bluuebunny/crossref_metadata_2025_split huggingface dataset:
Autonomous mesoscale positioning emerging from myelin filament self-organization and Marangoni flows
Authors: van der Weijden Arno , Winkens Mitch , Schoenmakers Sandra M. C. , Huck Wilhelm T. S. , Korevaar Peter A. 
Published: September 2020

AbstractOut-of-equilibrium molecular systems hold great promise as dynamic, reconfigurable matter that executes complex tasks autonomously. However, translating molecular scale dynamics into spatiotemporally controlled phenomena emerging at mesoscopic scale remains a challenge—especially if one aims at a design where the system itself maintains gradients that are required to establish spatial differentiation. Here, we demonstrate how surface tension gradients, facilitated by a linear amphiphile molecule, generate Marangoni flows that coordinate the positioning of amphiphile source and drain droplets floating at air-water interfaces. Importantly, at the same time, this amphiphile leads, via buckling instabilities in lamellar systems of said amphiphile, to the assembly of millimeter long filaments that grow from the source droplets and get absorbed at the drain droplets. Thereby, the Marangoni flows and filament organization together sustain the autonomous positioning of interconnected droplet-filament networks at the mesoscale. Our concepts provide potential for the development of non-equilibrium matter with spatiotemporal programmability.
Design of highly efficient deep-blue organic afterglow through guest sensitization and matrices rigidification
Authors: Xu Shen , Wang Wu , Li Hui , Zhang Jingyu , Chen Runfeng , Wang Shuang , Zheng Chao , Xing Guichuan , Song Chunyuan , Huang Wei 
Published: September 2020

AbstractBlue/deep-blue emission is crucial for organic optoelectronics but remains a formidable challenge in organic afterglow due to the difficulties in populating and stabilizing the high-energy triplet excited states. Here, a facile strategy to realize the efficient deep-blue organic afterglow is proposed via host molecules to sensitize the triplet exciton population of guest and water implement to suppress the non-radiative decays by matrices rigidification. A series of highly luminescent deep-blue (405–428 nm) organic afterglow materials with lifetimes up to 1.67 s and quantum yields of 46.1% are developed. With these high-performance water-responsive materials, lifetime-encrypted rewritable paper has been constructed for water-jet printing of high-resolution anti-counterfeiting patterns that can retain for a long time (>1 month) and be erased by dimethyl sulfoxide vapor in 15 min with high reversibility for many write/erase cycles. These results provide a foundation for the design of high-efficient blue/deep-blue organic afterglow and stimuli-responsive materials with remarkable applications.
Structural dynamics of basaltic melt at mantle conditions with implications for magma oceans and superplumes
Authors: Majumdar Arnab , Wu Min , Pan Yuanming , Iitaka Toshiaki , Tse John S. 
Published: September 2020

AbstractTransport properties like diffusivity and viscosity of melts dictated the evolution of the Earth’s early magma oceans. We report the structure, density, diffusivity, electrical conductivity and viscosity of a model basaltic (Ca11Mg7Al8Si22O74) melt from first-principles molecular dynamics calculations at temperatures of 2200 K (0 to 82 GPa) and 3000 K (40–70 GPa). A key finding is that, although the density and coordination numbers around Si and Al increase with pressure, the Si–O and Al–O bonds become more ionic and weaker. The temporal atomic interactions at high pressure are fluxional and fragile, making the atoms more mobile and reversing the trend in transport properties at pressures near 50 GPa. The reversed melt viscosity under lower mantle conditions allows new constraints on the timescales of the early Earth’s magma oceans and also provides the first tantalizing explanation for the horizontal deflections of superplumes at ~1000 km below the Earth’s surface.
Facile decoding of quantitative signatures from magnetic nanowire arrays
Authors: Zamani Kouhpanji Mohammad Reza , Ghoreyshi Ali , Visscher P. B. , Stadler Bethanie J. H. 
Published: September 2020

