bluuebunny/crossref_metadata_2025_split huggingface dataset:
Myotonic dystrophy RNA toxicity alters morphology, adhesion and migration of mouse and human astrocytes
Authors: Dincã Diana M. , Lallemant Louison , González-Barriga Anchel , Cresto Noémie , Braz Sandra O. , Sicot Géraldine , Pillet Laure-Elise , Polvèche Hélène , Magneron Paul , Huguet-Lachon Aline , Benyamine Hélène , Azotla-Vilchis Cuauhtli N. , Agonizantes-Juárez Luis E. , Tahraoui-Bories Julie , Martinat Cécile , Hernández-Hernández Oscar , Auboeuf Didier , Rouach Nathalie , Bourgeois Cyril F. , Gourdon Geneviève , Gomes-Pereira Mário 
Published: July 2022

AbstractBrain dysfunction in myotonic dystrophy type 1 (DM1), the prototype of toxic RNA disorders, has been mainly attributed to neuronal RNA misprocessing, while little attention has been given to non-neuronal brain cells. Here, using a transgenic mouse model of DM1 that expresses mutant RNA in various brain cell types (neurons, astroglia, and oligodendroglia), we demonstrate that astrocytes exhibit impaired ramification and polarization in vivo and defects in adhesion, spreading, and migration. RNA-dependent toxicity and phenotypes are also found in human transfected glial cells. In line with the cell phenotypes, molecular analyses reveal extensive expression and accumulation of toxic RNA in astrocytes, which result in RNA spliceopathy that is more severe than in neurons. Astrocyte missplicing affects primarily transcripts that regulate cell adhesion, cytoskeleton, and morphogenesis, and it is confirmed in human brain tissue. Our findings demonstrate that DM1 impacts astrocyte cell biology, possibly compromising their support and regulation of synaptic function.
Magnetic freeze-out and anomalous Hall effect in ZrTe5
Authors: Gourgout Adrien , Leroux Maxime , Smirr Jean-Loup , Massoudzadegan Maxime , Lobo Ricardo P. S. M. , Vignolles David , Proust Cyril , Berger Helmuth , Li Qiang , Gu Genda , Homes Christopher C. , Akrap Ana , Fauqué Benoît 
Published: July 2022

AbstractThe ultra-quantum limit is achieved when a magnetic field confines an electron gas in its lowest spin-polarised Landau level. Here we show that in this limit, electron doped ZrTe5 shows a metal-insulator transition followed by a sign change of the Hall and Seebeck effects at low temperature. We attribute this transition to a magnetic freeze-out of charge carriers on the ionized impurities. The reduction of the charge carrier density gives way to an anomalous Hall response of the spin-polarised electrons. This behavior, at odds with the usual magnetic freeze-out scenario, occurs in this Dirac metal because of its tiny Fermi energy, extremely narrow band gap and a large g-factor. We discuss the different possible sources (intrinsic or extrinsic) for this anomalous Hall contribution.
Heavy metal and organic dye removal via a hybrid porous hexagonal boron nitride-based magnetic aerogel
Authors: Krishna Kumar A. Santhana , Warchol Jolanta , Matusik Jakub , Tseng Wei-Lung , Rajesh N. , Bajda Tomasz 
Published: July 2022

