bluuebunny/crossref_metadata_2025_split huggingface dataset:
On Information Granulation via Data Filtering for Granular Computing-Based Pattern Recognition: A Graph Embedding Case Study
Authors: Martino Alessio , De Santis Enrico , Rizzi Antonello 
Published: April 2023

AbstractGranular Computing is a powerful information processing paradigm, particularly useful for the synthesis of pattern recognition systems in structured domains (e.g., graphs or sequences). According to this paradigm, granules of information play the pivotal role of describing the underlying (possibly complex) process, starting from the available data. Under a pattern recognition viewpoint, granules of information can be exploited for the synthesis of semantically sound embedding spaces, where common supervised or unsupervised problems can be solved via standard machine learning algorithms. In this companion paper, we follow our previous paper (Martino et al. in Algorithms 15(5):148, 2022) in the context of comparing different strategies for the automatic synthesis of information granules in the context of graph classification. These strategies mainly differ on the specific topology adopted for subgraphs considered as candidate information granules and the possibility of using or neglecting the ground-truth class labels in the granulation process and, conversely, to our previous work, we employ a filtering-based approach for the synthesis of information granules instead of a clustering-based one. Computational results on 6 open-access data sets corroborate the robustness of our filtering-based approach with respect to data stratification, if compared to a clustering-based granulation stage.
Relationship Between Self-Reported Function, Functional Tests and Biomechanical Parameters in Patients 12 Months After Total Hip Arthroplasty: A Preliminary Cross-Sectional Study
Authors: John Stefanie , Esch Michael , Steinert Marvin , Witte Kerstin 
Published: April 2023

Abstract
Background/Purpose
Several methods are used to evaluate the outcome of total hip arthroplasty (THA), however, their relationship at different time points after surgery is unclear. The purpose of this exploratory study was to investigate correlations between self-report function, performance-based tests (PBTs) and biomechanical parameters in patients 12 months after THA.

Methods
Eleven patients were included in this preliminary cross-sectional study. Hip disability and Osteoarthritis Outcome Score (HOOS) was completed for self-reported function. As PBTs, the Timed-up-and-Go test (TUG) and 30-Second-Chair-Stand test (30CST) were used. Biomechanical parameters were derived from analyses of hip strength, gait and balance. Potential correlations were calculated using Spearman correlation coefficient r.

Results
HOOS scores and parameters of PBTs showed moderate to strong correlations (0.3 < r < 0.7). Correlation analysis between HOOS scores and biomechanical parameters revealed moderate to strong correlations for hip strength whereas correlations with gait parameters and balance were rather weak (r < 0.3). Moderate to strong correlations were also found between parameters of hip strength and 30CST.

Conclusion
For THA outcome assessment 12 months after surgery, our first results indicate that self-report measures or PBTs could be used. Analysis of hip strength also appears to be reflected in HOOS and PBT parameters and may be considered as an adjunct. Given the weak correlations with gait and balance parameters, we suggest that gait analysis and balance testing should be performed in addition to PROMs and PBTs as they may provide supplementary information, especially for THA patients that are at risk for falls.
Effect of titanium-dioxide nanoparticle on Richardson constant and barrier height of tartrazine dye based Schottky device
Authors: Karan Arnab Kanti , Sahoo Dipankar , Sen Sudipta , Rakshit Subhra , Manik Nabin Baran 
Published: April 2023

AbstractRecently Fruit Dyes have achieved a significant interest as organic devices because of they are widely available, customizable and biodegradable. But low conductivity is one of the major limitations. Low conductivity is due to low charge injection from the electrodes to the organic layer and the charge injection process is strongly dependent on the injection barrier height at the metal-dye interface. Higher barrier height causes low charge injection. A detailed analysis is needed to reduce the interfacial barrier to get better conductivity. In this work, we have estimated the interfacial barrier height of Indium tin oxide coated glass/Tartrazine dye/Copper based device with and without titanium dioxide nanoparticles. The devices have been prepared with dye and dye-nanoparticles blends by using the spin coating technique. We have measured the steady state dark current–voltage–temperature characteristics in the range of 288 K to 333 K to estimate the Richardson constant and interfacial barrier height. The Richardson constant was found to be modified from 44.35 × 10–3 to 07.34 × 10–3 Am−2 K−2. We also have found that interfacial barrier height is reduced from 0.71 eV to 0.64 eV in the presence of nanoparticles at room temperature. As the temperature increased, the interfacial barrier height increased to 0.72 eV from 0.71 eV and to 0.68 eV from 0.62 eV for dye based device with and without nanoparticles, respectively. Reduction of the interfacial barrier height indicates an increase in the charge injection through the interface. This work will be informative to improve the charge flow at the metal–fruit dye interface.
The First Genomic Characterization of the Chikungunya Virus in Saudi Arabia
Authors: Alguridi Hassan I. , Alzahrani Faisal , Altayb Hisham N. , Almalki Safar , Zaki Eitezaz , Algarni Saeed , Assiri Abdullah , Memish Ziad A. 
Published: April 2023