AbstractMagnetic nanoparticles have been proposed as contact-free minimal-background nanobarcodes, and yet it has been difficult to rapidly and reliably decode them in an assembly. Here, high aspect ratio nanoparticles, or magnetic nanowires (MNWs), are characterized using first-order reversal curves (FORC) to investigate quantitative decoding. We have synthesized four types of nanowires (differing in diameter) that might be used for barcoding, and identified four possible “signature” functions that might be used to quickly distinguish them. To test this, we have measured the signatures of several combination samples containing two or four different MNW types, and fit them to linear combinations of the individual type signatures to determine the volume ratios of the types. We find that the signature which determines the ratios most accurately involves only the slope of each FORC at its reversal field, which requires only 2–4 data points per FORC curve, reducing the measurement time by a factor of 10 to 50 compared to measuring the full FORC.
Automated AFM analysis of DNA bending reveals initial lesion sensing strategies of DNA glycosylases
Authors: Bangalore Disha M. , Heil Hannah S. , Mehringer Christian F. , Hirsch Lisa , Hemmen Katherina , Heinze Katrin G. , Tessmer Ingrid 
Published: September 2020

AbstractBase excision repair is the dominant DNA repair pathway of chemical modifications such as deamination, oxidation, or alkylation of DNA bases, which endanger genome integrity due to their high mutagenic potential. Detection and excision of these base lesions is achieved by DNA glycosylases. To investigate the remarkably high efficiency in target site search and recognition by these enzymes, we applied single molecule atomic force microscopy (AFM) imaging to a range of glycosylases with structurally different target lesions. Using a novel, automated, unbiased, high-throughput analysis approach, we were able to resolve subtly different conformational states of these glycosylases during DNA lesion search. Our results lend support to a model of enhanced lesion search efficiency through initial lesion detection based on altered mechanical properties at lesions. Furthermore, its enhanced sensitivity and easy applicability also to other systems recommend our novel analysis tool for investigations of diverse, fundamental biological interactions.
Propolis nanoparticle enhances the potency of antimicrobial photodynamic therapy against Streptococcus mutans in a synergistic manner
Authors: Afrasiabi Shima , Pourhajibagher Maryam , Chiniforush Nasim , Bahador Abbas 
Published: September 2020

AbstractLess invasive removal approaches have been recommended for deep caries lesions. Antimicrobial photodynamic therapy (aPDT) and propolis nanoparticle (PNP) are highlighted for the caries management plan. Evidence is lacking for an additive effect of combination PNP with photosensitizer (PS) in aPDT. This study aimed to investigate the individual and synergistic effects of chlorophyllin-phycocyanin mixture (PhotoActive+) and toluidine blue O (TBO) as PSs in combination with PNP in the aPDT process (aPDTplus) against major important virulence factors of Streptococcus mutans. Following characterization, biocompatibility of the PSs alone, or in combination with PNP were investigated on human gingival fibroblast cell. The in vitro synergy of PhotoActive+ or TBO and PNP was evaluated by the checkerboard method. The bacteria's virulence properties were surveyed in the presence of the PSs, individually as well as in combination. When the PSs were examined in combination (synergistic effect, FIC Index < 0.5), a stronger growth inhibitory activity was exhibited than the individual PSs. The biofilm formation, as well as genes involved in biofilm formation, showed greater suppression when the PSs were employed in combination. Overall, the results of this study suggest that the combination of PhotoActive+ or TBO with PNP with the least cytotoxicity effects and the highest antimicrobial activites would improve aPDT outcomes, leading to synergistic effects and impairing the virulence of S. mutans.
A higher-order finite element reactive transport model for unstructured and fractured grids
Authors: Moortgat Joachim , Li Mengnan , Amooie Mohammad Amin , Zhu Di 
Published: September 2020

AbstractThis work presents a new reactive transport framework that combines a powerful geochemistry engine with advanced numerical methods for flow and transport in subsurface fractured porous media. Specifically, the PhreeqcRM interface (developed by the USGS) is used to take advantage of a large library of equilibrium and kinetic aqueous and fluid-rock reactions, which has been validated by numerous experiments and benchmark studies. Fluid flow is modeled by the Mixed Hybrid Finite Element (FE) method, which provides smooth velocity fields even in highly heterogenous formations with discrete fractures. A multilinear Discontinuous Galerkin FE method is used to solve the multicomponent transport problem. This method is locally mass conserving and its second order convergence significantly reduces numerical dispersion. In terms of thermodynamics, the aqueous phase is considered as a compressible fluid and its properties are derived from a Cubic Plus Association (CPA) equation of state. The new simulator is validated against several benchmark problems (involving, e.g., Fickian and Nernst-Planck diffusion, isotope fractionation, advection-dispersion transport, and rock-fluid reactions) before demonstrating the expanded capabilities offered by the underlying FE foundation, such as high computational efficiency, parallelizability, low numerical dispersion, unstructured 3D gridding, and discrete fraction modeling.
Is there a close association of depression with either constipation or dysosmia in Parkinson’s disease?
Authors: Chang Ting-Ya , Chen Yi-Huei , Chang Ming-Hong , Lin Ching-Heng 
Published: September 2020

