bluuebunny/crossref_metadata_2025_split huggingface dataset:
A comparative study using state-of-the-art electronic structure theories on solid hydrogen phases under high pressures
Authors: Liao Ke , Li Xin-Zheng , Alavi Ali , Grüneis Andreas 
Published: November 2019

AbstractIdentifying the atomic structure and properties of solid hydrogen under high pressures is a long-standing problem of high-pressure physics with far-reaching significance in planetary and materials science. Determining the pressure-temperature phase diagram of hydrogen is challenging for experiment and theory due to the extreme conditions and the required accuracy in the quantum mechanical treatment of the constituent electrons and nuclei, respectively. Here, we demonstrate explicitly that coupled cluster theory can serve as a computationally efficient theoretical tool to predict solid hydrogen phases with high accuracy. We present a first principles study of solid hydrogen phases at pressures ranging from 100 to 450 GPa. The computed static lattice enthalpies are compared to state-of-the-art diffusion Monte Carlo results and density functional theory calculations. Our coupled cluster theory results for the most stable phases including C2/c-24 and P2$${}_{1}$$1/c-24 are in good agreement with those obtained using diffusion Monte Carlo, with the exception of Cmca-4, which is predicted to be significantly less stable. We discuss the scope of the employed methods and how they can contribute as efficient and complementary theoretical tools to solve the long-standing puzzle of understanding solid hydrogen phases at high pressures.
A high-N00N output of harmonically driven cavity QED
Authors: Maleki Yusef , Zheltikov Aleksei M. 
Published: November 2019

AbstractA harmonically driven cavity QED system consisting of two cavities and a two-level qubit is shown to enable the generation of a vast class of maximally entangled states suitable for measurements with a Heisenberg-limit precision. As one of its modalities, this system can serve as a quantum beam splitter, converting an |N〉 ⊗ |0〉 input into a maximally entangled N00N state (|N〉 ⊗ |0〉  +  |0〉 ⊗ |N〉)/$$\sqrt{{\bf{2}}}$$2 at its output. A network of such quantum beam splitters is shown to provide a source of multimode N00N-type entanglement.
The Effect of Visual Function on the Batting Performance of Professional Baseball Players
Authors: Laby Daniel M. , Kirschen David G. , Govindarajulu Usha , DeLand Paul 
Published: November 2019

AbstractThis report evaluates the role of the combined visual abilities of acuity, contrast sensitivity and presentation time on plate discipline and baseball batting performance. A visual function test (EVTS) was performed on 585 professional baseball players. The results were compared to several common plate-discipline measures. The EVTS test provides a single measure combining target size, contrast and presentation time. Correlations (statistically significant) were found between this measure and several plate discipline metrics (InzoneSwingPct, inzoneFbSwingPct, ChasePct, FbChasePct, BBperPa). Years of major league service did not appear to be related to visual ability. When comparing the best and worst 20% groups based on visual ability, statistically significant improvements ranging from 11.6% in BBperPa to 3.5% in inzoneSwingPct were noted in the better visual function group. Effect sizes ranged from 0.278 to 0.387. These results demonstrate the relationship between basic visual function and batting performance. These are the first results, on a large group at the professional level, to demonstrate this relationship statistically. These results may aid player selection, indicating that batters with better visual function are more likely to be successful when batting and more productive for their team.
A new method to reliably determine elastic strain of various crystal structures from atomic-resolution images
Authors: Chen J. S. , Liu Y. , Zhai Y. , Fan T. X. 
Published: November 2019

AbstractElastic strain engineering is an important strategy to design material properties in semiconductor and emerging advanced manufacturing industries. Recently, peak-pair method has drawn great attention compared to geometric phase analysis, owing to its precise determination of atom position at real space. Most current strain characterization methods estimate the local strain by comparing it with the related information from unstrained areas as reference. However, peak-pair method generated large errors in some cases because of the complexity of lower symmetric crystal structures, such as hexagonal structure. In this study, we introduce a new algorithm to overcome this limitation by directly comparing the atom positions with multiple references with different lattice symmetries. Furthermore, this new method is validated through several complicated crystal systems such as hexagonal, orthorhombic, monoclinic, and tetragonal structure, and returns expected values. This finding is essential to reliably determine the localized elastic strain with various crystal structures.
Identification and characterization of abundant repetitive sequences in Allium cepa
Authors: Fu Jiaping , Zhang Hao , Guo Fengling , Ma Lu , Wu Jinping , Yue Mengxia , Zheng Xueke , Qiu Zhengming , Li Lijia 
Published: November 2019