Abstract
Background
Chikungunya is an arboviral infection caused by the Chikungunya virus (CHIKV) transmitted to humans by mosquitoes of Aedes spp. CHIKV has been confined to African countries and South-East Asia up to 2004, but since then, the pathogen has become more global, and its high morbidity rate has become more visible. Saudi Arabia is not an endemic region of CHIKV, and the virus’s origin is not yet fully understood. This study aimed to characterize the genome of CHIKV from samples detected in Jeddah in 2018.

Method
Twenty-two sets of primers were designed to amplify near-full length genome of CHIKV. RT-PCR was conducted from clinical samples. Two samples were used for studying near complete genome sequence while the remaining samples were used to study the E1 gene. Different bioinformatics tools were utilized.

Results
Phylogenetic analysis showed that the CHIKV strains clustered with strains isolated from Kenya during 2017–2018 and belonged to ECSA genotype. E1: L136F, K211E and I317V mutations were identified in our strains. Also, E2: M74I, A76T, and V264A mutations were documented. Additionally, the capsid N79S substitution was also detected.

Conclusion
The genome of CHIKV was analyzed for the first time in Saudi Arabia to better understand the origin of the CHIKV and its genetic diversity, which showed high similarity with IE—a subclade of CHIKV strains detected in Mombasa (Kenya) indicating its possible origin.
Isotope Compositions of Century‐Long Corals Reveal Significant Dissolved Cu, Zn Fluxes From Human‐Accelerated Weathering Into the Ocean
Authors: Liu Yi , Chen Maoqing , Zhang Ting , Zhang Rui , Cao Fei , Sun Shaobo , Zheng Wang , Sun Ruoyu , Chen Jiubin 
Published: April 2023

AbstractHuman activities have liberated substantial amounts of biologically active metals into oceans. However, identifying the sources and migration processes of these metals is challenging. Here we present first century‐long records of concentrations and isotope compositions of Zn and Cu (δ66Zn and δ65Cu) in two corals from the northern South China Sea. The results show dramatic enrichment in coral Zn and Cu concentrations since the 1980s, which coincide with δ66Zn and δ65Cu increases. Coupled with concurrent land use/cover changes, we suggest that the enrichment trends of Cu and Zn in corals are best explained by human‐induced rock weathering and soil erosion, which transferred isotopically heavy Zn and Cu fluxes into the coastal ocean. The metal releases due to land use/cover changes relative to direct anthropogenic sources could be even more significant in the future given that anthropogenic releases have been legally controlled and started to decline in recent decades.
The June 2012 North American Derecho: A Testbed for Evaluating Regional and Global Climate Modeling Systems at Cloud‐Resolving Scales
Authors: Liu W. , Ullrich P. A. , Li J. , Zarzycki C. , Caldwell P. M. , Leung L. R. , Qian Y. 
Published: April 2023

AbstractIn this paper, we introduce a testbed for evaluating and comparing climate modeling systems at cloud resolving scales using hindcasts of the June 2012 North American derecho. To demonstrate its utility for model intercomparison, the testbed is applied to two models: the regionally‐refined Simple Cloud‐Resolving E3SM Atmosphere Model (SCREAM) at 6.5, 3.25 and 1.625 km grid spacing and the Weather Research and Forecasting (WRF) model with 3.2 and 1.6 km grid spacing. We find the simulation results to be highly sensitive to the initial conditions (ICs), initialization time, and model configurations, with ICs from the Rapid Refresh producing the best simulation. Significant improvement is identified in both models as horizontal grid spacing is refined. While a propagation delay of approximately 2 hr is found in both models, SCREAM at 1.625 km simulates the observed bow echo structure of the derecho well and predicts strong surface gusts that exceed 30 m/s. In comparison, WRF has difficulty producing surface wind over 25 m/s, with wind gusts in WRF 42%–46% lower than in SCREAM. However, WRF has a lower bias in simulating cloud top temperature and extent, but overestimates precipitation intensity. Both models reproduce the observed outgoing longwave radiation spatial patterns well (Pearson correlation >0.88), but, compared with NEXRAD observations, simulate generally larger areas of composite radar reflectivity >40 dBZ and underestimate the precipitating area by ∼47%.
New Middle Jurassic Paleomagnetic and Geochronologic Results From the Lhasa Terrane: Contributions to the Closure of the Meso‐Tethys Ocean and Jurassic True Polar Wander
Authors: Wang Suo , Yang Tianshui , Ma Jiahui , Bian Weiwei , Jiao Xianwei , Han Fei , Liang Jiacheng , Zhang Shihong , Wu Huaichun , Li Haiyan , Ma Yiming 
Published: April 2023