AbstractA possible association between depression and either the severity of constipation or dysosmia in Parkinson’s disease (PD) patients was investigated in this cross-sectional study. One-hundred six patients who had the history of PD for less than 5 years were recruited. Depression was measured using the Beck Depression Inventory-II (BDI-II), and our patients were divided into depressive and non-depressive groups (DP: BDI-II ≥ 14; n = 22 and NDP: BDI-II < 14; n = 84). Olfactory dysfunction was assessed by the University of Pennsylvania Smell Identification Test (UPSIT). Constipation severity was defined by stool softener dosage and amount. Statistical analyses with one-tailed T- or chi-squared test, odds ratios (OR), and beta-coefficient were used to determine significant differences. Total scores based on the Unified Parkinson’s Disease Rating Scale (UPDRS) were significantly higher in the DP group. A significant relationship was observed between PD patients with depression and severe constipation; PD patients with depression were more likely to present with severe constipation (OR 5.81; 95% CI 1.24–27.29, p = 0.026, adjusted for age and gender); but the significance became marginal after adjusted for age, gender and UPDRS part 3 (OR 4.46, 95% CI 0.93–21.33; p = 0.061). However, no association between olfactory dysfunction and depression was detected. There were significant positive correlations between BDI-II scores and severe constipation (β ± SE 7.65 ± 2.02; p =  < 0.001, adjusted for age and gender; β ± SE 7.06 ± 2.04; p = 0.001, adjusted for age, gender, and UPDRS-3). Besides, we detected a marginally significant correlation that PD patients with higher BDI-II scores tended to present more severe motor symptoms. Olfactory dysfunction seemed to be less relevant to BDI-II scores. Based on our findings, we speculate that depression may be more closely related to brainstem nuclei than to the limbic pathway.
Synchrotron-based FTIR microspectroscopy of protein aggregation and lipids peroxidation changes in human cataractous lens epithelial cells
Authors: Kreuzer Martin , Dučić Tanja , Hawlina Marko , Andjelic Sofija 
Published: September 2020

AbstractCataract is the leading cause of blindness worldwide but the mechanisms involved in the process of cataractogenesis are not yet fully understood. Two most prevalent types of age-related cataracts are nuclear (N) and cortical (C) cataracts. A common environmental factor in most age-related cataracts is believed to be oxidative stress. The lens epithelium, the first physical and biological barrier in the lens, is build from lens epithelial cells (LECs). LECs are important for the maintenance of lens transparency as they control energy production, antioxidative mechanisms and biochemical transport for the whole lens. The purpose of this study is to characterize compounds in LECs originated from N and C cataracts, by using the synchrotron radiation-based Fourier Transform Infrared (SR-FTIR) microspectroscopy, in order to understand the functional importance of their different bio-macromolecules in cataractogenesis. We used the SR-FTIR microspectroscopy setup installed on the beamline MIRAS at the Spanish synchrotron light source ALBA, where measurements were set to achieve single cell resolution, with high spectral stability and high photon flux. The results showed that protein aggregation in form of fibrils was notably pronounced in LECs of N cataracts, while oxidative stress and the lipids peroxidation were more pronounced in LECs of C cataracts.
Generalized entropies, density of states, and non-extensivity
Authors: Balogh Sámuel G. , Palla Gergely , Pollner Péter , Czégel Dániel 
Published: September 2020