AbstractSpecies of the genus Allium are well known for their large genomes. Allium cepa is of great economic significance. Among vegetables, it ranks second after tomato in terms of the global production value. However, there is limited genomics information available on A. cepa. In this study, we sequenced the A. cepa genome at low-coverage and annotated repetitive sequences by using a combination of next-generation sequencing (NGS) and bioinformatics tools. Nearly 92% of 16 Gb haploid onion genome were defined as repetitive sequences, organized in 162 clusters of at least 0.01 percent of the genome. Of these, a proportion representing 40.5% of the genome were further analyzed in detail to obtain an overview of representative repetitive elements present in the A. cepa genome. Few representative satellite repeats were studied by fluorescence in situ hybridization (FISH) and southern blotting. These results provided a basis for evolutionary cytogenomics within the Allium genus.
Free Energy Principle in Human Postural Control System: Skin Stretch Feedback Reduces the Entropy
Authors: Hur Pilwon , Pan Yi-Tsen , DeBuys Christian 
Published: November 2019

AbstractHuman upright standing involves an integration of multiple sensory inputs such as vision, vestibular and somatosensory systems. It has been known that sensory deficits worsen the standing balance. However, how the modulation of sensory information contributes to postural stabilization still remains an open question for researchers. The purpose of this work was to formulate the human standing postural control system in the framework of the free-energy principle, and to investigate the efficacy of the skin stretch feedback in enhancing the human standing balance. Previously, we have shown that sensory augmentation by skin stretch feedback at the fingertip could modulate the standing balance of the people with simulated sensory deficits. In this study, subjects underwent ten 30-second trials of quiet standing balance with and without skin stretch feedback. Visual and vestibular sensory deficits were simulated by having each subject close their eyes and tilt their head back. We found that sensory augmentation by velocity-based skin stretch feedback at the fingertip reduced the entropy of the standing postural sway of the people with simulated sensory deficits. This result aligns with the framework of the free energy principle which states that a self-organizing biological system at its equilibrium state tries to minimize its free energy either by updating the internal state or by correcting body movement with appropriate actions. The velocity-based skin stretch feedback at the fingertip may increase the signal-to-noise ratio of the sensory signals, which in turn enhances the accuracy of the internal states in the central nervous system. With more accurate internal states, the human postural control system can further adjust the standing posture to minimize the entropy, and thus the free energy.
Limnological effects of a large Amazonian run-of-river dam on the main river and drowned tributary valleys
Authors: Almeida Rafael M. , Hamilton Stephen K. , Rosi Emma J. , Arantes João Durval , Barros Nathan , Boemer Gina , Gripp Anderson , Huszar Vera L. M. , Junger Pedro C. , Lima Michele , Pacheco Felipe , Carvalho Dario , Reisinger Alexander J. , Silva Lúcia H. S. , Roland Fábio 
Published: November 2019

AbstractRun-of-river dams are often considered to have lower environmental impacts than storage dams due to their smaller reservoirs and low potential for flow alteration. However, this has been questioned for projects recently built on large rivers around the world. Two of the world’s largest run-of-river dams—Santo Antônio and Jirau—were recently constructed on the Madeira River, a major tributary to the Amazon River in Brazil. Here we evaluate the effects of the creation of the Santo Antônio dam on the water chemistry and thermal structure of the Madeira River mainstem and back-flooded valleys of tributaries within the reservoir inundated area. In contrast to the mainstem river, some back-flooded tributaries periodically developed thermal stratification, which is associated with higher water residence times. Additionally, biochemical oxygen demand, partial pressure of CO2, and organic carbon all increased in the tributary valleys inundated by the reservoir, possibly due to increased input of allochthonous organic matter and its subsequent mineralization upon back-flooding—a common feature of newly flooded impoundments. The mainstem did not show detectable dam-related changes in water chemistry and thermal structure. Although the majority of the reservoir area maintained riverine conditions, the lateral valleys formed upon back-flooding—corresponding to ~30% of the Santo Antônio reservoir area—developed lake-like conditions akin to a typical reservoir of a storage dam.
3D Dental Subsurface Imaging Using Enhanced Truncated Correlation-Photothermal Coherence Tomography
Authors: Roointan Sohrab , Tavakolian Pantea , Sivagurunathan Koneswaran S. , Floryan Marie , Mandelis Andreas , Abrams Stephen H. 
Published: November 2019

