bluuebunny/crossref_metadata_2025_split huggingface dataset:
Constraints on the Cycling of Iron Isotopes From a Global Ocean Model
Authors: König D. , Conway T. M. , Ellwood M. J. , Homoky W. B. , Tagliabue A. 
Published: August 2021

AbstractAlthough iron (Fe) is a key regulator of primary production over much of the ocean, many components of the marine iron cycle are poorly constrained, which undermines our understanding of climate change impacts. In recent years, a growing number of studies (often part of GEOTRACES) have used Fe isotopic signatures (δ56Fe) to disentangle different aspects of the marine Fe cycle. Characteristic δ56Fe endmembers of external sources and assumed isotopic fractionation during biological Fe uptake or recycling have been used to estimate relative source contributions and investigate internal transformations, respectively. However, different external sources and fractionation processes often overlap and act simultaneously, complicating the interpretation of oceanic Fe isotope observations. Here we investigate the driving forces behind the marine dissolved Fe isotopic signature (δ56Fediss) distribution by incorporating Fe isotopes into the global ocean biogeochemical model PISCES. We find that distinct external source endmembers acting alongside fractionation during organic complexation and phytoplankton uptake are required to reproduce δ56Fediss observations along GEOTRACES transects. δ56Fediss distributions through the water column result from regional imbalances of remineralization and abiotic removal processes. They modify δ56Fediss directly and transfer surface ocean signals to the interior with opposing effects. Although attributing crustal compositions to sedimentary Fe sources in regions with low organic carbon fluxes improves our isotope model, δ56Fediss signals from hydrothermal or sediment sources cannot be reproduced accurately by simply adjusting δ56Fe endmember values. This highlights that additional processes must govern the exchange and/or speciation of Fe supplied by these sources to the ocean.
New Metrics for Assessing the State Performance in Combating the COVID‐19 Pandemic
Authors: Li Yun , Rice Megan , Li Moming , Du Chengan , Xin Xin , Wang Zifu , Shi Xun , Yang Chaowei 
Published: August 2021

AbstractPrevious research has noted that many factors greatly influence the spread of COVID‐19. Contrary to explicit factors that are measurable, such as population density, number of medical staff, and the daily test rate, many factors are not directly observable, for instance, culture differences and attitudes toward the disease, which may introduce unobserved heterogeneity. Most contemporary COVID‐19 related research has focused on modeling the relationship between explicitly measurable factors and the response variable of interest (such as the infection rate or the death rate). The infection rate is a commonly used metric for evaluating disease progression and a state's mitigation efforts. Because unobservable sources of heterogeneity cannot be measured directly, it is hard to incorporate them into the quantitative assessment and decision‐making process. In this study, we propose new metrics to study a state's performance by adjusting the measurable county‐level covariates and unobservable state‐level heterogeneity through random effects. A hierarchical linear model (HLM) is postulated, and we calculate two model‐based metrics—the standardized infection ratio (SDIR) and the adjusted infection rate (AIR). This analysis highlights certain time periods when the infection rate for a state was high while their SDIR was low and vice versa. We show that trends in these metrics can give insight into certain aspects of a state's performance. As each state continues to develop their individualized COVID‐19 mitigation strategy and ultimately works to improve their performance, the SDIR and AIR may help supplement the crude infection rate metric to provide a more thorough understanding of a state's performance.
SOX10 ablation severely impairs the generation of postmigratory neural crest from human pluripotent stem cells
Authors: Lai Xingqiang , Liu Jia , Zou Zhengwei , Wang Yina , Wang Ye , Liu Xiao , Huang Weijun , Ma Yuanchen , Chen Qian , Li Fugui , Wu Guifu , Li Weiqiang , Wang Weijia , Yuan Yong , Jiang Boxiong 
Published: August 2021