AbstractThe concept of entropy connects the number of possible configurations with the number of variables in large stochastic systems. Independent or weakly interacting variables render the number of configurations scale exponentially with the number of variables, making the Boltzmann–Gibbs–Shannon entropy extensive. In systems with strongly interacting variables, or with variables driven by history-dependent dynamics, this is no longer true. Here we show that contrary to the generally held belief, not only strong correlations or history-dependence, but skewed-enough distribution of visiting probabilities, that is, first-order statistics, also play a role in determining the relation between configuration space size and system size, or, equivalently, the extensive form of generalized entropy. We present a macroscopic formalism describing this interplay between first-order statistics, higher-order statistics, and configuration space growth. We demonstrate that knowing any two strongly restricts the possibilities of the third. We believe that this unified macroscopic picture of emergent degrees of freedom constraining mechanisms provides a step towards finding order in the zoo of strongly interacting complex systems.
Identification of a distinct association fiber tract “IPS-FG” to connect the intraparietal sulcus areas and fusiform gyrus by white matter dissection and tractography
Authors: Jitsuishi Tatsuya , Yamaguchi Atsushi 
Published: September 2020

AbstractThe intraparietal sulcus (IPS) in the posterior parietal cortex (PPC) is well-known as an interface for sensorimotor integration in visually guided actions. However, our understanding of the human neural network between the IPS and the cortical visual areas has been devoid of anatomical specificity. We here identified a distinctive association fiber tract “IPS-FG” to connect the IPS areas and the fusiform gyrus (FG), a high-level visual region, by white matter dissection and tractography. The major fiber bundles of this tract appeared to arise from the medial bank of IPS, in the superior parietal lobule (SPL), and project to the FG on the ventral temporal cortex (VTC) in post-mortem brains. This tract courses vertically at the temporo-parieto-occipital (TPO) junction where several fiber tracts intersect to connect the dorsal-to-ventral cortical regions, including the vertical occipital fasciculus (VOF). We then analyzed the structural connectivity of this tract with diffusion-MRI (magnetic resonance imaging) tractography. The quantitative tractography analysis revealed the major streamlines of IPS-FG interconnect the posterior IPS areas (e.g., IP1, IPS1) with FG (e.g., TF, FFC, VVC, PHA2, PIT) on the Human Connectome Project multimodal parcellation atlas (HCP MMP 1.0). Since the fronto-parietal network, including the posterior IPS areas, is recruited by multiple cognitive demands, the IPS-FG could play a role in the visuomotor integration as well as the top-down modulation of various cognitive functions reciprocally.
Molecular subtyping of glioblastoma based on immune-related genes for prognosis
Authors: Chen Xueran , Fan Xiaoqing , Zhao Chenggang , Zhao Zhiyang , Hu Lizhu , Wang Delong , Wang Ruiting , Fang Zhiyou 
Published: September 2020

AbstractGlioblastoma (GBM) is associated with an increasing mortality and morbidity and is considered as an aggressive brain tumor. Recently, extensive studies have been carried out to examine the molecular biology of GBM, and the progression of GBM has been suggested to be correlated with the tumor immunophenotype in a variety of studies. Samples in the current study were extracted from the ImmPort and TCGA databases to identify immune-related genes affecting GBM prognosis. A total of 92 immune-related genes displaying a significant correlation with prognosis were mined, and a shrinkage estimate was conducted on them. Among them, the 14 most representative genes showed a marked correlation with patient prognosis, and LASSO and stepwise regression analysis was carried out to further identify the genes for the construction of a predictive GBM prognosis model. Then, samples in training and test cohorts were incorporated into the model and divided to evaluate the efficiency, stability, and accuracy of the model to predict and classify the prognosis of patients and to identify the relevant immune features according to the median value of RiskScore (namely, Risk-H and Risk-L). In addition, the constructed model was able to instruct clinicians in diagnosis and prognosis prediction for various immunophenotypes.
Sensitivity and specificity of blood-fluid levels for oral anticoagulant-associated intracerebral haemorrhage
Authors: Almarzouki Abeer , Wilson Duncan , Ambler Gareth , Shakeshaft Clare , Cohen Hannah , Yousry Tarek , Al-Shahi Salman Rustam , Lip Gregory Y. H. , Houlden Henry , Brown Martin M. , Muir Keith W. , Jäger Hans Rolf , Werring David J. 
Published: September 2020