AbstractDevelopment of accurate and sensitive dental imaging technologies is a top priority in the pursuit of high-quality dental care. However, while early dental caries detection and routine monitoring of treatment progress are crucial for effective long-term results, current radiographic technologies fall short of this objective due to low sensitivity for small lesions and use of ionizing radiation which is unsuitable for frequent monitoring. Here we demonstrate the first application of enhanced Truncated Correlation-Photothermal Coherence Tomography (eTC-PCT) to dental imaging. eTC-PCT is non-invasive and non-ionizing, operates well below the maximum permissible exposure (MPE) limit, and features 3D subsurface imaging capability with operator controlled axial resolution. We explore the potential of this method for dental applications and demonstrate its capability for depth-resolved tomographic 3D reconstructions of the details and subsurface extent of a variety of dental defects. To this end, in this proof-of-concept study, dental eTC-PCT imaging results, and its sensitivity to dental caries, are discussed in comparison with visual examination, x-rays and micro-CT imaging.
Limit cycle dynamics can guide the evolution of gene regulatory networks towards point attractors
Authors: Wilson Stuart P. , James Sebastian S. , Whiteley Daniel J. , Krubitzer Leah A. 
Published: November 2019

AbstractDevelopmental dynamics in Boolean models of gene networks self-organize, either into point attractors (stable repeating patterns of gene expression) or limit cycles (stable repeating sequences of patterns), depending on the network interactions specified by a genome of evolvable bits. Genome specifications for dynamics that can map specific gene expression patterns in early development onto specific point attractor patterns in later development are essentially impossible to discover by chance mutation alone, even for small networks. We show that selection for approximate mappings, dynamically maintained in the states comprising limit cycles, can accelerate evolution by at least an order of magnitude. These results suggest that self-organizing dynamics that occur within lifetimes can, in principle, guide natural selection across lifetimes.
Temporal and Spatial Evolution of Vegetation Coverage in the Mianyuan River Basin Influenced by Strong Earthquake Disturbance
Authors: Gan Bin-rui , Yang Xing-guo , Zhang Wen , Zhou Jia-wen 
Published: November 2019

AbstractThe 2008 Wenchuan earthquake caused significant economic losses and degradation of regional ecosystems, including the terrestrial vegetation. Since the vegetation root system can enhance the soil’s anti-erosion capacity and therefore mitigate the occurrence of slope instabilities, it is beneficial to study the spatial and temporal evolution of vegetation for a long-term assessment of co-seismic secondary disasters. The Mianyuan River Basin, an uninhabited area passing through an active fault located in the earthquake-affected region, was selected as the study area. The Normal Difference Vegetation Index (NDVI) was calculated using remote sensing images from 1994 to 2017 to analyze the process of vegetation growth, loss, fluctuation and recovery. Statistical results suggest that the area in the middle and lower reaches, near the river network, and with a slope of 30 to 40 degrees were variable regions, showing more significant vegetation destruction during the earthquake and faster repair after the seismic event. Besides, vegetation near the fault was damaged more severely after the earthquake, but the active fault did not play an essential role in the vegetation recovery period. In the Mianyuan River Basin, vegetation experienced a volatility period (5 plus or minus one year) before entering the recovery period. In 8 to 9 years after the earthquake, the surficial vegetation could recover to the state before the earthquake.
Success rates in isolating mesenchymal stem cells from permanent and deciduous teeth
Authors: Nakajima Kengo , Kunimatsu Ryo , Ando Kazuyo , Hiraki Tomoka , Rikitake Kodai , Tsuka Yuji , Abe Takaharu , Tanimoto Kotaro 
Published: November 2019