AbstractAnimal studies have indicated that SOX10 is one of the key transcription factors regulating the proliferation, migration and differentiation of multipotent neural crest (NC), and mutation of SOX10 in humans may lead to type 4 Waardenburg syndrome (WS). However, the exact role of SOX10 in human NC development and the underlying molecular mechanisms of SOX10-related human diseases remain poorly understood due to the lack of appropriate human model systems. In this study, we successfully generated SOX10-knockout human induced pluripotent stem cells (SOX10−/− hiPSCs) by the CRISPR-Cas9 gene editing tool. We found that loss of SOX10 significantly inhibited the generation of p75highHNK1+/CD49D+ postmigratory neural crest stem cells (NCSCs) and upregulated the cell apoptosis rate during NC commitment from hiPSCs. Moreover, we discovered that both the neuronal and glial differentiation capacities of SOX10−/− NCSCs were severely compromised. Intriguingly, we showed that SOX10−/− hiPSCs generated markedly more TFAP2C+nonneural ectoderm cells (NNE) than control hiPSCs during neural crest differentiation. Our results indicate that SOX10 is crucial for the transition of premigratory cells to migrating NC and is vital for NC survival. Taken together, these results provide new insights into the function of SOX10 in human NC development, and the SOX10-knockout hiPSC lines may serve as a valuable cell model to study the pathogenesis of SOX10-related human neurocristopathies.
YWHAZ interacts with DAAM1 to promote cell migration in breast cancer
Authors: Mei Jie , Liu Yan , Yu Xinqian , Hao Leiyu , Ma Tao , Zhan Qiang , Zhang Yan , Zhu Yichao 
Published: August 2021

AbstractDishevelled-associated activator of morphogenesis 1 (DAAM1) is a critical driver in facilitating metastasis in breast cancer (BrCa). However, molecular mechanisms for the regulation of DAAM1 activation are only partially elucidated. In this research, the expression levels of YWHAZ and DAAM1 were examined by immunohistochemistry (IHC) staining in BrCa tissues. The functional roles of tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta (YWHAZ)–DAAM1 axis and their regulator microRNA-613 (miR-613) in BrCa cells and associated molecular mechanisms were demonstrated in vitro. As results, the expression levels of DAAM1 and YWHAZ were significantly upregulated in BrCa tissues compared with normal tissues and remarkably associated with poor prognosis. Besides, DAAM1 and YWHAZ were positively correlated with each other in BrCa tissues. YWHAZ interacted and colocalized with DAAM1 in BrCa cells, which was essential for DAAM1-mediated microfilament remodeling and RhoA activation. Moreover, miR-613 directly targeted both YWHAZ and DAAM1, contributing to inhibiting BrCa cells migration via blocking the complex of YWHAZ–DAAM1. To sum up, these data reveal that YWHAZ regulates DAAM1 activation, and the YWHAZ–DAAM1 complex is directly targeted by the shared post-transcriptional regulator miR-613.
The PEMDAC phase 2 study of pembrolizumab and entinostat in patients with metastatic uveal melanoma
Authors: Ny Lars , Jespersen Henrik , Karlsson Joakim , Alsén Samuel , Filges Stefan , All-Eriksson Charlotta , Andersson Bengt , Carneiro Ana , Helgadottir Hildur , Levin Max , Ljuslinder Ingrid , Olofsson Bagge Roger , Sah Vasu R. , Stierner Ulrika , Ståhlberg Anders , Ullenhag Gustav , Nilsson Lisa M. , Nilsson Jonas A. 
Published: August 2021