AbstractIntracerebral haemorrhage (ICH) is a life-threatening emergency, the incidence of which has increased in part due to an increase in the use of oral anticoagulants. A blood-fluid level within the haematoma, as revealed by computed tomography (CT), has been suggested as a marker for oral anticoagulant-associated ICH (OAC-ICH), but the diagnostic specificity and prognostic value of this finding remains unclear. In 855 patients with CT-confirmed acute ICH scanned within 48 h of symptom onset, we investigated the sensitivity and specificity of the presence of a CT-defined blood-fluid level (rated blinded to anticoagulant status) for identifying concomitant anticoagulant use. We also investigated the association of the presence of a blood-fluid level with six-month case fatality. Eighteen patients (2.1%) had a blood-fluid level identified on CT; of those with a blood-fluid level, 15 (83.3%) were taking anticoagulants. The specificity of blood-fluid level for OAC-ICH was 99.4%; the sensitivity was 4.2%. We could not detect an association between the presence of a blood-fluid level and an increased risk of death at six months (OR = 1.21, 95% CI 0.28–3.88, p = 0.769). The presence of a blood-fluid level should alert clinicians to the possibility of OAC-ICH, but absence of a blood-fluid level is not useful in excluding OAC-ICH.
Therapeutic hypothermia after cardiac arrest increases the plasma level of B-type natriuretic peptide
Authors: Kashiwagi Yusuke , Komukai Kimiaki , Kimura Haruka , Okuyama Toraaki , Maehara Tomoki , Fukushima Keisuke , Kamba Takahito , Oki Yoshitsugu , Shirasaki Keisuke , Kubota Takeyuki , Miyanaga Satoru , Nagoshi Tomohisa , Yoshimura Michihiro 
Published: September 2020

AbstractNatriuretic peptides (NPs) regulate blood pressure and fluid homeostasis and exert various effects on the cardiovascular system. Recently, the relationship between NPs and the energy metabolism has been reported, and using a cell culture experiment system, we previously showed that NP activated brown cells in a low temperature environment while also suppressing a decrease in the cell temperature. However, few reports have described the secretion of NPs in cold environments, and there have been almost no studies of B-type natriuretic peptide (BNP) in humans. We investigated how NPs respond to cold environments in 21 patients who underwent therapeutic hypothermia (TH) after cardiac arrest. The plasma BNP levels were significantly increased (more than fivefold) during TH (logarithmically from 1.98 ± 0.79 to 2.63 ± 0.59, P < 0.01). During TH, diastolic pulmonary artery pressure (PAP) significantly decreased, and there were no significant changes in the stroke volume index (SVI). This increase of BNP was not associated with any hemodynamic changes. In contrast to our findings for BNP, the change in A-type NP (ANP) was quite small. We detected a significant increase in the plasma BNP levels during TH, unrelated to hemodynamics. This elevation of BNP levels seems to be potential influenced by hypothermia.
MicroRNA-223 decreases cell proliferation, migration, invasion, and enhances cell apoptosis in childhood acute lymphoblastic leukemia via targeting Forkhead box O 1
Authors: Li Chunyu , Zhao Tana , Nie Lei , Zou Yanhong , Zhang Quan 
Published: September 2020

Abstract
Objective: Acute lymphoblastic leukemia (ALL) is a frequent malignancy in childhood. The present study was aimed to investigate the effect of miR-223 in ALL and its underlying molecular mechanisms.
Methods: The mRNA expression of miR-223 and FOXO1 was detected by qRT-RCR in ALL children. The correlation between miR-223 and clinical indexes of ALL was determined. CCRF-CEM and NALM-6 cells were transfected with miR-223 mimic and miR-223 inhibitor, respectively. The proliferation, apoptosis, invasion and migration of CCRF-CEM and NALM-6 cells were measured by MTT, flow cytometry and transwell assay. The protein expression of FOXO1 was detected by Western blot. Additionally, dual-luciferase reporter and RNA pull-down assay were performed to investigate the target gene of miR-223 and validate their targeting relationship.
Results: The mRNA expression of miR-223 was markedly down-regulated in ALL, but FOXO1 was up-regulated. The protein expression of FOXO1 was highly expressed in CCRF-CEM and NALM-6 cells. The expression of miR-223 was related to WBC, PLT, RBC and risk stratification. Overexpression of miR-223 not only inhibited cell proliferation, migration and invasion, but also induced cell apoptosis. Importantly, FOXO1 was a target gene of miR-223 in ALL cells. Silencing of FOXO1 reversed the effects of miR-223 inhibitor on cell proliferation, migration, invasion and apoptosis in ALL.
Conclusions: miR-223 could inhibit cell proliferation, migration and invasion, and promote apoptosis by targeting FOXO1 in ALL.