AbstractNumerous adsorbents have been introduced to efficiently remove heavy metals and organic dyes from environmental water samples. However, magnetic a porous network aerogels are rarely developed to capture inorganic and organic pollutants from aqueous. We herein fabricated hexagonal boron nitride nanosheets (h-BNNSs)-based on magnetic hybrid aerogels (MHAs) as a lightweight adsorbent for robust uptake of Cr(VI), As(V), methylene blue (MB) and acid orange (AO). The synthetic procedure of poly(ethyleneimine)-modified h-BNNSs (PEI-h-BNNSs) involved thermal poly condensation of melamine and boric acid, pyrolysis of the resultant products which allowed exfoliated by ultra-sonication process further functionalization with PEI-mediated modification of h-BNNSs. The as formed PEI-h-BNNSs allowed in-situ formation of magnetite nanoparticles (Fe3O4 NPs) decorated on their surfaces, which are turned to be PEI-h-BNNSs@Fe3O4 NPs. The lyophilization treatment of PEI-h-BNNSs@Fe3O4 NPs-loaded PVA hydrogels generated the MHAs with large porous structures, diverse and numerous functional groups, good super-paramagnetic and a zero net surface charge. These features enabled the proposed adsorbent (MHAs) to be utilized to efficiently remove Cr(VI), As(V), MB, and AO from an aqueous solution, with maximum adsorption capacity estimated to be 833, 426, 415, 286 mg g−1, respectively. The adsorption kinetics and isotherm data demonstrated that MHAs mediated adsorption of Cr(VI), As(V), MB and AO followed the Freundlich isotherm model and a pseudo-second-order kinetics model. This finding signifies that the MHAs exhibit heterogeneous binding behavior with multilayer chemisorption of Cr(VI), As(V), MB and AO. Subsequently, the practical application were validated by conducting their detoxification of chromium and arsenic in soli-sludge samples.
Oxford Nanopore R10.4 long-read sequencing enables the generation of near-finished bacterial genomes from pure cultures and metagenomes without short-read or reference polishing
Authors: Sereika Mantas , Kirkegaard Rasmus Hansen , Karst Søren Michael , Michaelsen Thomas Yssing , Sørensen Emil Aarre , Wollenberg Rasmus Dam , Albertsen Mads 
Published: July 2022

AbstractLong-read Oxford Nanopore sequencing has democratized microbial genome sequencing and enables the recovery of highly contiguous microbial genomes from isolates or metagenomes. However, to obtain near-finished genomes it has been necessary to include short-read polishing to correct insertions and deletions derived from homopolymer regions. Here, we show that Oxford Nanopore R10.4 can be used to generate near-finished microbial genomes from isolates or metagenomes without short-read or reference polishing.
Methyl probes in proteins for determining ligand binding mode in weak protein–ligand complexes
Authors: Mohanty Biswaranjan , Orts Julien , Wang Geqing , Nebl Stefan , Alwan Wesam S. , Doak Bradley C. , Williams Martin L. , Heras Begoña , Mobli Mehdi , Scanlon Martin J. 
Published: July 2022

AbstractStructures of protein–ligand complexes provide critical information for drug design. Most protein–ligand complex structures are determined using X-ray crystallography, but where crystallography is not able to generate a structure for a complex, NMR is often the best alternative. However, the available tools to enable rapid and robust structure determination of protein–ligand complexes by NMR are currently limited. This leads to situations where projects are either discontinued or pursued without structural data, rendering the task more difficult. We previously reported the NMR Molecular Replacement (NMR2) approach that allows the structure of a protein–ligand complex to be determined without requiring the cumbersome task of protein resonance assignment. Herein, we describe the NMR2 approach to determine the binding pose of a small molecule in a weak protein–ligand complex by collecting sparse protein methyl-to-ligand NOEs from a selectively labeled protein sample and an unlabeled ligand. In the selective labeling scheme all methyl containing residues of the protein are protonated in an otherwise deuterated background. This allows measurement of intermolecular NOEs with greater sensitivity using standard NOESY pulse sequences instead of isotope-filtered NMR experiments. This labelling approach is well suited to the NMR2 approach and extends its utility to include larger protein–ligand complexes.
Decadal trends in 137Cs concentrations in the bark and wood of trees contaminated by the Fukushima nuclear accident
Authors: Ohashi Shinta , Kuroda Katsushi , Abe Hisashi , Kagawa Akira , Komatsu Masabumi , Sugiyama Masaki , Suzuki Youki , Fujiwara Takeshi , Takano Tsutomu 
Published: July 2022

