.4 Ma), preservation of precession‐driven East Asian Summer Monsoon variability is low despite increasing monsoon intensities between 8 and 3 Ma. The Taiwan Strait had not formed, and the southeast margin of Eurasia was open to the Pacific Ocean. Consequently, depositional environments in the WFB were susceptible to reworking by large waves, resulting in the obscuration of higher‐frequency precession cycles. From 5.4 to 4.92 Ma, during early stages of emergence of Taiwan, basin subsidence increased while sedimentation rates remained low, resulting in poor preservation of orbital oscillations. After 4.92 Ma and up to 3.15 Ma, Taiwan became a major sediment source to the WFB, and sheltered the WFB from erosive waves with the development of Taiwan Strait. The elevated sediment influx, increased basin accommodation as the WFB developed, and formation of a semi‐sheltered strait, resulted in enhanced preservation of precession‐driven East Asian Summer Monsoon variability.
Magnetospheric Line Radiation Observed Close to the Source: Properties and Propagation
Authors: Němec F. , Manninen J. , Santolík O. , Hospodarsky G. B. , Kurth W. S. 
Published: May 2023

AbstractMagnetospheric Line Radiation (MLR) is a type of whistler mode electromagnetic wave phenomenon observed in the inner magnetosphere at frequencies of a few kilohertz, that is characterized by a frequency modulation of the wave intensity. Although such events are quite regularly observed by ground‐based stations and low‐altitude spacecraft, their observations in the equatorial region at larger radial distances (i.e., close to tentative source regions) are extremely limited, likely due to the generally low frequency resolution of available measurements. A systematic search for MLR in continuous intervals of high‐resolution multicomponent wave data obtained by the Van Allen Probes spacecraft detects 15 events. They occur primarily on the dayside at frequencies between about 1 and 5 kHz, propagating with oblique wave normals away from the geomagnetic equator. For one event, simultaneous ground‐based observations are available, providing limits on the spatial extent of the event: it does not extend beyond the high‐density plasmasphere region. An electrostatic wave at a frequency corresponding to the modulation frequency of MLR is observed in three events. This is likely linked to the event formation mechanism and has not been observed before. Our results can lead to an understanding of the formation mechanism of MLR.
Integrated analysis of single-cell and bulk RNA sequencing data reveals an immunostimulatory microenvironment in tumor thrombus of osteosarcoma
Authors: Ji Tao , Shi Qianyu , Mei Song , Xu Jiuhui , Liang Haijie , Xie Lu , Ren Tingting , Sun Kunkun , Li Dasen , Tang Xiaodong , Zhang Peng , Guo Wei 
Published: May 2023

AbstractTumor thrombus of bone sarcomas represents a unique reservoir for various types of cancer and immune cells, however, the investigation of tumor thrombus at a single-cell level is very limited. And it is still an open question to identify the thrombus-specific tumor microenvironment that is associated with the tumor-adaptive immune response. Here, by analyzing bulk tissue and single-cell level transcriptome from the paired thrombus and primary tumor samples of osteosarcoma (OS) patients, we define the immunostimulatory microenvironment in tumor thrombus of OS with a higher proportion of tumor-associated macrophages with M1-like states (TAM-M1) and TAM-M1 with high expression of CCL4. OS tumor thrombus is found to have upregulated IFN-γ and TGF-β signalings that are related to immune surveillance of circulating tumor cells in blood circulation. Further multiplexed immunofluorescence staining of the CD3/CD4/CD8A/CD68/CCL4 markers validates the immune-activated state in the tumor thrombus samples. Our study first reports the transcriptome differences at a single-cell level between tumor thrombus and primary tumor in sarcoma.
A biodegradable, flexible photonic patch for in vivo phototherapy
Authors: Deng Kaicheng , Tang Yao , Xiao Yan , Zhong Danni , Zhang Hua , Fang Wen , Shen Liyin , Wang Zhaochuang , Pan Jiazhen , Lu Yuwen , Chen Changming , Gao Yun , Jin Qiao , Zhuang Lenan , Wan Hao , Zhuang Liujing , Wang Ping , Zhai Junfeng , Ren Tanchen , Hu Qiaoling , Lang Meidong , Zhang Yue , Wang Huanan , Zhou Min , Gao Changyou , Zhang Lei , Zhu Yang 
Published: May 2023