AbstractThe drift history of the Lhasa terrane is crucial for understanding the tectonic evolution of Tethyan Oceans and Jurassic true polar wander. However, high‐quality Middle Jurassic paleomagnetic data from the Lhasa terrane are limited in number. Here we report a combined paleomagnetic and geochronologic study on the Yeba Formation volcanic rocks, dated at ∼170 Ma, from the Lhasa terrane. Robust field and reversal tests indicate that the characteristic remanent magnetizations are primary. Our results provide a reliable Middle Jurassic (∼170 Ma) paleopole at 29.8°N, 180.7°E with A95 = 5.7° and a paleolatitude of 14.4 ± 5.7°N for the Lhasa area. Compared with previous paleomagnetic and geologic evidence, we propose that the Meso‐Tethys Ocean probably began to close in the eastern part at ∼168 Ma and that the Lhasa terrane underwent a ∼2,900 km southward “monster shift” during the Late Jurassic.
Lentinan confers protection against type 1 diabetes by inducing regulatory T cell in spontaneous non-obese diabetic mice
Authors: Wu Tijun , Cai Zhi , Niu Fandi , Qian Bin , Sun Peng , Yang Nan , Pang Jing , Mei Hongliang , Chang Xiaoai , Chen Fang , Zhu Yunxia , Li Yating , Wu Fu-Gen , Zhang Yaqin , Lei Ting , Han Xiao 
Published: April 2023

Abstract
Background
Lentinan (LNT) is a complex fungal component that possesses effective antitumor and immunostimulating properties. However, there is a paucity of studies regarding the effects and mechanisms of LNT on type 1 diabetes.

Objective
In the current study, we investigated whether an intraperitoneal injection of LNT can diminish the risk of developing type 1 diabetes (T1D) in non-obese diabetic (NOD) mice and further examined possible mechanisms of LNT’s effects. Methods: Pre-diabetic female NOD mice 8 weeks of age, NOD mice with 140–160 mg/dL, 200–230 mg/dL or 350–450 mg/dL blood glucose levels were randomly divided into two groups and intraperitoneally injected with 5 mg/kg LNT or PBS every other day. Then, blood sugar levels, pancreas slices, spleen, PnLN and pancreas cells from treatment mice were examined.

Results
Our results demonstrated that low-dosage injections (5 mg/kg) of LNT significantly suppressed immunopathology in mice with autoimmune diabetes but increased the Foxp3+ regulatory T cells (Treg cells) proportion in mice. LNT treatment induced the production of Tregs in the spleen and PnLN cells of NOD mice in vitro. Furthermore, the adoptive transfer of Treg cells extracted from LNT-treated NOD mice confirmed that LNT induced Treg function in vivo and revealed an enhanced suppressive capacity as compared to the Tregs isolated from the control group.

Conclusion
LNT was capable of stimulating the production of Treg cells from naive CD4 + T cells, which implies that LNT exhibits therapeutic values as a tolerogenic adjuvant and may be used to reverse hyperglycaemia in the early and late stages of T1D.
Deducing subnanometer cluster size and shape distributions of heterogeneous supported catalysts
Authors: Liao Vinson , Cohen Maximilian , Wang Yifan , Vlachos Dionisios G. 
Published: April 2023

AbstractInfrared (IR) spectra of adsorbate vibrational modes are sensitive to adsorbate/metal interactions, accurate, and easily obtainable in-situ or operando. While they are the gold standards for characterizing single-crystals and large nanoparticles, analogous spectra for highly dispersed heterogeneous catalysts consisting of single-atoms and ultra-small clusters are lacking. Here, we combine data-based approaches with physics-driven surrogate models to generate synthetic IR spectra from first-principles. We bypass the vast combinatorial space of clusters by determining viable, low-energy structures using machine-learned Hamiltonians, genetic algorithm optimization, and grand canonical Monte Carlo calculations. We obtain first-principles vibrations on this tractable ensemble and generate single-cluster primary spectra analogous to pure component gas-phase IR spectra. With such spectra as standards, we predict cluster size distributions from computational and experimental data, demonstrated in the case of CO adsorption on Pd/CeO2(111) catalysts, and quantify uncertainty using Bayesian Inference. We discuss extensions for characterizing complex materials towards closing the materials gap.
Endothelial FAT1 inhibits angiogenesis by controlling YAP/TAZ protein degradation via E3 ligase MIB2
Authors: Li Rui , Shao Jingchen , Jin Young-June , Kawase Haruya , Ong Yu Ting , Troidl Kerstin , Quan Qi , Wang Lei , Bonnavion Remy , Wietelmann Astrid , Helmbacher Francoise , Potente Michael , Graumann Johannes , Wettschureck Nina , Offermanns Stefan 
Published: April 2023