AbstractUnderstanding the actual situation of radiocesium (137Cs) contamination of trees caused by the Fukushima nuclear accident is essential for predicting the future contamination of wood. Particularly important is determining whether the 137Cs dynamics within forests and trees have reached apparent steady state. We conducted a monitoring survey of four major tree species (Japanese cedar, Japanese cypress, konara oak, and Japanese red pine) at multiple sites. Using a dynamic linear model, we analyzed the temporal trends in 137Cs activity concentrations in the bark (whole), outer bark, inner bark, wood (whole), sapwood, and heartwood during the 2011–2020 period. The activity concentrations were decay-corrected to September 1, 2020, to exclude the decrease due to the radioactive decay. The 137Cs concentrations in the whole and outer bark samples showed an exponential decrease in most plots but a flat trend in one plot, where 137Cs root uptake is considered to be high. The 137Cs concentration ratio (CR) of inner bark/sapwood showed a flat trend but the CR of heartwood/sapwood increased in many plots, indicating that the 137Cs dynamics reached apparent steady state within one year in the biologically active parts (inner bark and sapwood) and after several to more than 10 years in the inactive part (heartwood). The 137Cs concentration in the whole wood showed an increasing trend in six plots. In four of these plots, the increasing trend shifted to a flat or decreasing trend. Overall, the results show that the 137Cs dynamics within forests and trees have reached apparent steady state in many plots, although the amount of 137Cs root uptake in some plots is possibly still increasing 10 years after the accident. Clarifying the mechanisms and key factors determining the amount of 137Cs root uptake will be crucial for predicting wood contamination.
A network analysis reveals the interaction between fear and physical features in people with neck pain
Authors: Devecchi Valter , Alalawi Ahmed , Liew Bernard , Falla Deborah 
Published: July 2022

AbstractAlthough neck pain is known to be a complex and multifactorial condition characterised by the interplay between physical and psychological domains, a comprehensive investigation examining the interactions across multiple features is still lacking. In this study, we aimed to unravel the structure of associations between physical measures of neuromuscular function and fear of movement in people with a history of neck pain. One hundred participants (mean age 33.3 ± 9.4) were assessed for this cross-sectional study, and the neuromuscular and kinematic features investigated were the range of motion, velocity of neck movement, smoothness of neck movement, neck proprioception (measured as the joint reposition error), and neck flexion and extension strength. The Tampa Scale for Kinesiophobia was used to assess fear of movement. A network analysis was conducted to estimate the associations across features, as well as the role of each feature in the network. The estimated network revealed that fear of movement and neuromuscular/kinematic features were conditionally dependent. Higher fear of movement was associated with a lower range of motion, velocity, smoothness of neck movement, neck muscle strength, and proprioception (partial correlations between − 0.05 and − 0.12). Strong interactions were also found between kinematics features, with partial correlations of 0.39 and 0.58 between the range of motion and velocity, and between velocity and smoothness, respectively. The velocity of neck movement was the most important feature in the network since it showed the highest strength value. Using a novel approach to analysis, this study revealed that fear of movement can be associated with a spectrum of neuromuscular/kinematic adaptations in people with a history of neck pain.
Comprehensive multi-cohort transcriptional meta-analysis of muscle diseases identifies a signature of disease severity
Authors: Walsh C. J. , Batt J. , Herridge M. S. , Mathur S. , Bader G. D. , Hu P. , Khatri P. , dos Santos C. C. 
Published: July 2022

AbstractMuscle diseases share common pathological features suggesting common underlying mechanisms. We hypothesized there is a common set of genes dysregulated across muscle diseases compared to healthy muscle and that these genes correlate with severity of muscle disease. We performed meta-analysis of transcriptional profiles of muscle biopsies from human muscle diseases and healthy controls. Studies obtained from public microarray repositories fulfilling quality criteria were divided into six categories: (i) immobility, (ii) inflammatory myopathies, (iii) intensive care unit (ICU) acquired weakness (ICUAW), (iv) congenital muscle diseases, (v) chronic systemic diseases, (vi) motor neuron disease. Patient cohorts were separated in discovery and validation cohorts retaining roughly equal proportions of samples for the disease categories. To remove bias towards a specific muscle disease category we repeated the meta-analysis five times by removing data sets corresponding to one muscle disease class at a time in a “leave-one-disease-out” analysis. We used 636 muscle tissue samples from 30 independent cohorts to identify a 52 gene signature (36 up-regulated and 16 down-regulated genes). We validated the discriminatory power of this signature in 657 muscle biopsies from 12 additional patient cohorts encompassing five categories of muscle diseases with an area under the receiver operating characteristic curve of 0.91, 83% sensitivity, and 85.3% specificity. The expression score of the gene signature inversely correlated with quadriceps muscle mass (r = −0.50, p-value = 0.011) in ICUAW and shoulder abduction strength (r = −0.77, p-value = 0.014) in amyotrophic lateral sclerosis (ALS). The signature also positively correlated with histologic assessment of muscle atrophy in ALS (r = 0.88, p-value = 1.62 × 10–3) and fibrosis in muscular dystrophy (Jonckheere trend test p-value = 4.45 × 10–9). Our results identify a conserved transcriptional signature associated with clinical and histologic muscle disease severity. Several genes in this conserved signature have not been previously associated with muscle disease severity.
Highly improved light harvesting and photovoltaic performance in CdTe solar cell with functional designed 1D-photonic crystal via light management engineering
Authors: Çetinkaya Çağlar , Çokduygulular Erman , Kınacı Barış , Güzelçimen Feyza , Özen Yunus , Sönmez Nihan Akın , Özçelik Süleyman 
Published: July 2022