AbstractDiagnostic and therapeutic illumination on internal organs and tissues with high controllability and adaptability in terms of spectrum, area, depth, and intensity remains a major challenge. Here, we present a flexible, biodegradable photonic device called iCarP with a micrometer scale air gap between a refractive polyester patch and the embedded removable tapered optical fiber. ICarP combines the advantages of light diffraction by the tapered optical fiber, dual refractions in the air gap, and reflection inside the patch to obtain a bulb-like illumination, guiding light towards target tissue. We show that iCarP achieves large area, high intensity, wide spectrum, continuous or pulsatile, deeply penetrating illumination without puncturing the target tissues and demonstrate that it supports phototherapies with different photosensitizers. We find that the photonic device is compatible with thoracoscopy-based minimally invasive implantation onto beating hearts. These initial results show that iCarP could be a safe, precise and widely applicable device suitable for internal organs and tissue illumination and associated diagnosis and therapy.
Dual-site catalysts featuring platinum-group-metal atoms on copper shapes boost hydrocarbon formations in electrocatalytic CO2 reduction
Authors: Chhetri Manjeet , Wan Mingyu , Jin Zehua , Yeager John , Sandor Case , Rapp Conner , Wang Hui , Lee Sungsik , Bodenschatz Cameron J. , Zachman Michael J. , Che Fanglin , Yang Ming 
Published: May 2023

AbstractCopper-based catalyst is uniquely positioned to catalyze the hydrocarbon formations through electrochemical CO2 reduction. The catalyst design freedom is limited for alloying copper with H-affinitive elements represented by platinum group metals because the latter would easily drive the hydrogen evolution reaction to override CO2 reduction. We report an adept design of anchoring atomically dispersed platinum group metal species on both polycrystalline and shape-controlled Cu catalysts, which now promote targeted CO2 reduction reaction while frustrating the undesired hydrogen evolution reaction. Notably, alloys with similar metal formulations but comprising small platinum or palladium clusters would fail this objective. With an appreciable amount of CO-Pd1 moieties on copper surfaces, facile CO* hydrogenation to CHO* or CO-CHO* coupling is now viable as one of the main pathways on Cu(111) or Cu(100) to selectively produce CH4 or C2H4 through Pd-Cu dual-site pathways. The work broadens copper alloying choices for CO2 reduction in aqueous phases.
Bioinspired design of Na-ion conduction channels in covalent organic frameworks for quasi-solid-state sodium batteries
Authors: Yan Yingchun , Liu Zheng , Wan Ting , Li Weining , Qiu Zhipeng , Chi Chunlei , Huangfu Chao , Wang Guanwen , Qi Bin , Yan Youguo , Wei Tong , Fan Zhuangjun 
Published: May 2023

AbstractSolid polymer electrolytes are considered among the most promising candidates for developing practical solid-state sodium batteries. However, moderate ionic conductivity and narrow electrochemical windows hinder their further application. Herein, inspired by the Na+/K+ conduction in biological membranes, we report a (–COO–)-modified covalent organic framework (COF) as a Na-ion quasi-solid-state electrolyte with sub-nanometre-sized Na+ transport zones (6.7–11.6 Å) created by adjacent –COO– groups and COF inwalls. The quasi-solid-state electrolyte enables selective Na+ transport along specific areas that are electronegative with sub-nanometre dimensions, resulting in a Na+ conductivity of 1.30×10–4 S cm–1 and oxidative stability of up to 5.32 V (versus Na+/Na) at 25 ± 1 °C. Testing the quasi-solid-state electrolyte in Na||Na3V2(PO4)3 coin cell configuration demonstrates fast reaction dynamics, low polarization voltages, and a stable cycling performance over 1000 cycles at 60 mA g–1 and 25 ± 1 °C with a 0.0048% capacity decay per cycle and a final discharge capacity of 83.5 mAh g−1.
Scalable-produced 3D elastic thermoelectric network for body heat harvesting
Authors: Liu Yijie , Wang Xiaodong , Hou Shuaihang , Wu Zuoxu , Wang Jian , Mao Jun , Zhang Qian , Liu Zhiguo , Cao Feng 
Published: May 2023