AbstractActivation of endothelial YAP/TAZ signaling is crucial for physiological and pathological angiogenesis. The mechanisms of endothelial YAP/TAZ regulation are, however, incompletely understood. Here we report that the protocadherin FAT1 acts as a critical upstream regulator of endothelial YAP/TAZ which limits the activity of these transcriptional cofactors during developmental and tumor angiogenesis by promoting their degradation. We show that loss of endothelial FAT1 results in increased endothelial cell proliferation in vitro and in various angiogenesis models in vivo. This effect is due to perturbed YAP/TAZ protein degradation, leading to increased YAP/TAZ protein levels and expression of canonical YAP/TAZ target genes. We identify the E3 ubiquitin ligase Mind Bomb-2 (MIB2) as a FAT1-interacting protein mediating FAT1-induced YAP/TAZ ubiquitination and degradation. Loss of MIB2 expression in endothelial cells in vitro and in vivo recapitulates the effects of FAT1 depletion and causes decreased YAP/TAZ degradation and increased YAP/TAZ signaling. Our data identify a pivotal mechanism of YAP/TAZ regulation involving FAT1 and its associated E3 ligase MIB2, which is essential for YAP/TAZ-dependent angiogenesis.
MOZ/ENL complex is a recruiting factor of leukemic AF10 fusion proteins
Authors: Komata Yosuke , Kanai Akinori , Maeda Takahiro , Inaba Toshiya , Yokoyama Akihiko 
Published: April 2023

AbstractChanges in the transcriptional machinery cause aberrant self-renewal of non-stem hematopoietic progenitors. AF10 fusions, such as CALM-AF10, are generated via chromosomal translocations, causing malignant leukemia. In this study, we demonstrate that AF10 fusion proteins cause aberrant self-renewal via ENL, which binds to MOZ/MORF lysine acetyltransferases (KATs). The interaction of ENL with MOZ, via its YEATS domain, is critical for CALM-AF10-mediated leukemic transformation. The MOZ/ENL complex recruits DOT1L/AF10 fusion complexes and maintains their chromatin retention via KAT activity. Therefore, inhibitors of MOZ/MORF KATs directly suppress the functions of AF10 fusion proteins, thereby exhibiting strong antitumor effects on AF10 translocation-induced leukemia. Combinatorial inhibition of MOZ/MORF and DOT1L cooperatively induces differentiation of CALM-AF10-leukemia cells. These results reveal roles for the MOZ/ENL complex as an essential recruiting factor of the AF10 fusion/DOT1L complex, providing a rationale for using MOZ/MORF KAT inhibitors in AF10 translocation-induced leukemia.
Single-component multilayered self-assembling protein nanoparticles presenting glycan-trimmed uncleaved prefusion optimized envelope trimers as HIV-1 vaccine candidates
Authors: Zhang Yi-Nan , Paynter Jennifer , Antanasijevic Aleksandar , Allen Joel D. , Eldad Mor , Lee Yi-Zong , Copps Jeffrey , Newby Maddy L. , He Linling , Chavez Deborah , Frost Pat , Goodroe Anna , Dutton John , Lanford Robert , Chen Christopher , Wilson Ian A. , Crispin Max , Ward Andrew B. , Zhu Jiang 
Published: April 2023

AbstractUncleaved prefusion-optimized (UFO) design can stabilize diverse HIV-1 envelope glycoproteins (Envs). Single-component, self-assembling protein nanoparticles (1c-SApNP) can display 8 or 20 native-like Env trimers as vaccine candidates. We characterize the biophysical, structural, and antigenic properties of 1c-SApNPs that present the BG505 UFO trimer with wildtype and modified glycans. For 1c-SApNPs, glycan trimming improves recognition of the CD4 binding site without affecting broadly neutralizing antibodies (bNAbs) to major glycan epitopes. In mice, rabbits, and nonhuman primates, glycan trimming increases the frequency of vaccine responders (FVR) and steers antibody responses away from immunodominant glycan holes and glycan patches. The mechanism of vaccine-induced immunity is examined in mice. Compared with the UFO trimer, the multilayered E2p and I3-01v9 1c-SApNPs show 420 times longer retention in lymph node follicles, 20-32 times greater presentation on follicular dendritic cell dendrites, and up-to-4 times stronger germinal center reactions. These findings can inform future HIV-1 vaccine development.
Trimming the genomic fat: minimising and re-functionalising genomes using synthetic biology
Authors: Xu Xin , Meier Felix , Blount Benjamin A. , Pretorius Isak S. , Ellis Tom , Paulsen Ian T. , Williams Thomas C. 
Published: April 2023