AbstractPhotonic-based functional designs and integrations for advanced optoelectronic devices are regarded as promising candidates considering the enhancement of efficiency and tunability. With the aim to improve photovoltaic performance by increasing photon harvesting, the study presents the prominent findings of experimental and theoretical comparison of optical and electrical evaluation integrating a functionally designed one-dimension photonic crystal (1D-PC) into CdTe solar cells. Since transparency of the CdS/CdTe heterojunction based solar cell (SC) is reduced by a photonic band gap formed by (MgF2/MoO3)N 1D-PC; namely, re-harvesting is improved by increasing absorbance. The period number at resonance wavelength of 850 nm and photocurrent density ($${J}_{ph}$$

J

ph

) have remarkable influence on the investigation. For four periods, the reflectance in the region of photonic band gap is sufficient for photon harvesting and saturation occurs. The photovoltaic performances are comparatively analysed for SCs with and without 1D-PC produced at optimal values. The open-circuit voltage does not change, besides, short-circuit current density and maximum-current density vary between 15.86–17.23 mA cm−2 and, 13.08–15.41 mA cm−2. Having integrated the 1D-PC into the structure, it is concluded that the FF and power conversion efficiency increase from 55.27 to 63.35% with an improvement of 15.91% and, from 8.26 to 10.47% with an improvement of 21.10%.
A Casson nanofluid flow within the conical gap between rotating surfaces of a cone and a horizontal disc
Authors: Moatimid Galal M. , Mohamed Mona A. A. , Elagamy Khaled 
Published: July 2022

AbstractThe present study highlights the flow of an incompressible nanofluid following the non-Newtonian flow. The non-Newtonian fluid behavior is characterized by the Casson prototype. The flow occupies the conical gap between the rotating/stationary surfaces of the cone and the horizontal disc. Heat and mass transfer is also considered. The novelty of the proposed mathematical model is supplemented with the impacts of a uniform magnetic field imposed vertically upon the flow together with Ohmic dissipation and chemical reactions. The constitutive equations of the Casson fluid have been interpreted along with the cylindrical coordinates. The governing partial differential equations of momentum, energy, and concentration are converted into a set of nonlinear ordinary differential equations via appropriate similarity transformations. This scheme leads to a set of coupled nonlinear ordinary equations concerning velocity, temperature, and nanoparticles concentration distributions. These equations are analytically solved by means of the Homotopy perturbation method (HPM). The theoretical findings are presented in both graphical and tabular forms. The main objective of this study is to discuss the effects of the rotations of both cone and disc and the effects of the other parameters in the two cases of rotation alternatively. Additionally, the effect of the angle between the cone and the disk is one of our interesting points because of the importance of its effect in some engineering industry applications. The rotation parameters are found to have reduction effects on both the temperature and the radial velocity of the fluid, while they have an enhancing effect on the azimuthal velocity. The effects of other parameters with these rotations are found to be qualitatively the same as some earlier published studies. To validate the current mathematical model, a comparison with the previous scientific reports is made.
Redox-sensitive doxorubicin liposome: a formulation approach for targeted tumor therapy
Authors: Mirhadi Elaheh , Mashreghi Mohammad , Askarizadeh Anis , Mehrabian Amin , Alavizadeh Seyedeh Hoda , Arabi Leila , Badiee Ali , Jaafari Mahmoud Reza 
Published: July 2022