AbstractFlexible thermoelectric generators can power wearable electronics by harvesting body heat. However, existing thermoelectric materials rarely realize high flexibility and output properties simultaneously. Here we present a facile, cost-effective, and scalable two-step impregnation method for fabricating a three-dimensional thermoelectric network with excellent elasticity and superior thermoelectric performance. The reticular construction endows this material with ultra-light weight (0.28 g cm−3), ultra-low thermal conductivity (0.04 W m−1 K−1), moderate softness (0.03 MPa), and high elongation (>100%). The obtained network-based flexible thermoelectric generator achieves a pretty high output power of 4 μW cm−2, even comparable to state-of-the-art bulk-based flexible thermoelectric generators.
Single-cell transcriptomics reveals immune suppression and cell states predictive of patient outcomes in rhabdomyosarcoma
Authors: DeMartino Jeff , Meister Michael T. , Visser Lindy L. , Brok Mariël , Groot Koerkamp Marian J. A. , Wezenaar Amber K. L. , Hiemcke-Jiwa Laura S. , de Souza Terezinha , Merks Johannes H. M. , Rios Anne C. , Holstege Frank C. P. , Margaritis Thanasis , Drost Jarno 
Published: May 2023

AbstractPaediatric rhabdomyosarcoma (RMS) is a soft tissue malignancy of mesenchymal origin that is thought to arise as a consequence of derailed myogenic differentiation. Despite intensive treatment regimens, the prognosis for high-risk patients remains dismal. The cellular differentiation states underlying RMS and how these relate to patient outcomes remain largely elusive. Here, we use single-cell mRNA sequencing to generate a transcriptomic atlas of RMS. Analysis of the RMS tumour niche reveals evidence of an immunosuppressive microenvironment. We also identify a putative interaction between NECTIN3 and TIGIT, specific to the more aggressive fusion-positive (FP) RMS subtype, as a potential cause of tumour-induced T-cell dysfunction. In malignant RMS cells, we define transcriptional programs reflective of normal myogenic differentiation and show that these cellular differentiation states are predictive of patient outcomes in both FP RMS and the less aggressive fusion-negative subtype. Our study reveals the potential of therapies targeting the immune microenvironment of RMS and suggests that assessing tumour differentiation states may enable a more refined risk stratification.
An interpretable deep learning approach for designing nanoporous silicon nitride membranes with tunable mechanical properties
Authors: Shargh Ali K. , Abdolrahim Niaz 
Published: May 2023

AbstractThe high permeability and strong selectivity of nanoporous silicon nitride (NPN) membranes make them attractive in a broad range of applications. Despite their growing use, the strength of NPN membranes needs to be improved for further extending their biomedical applications. In this work, we implement a deep learning framework to design NPN membranes with improved or prescribed strength values. We examine the predictions of our framework using physics-based simulations. Our results confirm that the proposed framework is not only able to predict the strength of NPN membranes with a wide range of microstructures, but also can design NPN membranes with prescribed or improved strength. Our simulations further demonstrate that the microstructural heterogeneity that our framework suggests for the optimized design, lowers the stress concentration around the pores and leads to the strength improvement of NPN membranes as compared to conventional membranes with homogenous microstructures.
Extracting functionally accurate context-specific models of Atlantic salmon metabolism
Authors: Molversmyr Håvard , Øyås Ove , Rotnes Filip , Vik Jon Olav 
Published: May 2023