AbstractStem cells from human exfoliated deciduous teeth (SHED) and human dental pulp stem cells (hDPSCs) have emerged as attractive cell sources for bone regeneration. However, the specific teeth and the conditions most suitable for stem cell isolation remain unclear. Therefore, the success rate of SHED and hDPSCs isolation, the patient age and remaining root length in deciduous teeth were evaluated. Successful isolation was defined as when the cell culture was maintained up to the third passage without any contamination or other issues. Remaining tooth length was calculated using the root-to-crown ratio from patient X-rays and compared to the norm value from the literature. The overall successful isolation rate of SHED and hDPSCs was 82% and 70%. The average patient ages at extraction of the deciduous teeth and permanent teeth were 11 years and 9 months, and 22 years and 10 months respectively. In the successful SHED group, the average remaining root length of the anterior deciduous teeth was 71.4%, and that of the deciduous molars was 61.4%. Successful isolation appears to be associated with patient age, length of the remaining root, and also mechanical stress and other factors. Tooth selection criteria need to be identified to improve the success rate.
Upregulation of caveolin-1 and its colocalization with cytokine receptors contributes to beta cell apoptosis
Authors: Bae Gong Deuk , Park Eun-Young , Kim Kyong , Jang Se-Eun , Jun Hee-Sook , Oh Yoon Sin 
Published: November 2019

AbstractCaveolin-1 (cav-1), the principal structural and signalling protein of caveolae, is implicated in various signalling events, including apoptotic cell death in type 2 diabetes. However, the precise role of beta cells in apoptosis has not been clearly defined. In this study, we investigated the involvement of cav-1 in cytokine-induced beta cell apoptosis and its underlying mechanisms in the rat beta cell line, INS-1 and isolated islets. Treatment of cytokine mixture (CM, TNFα + IL-1β) significantly increased the mRNA and protein expression of cav-1, and resulting in increased formation of caveolae. We found that IL-1 receptor 1 and TNF receptor localized to plasma membrane lipid rafts in the control cells and CM treatment recruited these receptors to the caveolae domain. After cav-1 siRNA transfection, CM-dependent NF-κB activation was reduced and consequently downregulated the mRNA expression of iNOS and IL-1β. Finally, decreased cell viability by CM treatment was ameliorated in both INS-1 cells and isolated islets treated with cav-1 siRNA. These results suggest that increased cav-1 expression and recruitment of cytokine receptors into caveolae contribute to CM-induced beta cell apoptosis.
A pore-occluding phenylalanine gate prevents ion slippage through plant ammonium transporters
Authors: Ganz Pascal , Mink Robin , Ijato Toyosi , Porras-Murillo Romano , Ludewig Uwe , Neuhäuser Benjamin 
Published: November 2019

AbstractThroughout all kingdoms of life, highly conserved transport proteins mediate the passage of ammonium across membranes. These transporters share a high homology and a common pore structure. Whether NH3, NH4+ or NH3 + H+ is the molecularly transported substrate, still remains unclear for distinct proteins. High-resolution protein structures of several ammonium transporters suggested two conserved pore domains, an external NH4+ recruitment site and a pore-occluding twin phenylalanine gate, to take over a crucial role in substrate determination and selectivity. Here, we show that while the external recruitment site seems essential for AtAMT1;2 function, single mutants of the double phenylalanine gate were not reduced in their ammonium transport capacity. Despite an unchanged ammonium transport rate, a single mutant of the inner phenylalanine showed reduced N-isotope selection that was proposed to be associated with ammonium deprotonation during transport. Even though ammonium might pass the mutant AMT pore in the ionic form, the transporter still excluded potassium ions from being transported. Our results, highlight the importance of the twin phenylalanine gate in blocking uncontrolled ammonium ion flux.
Guideline-Based Critical Care Pathway Improves Long-Term Clinical Outcomes in Patients with Acute Coronary Syndrome
Authors: Hai Jo-Jo , Wong Chun-Ka , Un Ka-Chun , Wong Ka-Lam , Zhang Zhe-Yu , Chan Pak-Hei , Lam Yui-Ming , Chan Wing-Sze , Lam Cheung-Chi , Tam Chor-Cheung , Wong Yiu-Tung , Yung See-Yue , Chan Ki-Wan , Siu Chung-Wah , Lau Chu-Pak , Tse Hung-Fat 
Published: November 2019