AbstractNaturally evolved organisms typically have large genomes that enable their survival and growth under various conditions. However, the complexity of genomes often precludes our complete understanding of them, and limits the success of biotechnological designs. In contrast, minimal genomes have reduced complexity and therefore improved engineerability, increased biosynthetic capacity through the removal of unnecessary genetic elements, and less recalcitrance to complete characterisation. Here, we review the past and current genome minimisation and re-functionalisation efforts, with an emphasis on the latest advances facilitated by synthetic genomics, and provide a critical appraisal of their potential for industrial applications.
Multi-parameter e-skin based on biomimetic mechanoreceptors and stress field sensing
Authors: Shang Chao , Xu Qunhui , Liang Nengmin , Zhang Jianpeng , Li Lu , Peng Zhengchun 
Published: April 2023

AbstractTactile sensing has been a key challenge in robotic haptics. Inspired by how human skin sense the stress field with layered structure and distributed mechanoreceptors, we herein propose a design for modular multi-parameter perception electronic skin. With the stress field sensing concept, complex tactile signals can be transformed into field information. By analyzing the stress field, the real-time three-dimensional forces can be resolved with 1.8° polar angle resolution and 3.5° azimuthal angle resolution (achieved up to 71 folds of improvement in spatial resolution), we can also detect the hardness of object in contact with the electronic skin. Moreover, we demonstrate random assembly of the sensing arrays and integration of our electronic skin onto differently curved surfaces do not lead to any measurement variation of the stress field. This result reveals that the sensing elements in our electronic skin system can be modularly made and exchanged for specific applications.
The Queensland Twin Adolescent Brain Project, a longitudinal study of adolescent brain development
Authors: Strike Lachlan T. , Hansell Narelle K. , Chuang Kai-Hsiang , Miller Jessica L. , de Zubicaray Greig I. , Thompson Paul M. , McMahon Katie L. , Wright Margaret J. 
Published: April 2023

AbstractWe describe the Queensland Twin Adolescent Brain (QTAB) dataset and provide a detailed methodology and technical validation to facilitate data usage. The QTAB dataset comprises multimodal neuroimaging, as well as cognitive and mental health data collected in adolescent twins over two sessions (session 1: N = 422, age 9–14 years; session 2: N = 304, 10–16 years). The MRI protocol consisted of T1-weighted (MP2RAGE), T2-weighted, FLAIR, high-resolution TSE, SWI, resting-state fMRI, DWI, and ASL scans. Two fMRI tasks were added in session 2: an emotional conflict task and a passive movie-watching task. Outside of the scanner, we assessed cognitive function using standardised tests. We also obtained self-reports of symptoms for anxiety and depression, perceived stress, sleepiness, pubertal development measures, and risk and protective factors. We additionally collected several biological samples for genomic and metagenomic analysis. The QTAB project was established to promote health-related research in adolescence.
A standardized catalogue of spectral indices to advance the use of remote sensing in Earth system research
Authors: Montero David , Aybar César , Mahecha Miguel D. , Martinuzzi Francesco , Söchting Maximilian , Wieneke Sebastian 
Published: April 2023

AbstractSpectral Indices derived from multispectral remote sensing products are extensively used to monitor Earth system dynamics (e.g. vegetation dynamics, water bodies, fire regimes). The rapid increase of proposed spectral indices led to a high demand for catalogues of spectral indices and tools for their computation. However, most of these resources are either closed-source, outdated, unconnected to a catalogue or lacking a common Application Programming Interface (API). Here we present “Awesome Spectral Indices” (ASI), a standardized catalogue of spectral indices for Earth system research. ASI provides a comprehensive machine readable catalogue of spectral indices, which is linked to a Python library. ASI delivers a broad set of attributes for each spectral index, including names, formulas, and source references. The catalogue can be extended by the user community, ensuring that ASI remains current and enabling a wider range of scientific applications. Furthermore, the Python library enables the application of the catalogue to real-world data and thereby facilitates the efficient use of remote sensing resources in multiple Earth system domains.