AbstractConstraint-based models (CBMs) are used to study metabolic network structure and function in organisms ranging from microbes to multicellular eukaryotes. Published CBMs are usually generic rather than context-specific, meaning that they do not capture differences in reaction activities, which, in turn, determine metabolic capabilities, between cell types, tissues, environments, or other conditions. Only a subset of a CBM’s metabolic reactions and capabilities are likely to be active in any given context, and several methods have therefore been developed to extract context-specific models from generic CBMs through integration of omics data. We tested the ability of six model extraction methods (MEMs) to create functionally accurate context-specific models of Atlantic salmon using a generic CBM (SALARECON) and liver transcriptomics data from contexts differing in water salinity (life stage) and dietary lipids. Three MEMs (iMAT, INIT, and GIMME) outperformed the others in terms of functional accuracy, which we defined as the extracted models’ ability to perform context-specific metabolic tasks inferred directly from the data, and one MEM (GIMME) was faster than the others. Context-specific versions of SALARECON consistently outperformed the generic version, showing that context-specific modeling better captures salmon metabolism. Thus, we demonstrate that results from human studies also hold for a non-mammalian animal and major livestock species.
De novo transcriptome assembly and annotation for gene discovery in Salamandra salamandra at the larval stage
Authors: Libro Pietro , Chiocchio Andrea , De Rysky Erika , Di Martino Jessica , Bisconti Roberta , Castrignanò Tiziana , Canestrelli Daniele 
Published: May 2023

AbstractDispersal is a key process in ecology and evolutionary biology, as it shapes biodiversity patterns over space and time. Attitude to disperse is unevenly distributed among individuals within populations, and that individual personality can have pivotal roles in the shaping of this attitude. Here, we assembled and annotated the first de novo transcriptome of the head tissues of Salamandra salamandra from individuals, representative of distinct behavioral profiles. We obtained 1,153,432,918 reads, which were successfully assembled and annotated. The high-quality of the assembly was confirmed by three assembly validators. The alignment of contigs against the de novo transcriptome led to a mapping percentage higher than 94%. The homology annotation with DIAMOND led to 153,048 (blastx) and 95,942 (blastp) shared contigs, annotated on NR, Swiss-Prot and TrEMBL. The domain and site protein prediction led to 9850 GO-annotated contigs. This de novo transcriptome represents reliable reference for comparative gene expression studies between alternative behavioral types, for comparative gene expression studies within Salamandra, and for whole transcriptome and proteome studies in amphibians.
Global trends and forecasts of breast cancer incidence and deaths
Authors: Xu Yuyan , Gong Maoyuan , Wang Yue , Yang Yang , Liu Shu , Zeng Qibing 
Published: May 2023

AbstractBreast cancer (BC) is one of the major public health challenges worldwide. Studies that address the new evidence on trends of BC are of great importance for preventing and controlling the occurrence and development of diseases and improving health. The aim of this study was to analyze the outcomes for the global burden of disease (GBD), incidence, deaths, and risk factors for BC from 1990 to 2019, and predict the GBD of BC until 2050 to inform global BC control planning efforts. In this study, the results show that the regions with low levels of socio-demographic index (SDI) will have the largest disease burden of BC in the future. The leading global risk factor for death attributable to BC in 2019 was metabolic risks, followed by behavioral risks. This study supports the worldwide urgent need for comprehensive cancer prevention and control strategies to reduce exposure, early screening, and improve treatment to effectively reduce the GBD of BC.
Dual synergistic inhibition of COX and LOX by potential chemicals from Indian daily spices investigated through detailed computational studies
Authors: Rudrapal Mithun , Eltayeb Wafa Ali , Rakshit Gourav , El-Arabey Amr Ahmed , Khan Johra , Aldosari Sahar M. , Alshehri Bader , Abdalla Mohnad 
Published: May 2023