AbstractImplementation of a critical care pathway (CCP) for acute coronary syndrome (ACS) has been shown to improve early compliance to guideline-directed therapies and reduce early mortality. Nevertheless its long-term impact on the compliance with medications or clinical outcomes remains unknown. Between 2004 and 2015, 2023 consecutive patients were admitted to our coronary care unit with ACS. We retrospectively compared the outcomes of 628 versus 1059 patients (mean age 66.1 ± 13.3 years, 74% male) managed before and after full implementation of a CCP. Compared with standard care, implementation of the CCP significantly increased coronary revascularization and long-term compliance with guideline-directed medical therapy (both P < 0.01). After a mean follow-up of 66.5 ± 44.0 months, 46.7% and 22.2% patients admitted before and after implementation of the CCP, respectively, died. Kaplan-Meier analyses showed that patients managed by CCP had better overall survival (P = 0.03) than those managed with standard care. After adjustment for clinical covariates and coronary anatomy, CCP remained independently predictive of better survival from all-cause mortality [hazard ratio (HR): 0.75, 95%confidence intervals (CI): 0.62–0.92, P < 0.01]. Stepwise multivariate cox regression model showed that both revascularization (HR: 0.55, 95%CI: 0.45–0.68, P < 0.01) and compliance to statin (HR: 0.70, 95%CI: 0.58–0.85, P < 0.01) were accountable for the improved outcome.
Association of Retinal Blood Flow with Progression of Visual Field in Glaucoma
Authors: Jeon Soo Ji , Shin Da-Young , Park Hae-Young Lopilly , Park Chan Kee 
Published: November 2019

AbstractIn the glaucoma clinic, patients with normal intraocular pressure (IOP) can sometimes show visual field (VF) progression. Therefore, clarification of relationship between vascular status and glaucomatous VF deterioration is a focus of interest. We used optical coherence tomography angiography (OCTA), with the aim of evaluating the relationship between vessel density (VD) and VF progression in glaucoma patients. We included 104 eyes with open angle glaucoma who were followed up for at least 5 years in this retrospective case-control study. Superficial and deep VD of macula were assessed by OCTA. Regression analysis and Cox proportional hazards model were used to identify factors significantly associated with VF progression. In logistic regression analysis determining VF progression from Guided Progression Analysis (GPA) program, initial IOP and deep macular VD were significantly associated with VF progression in multivariate analysis (P = 0.019 and 0.004). Cox proportional hazards model also identified deep macular VD as significantly related to VF progression (P = 0.035). In conclusion, initial IOP and deep VD were related to VF deterioration in glaucoma. Deep VD might be used as a surrogate of glaucomatous VF progression related with vascular incompetence.
In vivo rotational three-dimensional OCTA analysis of microaneurysms in the human diabetic retina
Authors: Borrelli Enrico , Sacconi Riccardo , Brambati Maria , Bandello Francesco , Querques Giuseppe 
Published: November 2019

AbstractThe aim of this study was to explore whether rotational three-dimensional (3D) visualization of optical coherence tomography angiography (OCTA) volume data may yield valuable information regarding diabetic retinal microaneurysm (MA) characteristics. In this retrospective, observational study, we collected data from 20 patients (20 eyes) with diabetic retinopathy. Subjects were imaged with the SS-OCTA system (PLEX Elite 9000, Carl Zeiss Meditec Inc., Dublin, CA, USA). The OCTA volume data were processed with a volume projection removal algorithm and then exported to imageJ in order to obtain a 3D visualization of the analyzed MAs. The rotational three-dimensional OCTA images were qualitatively and quantitatively investigated. A total of 52 MAs were included in the analysis. On rotational 3D OCTA images, the number of vessels associated with each MA varied between 1 and 4, and most MAs (59.6%) were associated with 2 vessels. Moreover, in 20 MAs (38.4%) these vessels seem to originate from the SCP, while 26 MAs (50.0%) had associated vessels originating from the DVC, and 6 MAs had associated vessels arising from both the SCP and DVC (11.6%). Most MAs (31/52) had a ‘saccular’ shape. The number of retinal layers occupied by each MA ranged between 1 and 3 and the inner nuclear layer was the retinal layer most frequently occupied by MAs. In conclusion, this study used an algorithm to obtain rotational three-dimensional visualization of retinal MAs. The MAs’ architecture is complex and 3D visualization may clarify the true vascular origin of these lesions, which is often mistaken using en face OCTA images.