AbstractIn this study redox-sensitive (RS) liposomes manufactured using 10,10′-diselanediylbis decanoic acid (DDA), an organoselenium RS compound, to enhance the therapeutic performance of doxorubicin (Dox). The DDA structure was confirmed by 1H NMR and LC–MS/MS. Various liposomal formulations (33 formulations) were prepared using DOPE, Egg PC, and DOPC with Tm ˂ 0 and DDA. Some formulations had mPEG2000-DSPE and cholesterol. After extrusion, the external phase was exchanged with sodium bicarbonate to create a pH gradient. Then, Dox was remotely loaded into liposomes. The optimum formulations indicated a burst release of 30% in the presence of 0.1% hydrogen peroxide at pH 6.5, thanks to the redox-sensitive role of DDA moieties; conversely, Caelyx (PEGylated liposomal Dox) showed negligible release at this condition. RS liposomes consisting of DOPE/Egg PC/DDA at 37.5 /60/2.5% molar ratio, efficiently inhibited C26 tumors among other formulations. The release of Dox from RS liposomes in the TME through the DDA link fracture triggered by ROS or glutathione is seemingly the prerequisite for the formulations to exert their therapeutic action. These findings suggest the potential application of such intelligent formulations in the treatment of various malignancies where the TME redox feature could be exploited to achieve an improved therapeutic response.
Stiffness estimation of planar spiral spring based on Gaussian process regression
Authors: Liu Jingjing , Abu Osman Noor Azuan , Al Kouzbary Mouaz , Al Kouzbary Hamza , Abd Razak Nasrul Anuar , Shasmin Hanie Nadia , Arifin Nooranida 
Published: July 2022

AbstractPlanar spiral spring is important for the dimensional miniaturisation of motor-based elastic actuators. However, when the stiffness calculation of the spring arm is based on simple beam bending theory, the results possess substantial errors compared with the stiffness obtained from finite-element analysis (FEA). It deems that the errors arise from the spiral length term in the calculation formula. Two Gaussian process regression models are trained to amend this term in the stiffness calculation of spring arm and complete spring. For the former, 216 spring arms’ data sets, including different spiral radiuses, pitches, wrap angles and the stiffness from FEA, are employed for training. The latter engages 180 double-arm springs’ data sets, including widths instead of wrap angles. The simulation of five spring arms and five planar spiral springs with arbitrary dimensional parameters verifies that the absolute values of errors between the predicted stiffness and the stiffness from FEA are reduced to be less than 0.5% and 2.8%, respectively. A planar spiral spring for a powered ankle–foot prosthesis is designed and manufactured to verify further, of which the predicted value possesses a 3.25% error compared with the measured stiffness. Therefore, the amendment based on the prediction of trained models is available.
Numerical simulation and experimental evaluation of flow ripple characteristics of Truninger pump
Authors: Liang Yundong , Chen Zongbin , Liao Jian 
Published: July 2022

AbstractCompared with involute internal gear pumps and gerotor pumps, lower flow ripple is the main advantage of Truninger pumps. Understanding the flow ripple mechanism and characteristics is of great significance to guide the design and manufacture of this type of pump. In this paper, the theoretical flow ripple and flow ripple rate expressions of the pump are derived based on the vector ray method, and the effects of variations of the design parameters of the pump on the theoretical flow ripple characteristics are studied. A three-dimensional numerical simulation model was established in Simerics-MP+ that accounted for the fluid properties and cavitation. All the geometric features, including unloading grooves, the oil distribution areas, the shapes of the suction and delivery passageways, and the axial and radial leakage gaps, were considered to achieve the highest accuracy in the prediction of flow ripple. Finally, a flow ripple test platform was built based on the secondary source method. The validity and accuracy of the model were verified by test results. The flow ripple characteristics under different working conditions were compared and analyzed. The following conclusions were obtained: (1) The smaller module, the larger addendum coefficient and the half angle of the tooth profile in the design process, the lower the pump speed during operation is beneficial to reduce the vibration and noise of this pump; (2) Flow ripple is the comprehensive result of the oil characteristics, internal leakage, and geometric characteristics through the comparisons of theoretical, simulation and experimental results; (3) The flow ripple amplitude and the ripple rate increased with the increase in the outlet pressure and the influence of the pump speed variations on the flow ripple characteristics is less than that of outlet pressure variations. The conclusions obtained in this paper will help designers understand the flow ripple mechanism, achieve low-noise pump designs, and optimize Truninger pumps.