AbstractCyclooxygenase (COX) and Lipoxygenase (LOX) are essential enzymes for arachidonic acid (AA) to eicosanoids conversion. These AA-derived eicosanoids are essential for initiating immunological responses, causing inflammation, and resolving inflammation. Dual COX/5-LOX inhibitors are believed to be promising novel anti-inflammatory agents. They inhibit the synthesis of prostaglandins (PGs) and leukotrienes (LTs), but have no effect on lipoxin formation. This mechanism of combined inhibition circumvents certain limitations for selective COX-2 inhibitors and spares the gastrointestinal mucosa. Natural products, i.e. spice chemicals and herbs, offer an excellent opportunity for drug discovery. They have proven anti-inflammatory properties. However, the potential of a molecule to be a lead/ drug candidate can be much more enhanced if it has the property of inhibition in a dual mechanism. Synergistic activity is always a better option than the molecule's normal biological activity. Herein, we have explored the dual COX/5-LOX inhibition property of the three major potent phytoconsituents (curcumin, capsaicin, and gingerol) from Indian spices using in silico tools and biophysical techniques in a quest to identify their probable inhibitory role as anti-inflammatory agents. Results revealed the dual COX/5-LOX inhibitory potential of curcumin. Gingerol and capsaicin also revealed favorable results as dual COX/5-LOX inhibitors. Our results are substantiated by target similarity studies, molecular docking, molecular dynamics, energy calculations, DFT, and QSAR studies. In experimental inhibitory (in vitro) studies, curcumin exhibited the best dual inhibitory activities against COX-1/2 and 5-LOX enzymes. Capsaicin and gingerol also showed inhibitory potential against both COX and LOX enzymes. In view of the anti-inflammatory potential these spice chemicals, this research could pave the way for more scientific exploration in this area for drug discovery.
Protease-inhibitors added to saliva in vitro influence the erosion protective effect of enamel pellicles
Authors: Baumann Tommy , Niemeyer Samira Helena , Buzalaf Marília Afonso Rabelo , Carvalho Thiago Saads 
Published: May 2023

AbstractIn contrast to pellicles formed in vivo, pellicles formed in vitro provide little to no erosion protection for enamel, possibly due to protein degradation from proteases during pellicle formation. With the objective to achieve a more similar effect as observed for in vivo pellicles, the effects of adding protease inhibitors (PI) to saliva in vitro, and/or exchanging saliva repeatedly during pellicle formation were investigated in a cyclic model of pellicle formation and erosion with human enamel specimens. We repeatedly assessed surface microhardness (SMH), measured initial and final surface reflection intensity (SRI), and determined calcium released during erosion. For all the parameters tested, we observed a clear positive effect on erosion protection when adding PI to saliva for pellicle formation: SMH remained harder, SRI remained higher, and less calcium was released. Additionally, exchanging saliva with fresh one during pellicle formation led to a protective effect, but not as strong as the addition of PI. We conclude that adding protease inhibitors to saliva in vitro for pellicle formation leads to an erosion protective effect, which was further increased by repeatedly exchanging the saliva. Whether the pellicle itself more closely resembles in vivo pellicles remains to be investigated.
A decision analysis model for material selection using simple ranking process
Authors: Zakeri Shervin , Chatterjee Prasenjit , Konstantas Dimitri , Ecer Fatih 
Published: May 2023

AbstractA large number of materials and various criteria fashion material selection problems as complex multi-criteria decision-making (MCDM) problems. This paper proposes a new decision-making method called the simple ranking process (SRP) to solve complex material selection problems. The accuracy of the criteria weights has a direct impact on the outcomes of the new method. In contrast to current MCDM methods, the normalization step has been eliminated from the SRP method as a potential source of producing incorrect results. The application of the method is appropriate for situations with high levels of complexity in material selection because it only considers the ranks of alternatives in each criterion. The first scenario of vital-immaterial mediocre method (VIMM) is used as a tool to derive criteria weights based on expert assessment. The result of SRP is compared with a number of MCDM methods. In order to evaluate the findings of analytical comparison, a novel statistical measure known as compromise decision index (CDI) is proposed in this paper. CDI revealed that the MCDM methods’ outputs for solving the material selection could not be theoretically proven and requires to be evaluated through practice. As a result, the dependency analysis-an additional innovative statistical measure is introduced to demonstrate the reliability of MCDM methods by assessing its dependency on criteria weights. The findings demonstrated that SRP is extremely reliant on criteria weights and its reliability rises with the number of criteria, making it a perfect tool for solving challenging MCDM problems.