AbstractPreclinical studies have suggested that epigenetic therapy could enhance immunogenicity of cancer cells. We report the results of the PEMDAC phase 2 clinical trial (n = 29; NCT02697630) where the HDAC inhibitor entinostat was combined with the PD-1 inhibitor pembrolizumab in patients with metastatic uveal melanoma (UM). The primary endpoint was objective response rate (ORR), and was met with an ORR of 14%. The clinical benefit rate at 18 weeks was 28%, median progression free survival was 2.1 months and the median overall survival was 13.4 months. Toxicities were manageable, and there were no treatment-related deaths. Objective responses and/or prolonged survival were seen in patients with BAP1 wildtype tumors, and in one patient with an iris melanoma that exhibited a UV signature. Longer survival also correlated with low baseline ctDNA levels or LDH. In conclusion, HDAC inhibition and anti-PD1 immunotherapy results in durable responses in a subset of patients with metastatic UM.Trial registration ClinicalTrials.gov registration number: NCT02697630 (registered 3 March 2016). EudraCT registration number: 2016–002114-50.
Intravital imaging of islet Ca2+ dynamics reveals enhanced β cell connectivity after bariatric surgery in mice
Authors: Akalestou Elina , Suba Kinga , Lopez-Noriega Livia , Georgiadou Eleni , Chabosseau Pauline , Gallie Alasdair , Wretlind Asger , Legido-Quigley Cristina , Leclerc Isabelle , Salem Victoria , Rutter Guy A. 
Published: August 2021

AbstractBariatric surgery improves both insulin sensitivity and secretion and can induce diabetes remission. However, the mechanisms and time courses of these changes, particularly the impact on β cell function, are difficult to monitor directly. In this study, we investigated the effect of Vertical Sleeve Gastrectomy (VSG) on β cell function in vivo by imaging Ca2+ dynamics in islets engrafted into the anterior eye chamber. Mirroring its clinical utility, VSG in mice results in significantly improved glucose tolerance, and enhanced insulin secretion. We reveal that these benefits are underpinned by augmented β cell function and coordinated activity across the islet. These effects involve changes in circulating GLP-1 levels which may act both directly and indirectly on the β cell, in the latter case through changes in body weight. Thus, bariatric surgery leads to time-dependent increases in β cell function and intra-islet connectivity which are likely to contribute to diabetes remission.
Measuring dimensionality and purity of high-dimensional entangled states
Authors: Nape Isaac , Rodríguez-Fajardo Valeria , Zhu Feng , Huang Hsiao-Chih , Leach Jonathan , Forbes Andrew 
Published: August 2021

AbstractHigh-dimensional entangled states are promising candidates for increasing the security and encoding capacity of quantum systems. While it is possible to witness and set bounds for the entanglement, precisely quantifying the dimensionality and purity in a fast and accurate manner remains an open challenge. Here, we report an approach that simultaneously returns the dimensionality and purity of high-dimensional entangled states by simple projective measurements. We show that the outcome of a conditional measurement returns a visibility that scales monotonically with state dimensionality and purity, allowing for quantitative measurements for general photonic quantum systems. We illustrate our method using two separate bases, the orbital angular momentum and pixels bases, and quantify the state dimensionality by a variety of definitions over a wide range of noise levels, highlighting its usefulness in practical situations. Importantly, the number of measurements needed in our approach scale linearly with dimensions, reducing data acquisition time significantly. Our technique provides a simple, fast and direct measurement approach.
Observation of the modification of quantum statistics of plasmonic systems
Authors: You Chenglong , Hong Mingyuan , Bhusal Narayan , Chen Jinnan , Quiroz-Juárez Mario A. , Fabre Joshua , Mostafavi Fatemeh , Guo Junpeng , De Leon Israel , León-Montiel Roberto de J. , Magaña-Loaiza Omar S. 
Published: August 2021

AbstractFor almost two decades, researchers have observed the preservation of the quantum statistical properties of bosons in a large variety of plasmonic systems. In addition, the possibility of preserving nonclassical correlations in light-matter interactions mediated by scattering among photons and plasmons stimulated the idea of the conservation of quantum statistics in plasmonic systems. It has also been assumed that similar dynamics underlie the conservation of the quantum fluctuations that define the nature of light sources. So far, plasmonic experiments have been performed in nanoscale systems in which complex multiparticle interactions are restrained. Here, we demonstrate that the quantum statistics of multiparticle systems are not always preserved in plasmonic platforms and report the observation of their modification. Moreover, we show that optical near fields provide additional scattering paths that can induce complex multiparticle interactions. Remarkably, the resulting multiparticle dynamics can, in turn, lead to the modification of the excitation mode of plasmonic systems. These observations are validated through the quantum theory of optical coherence for single- and multi-mode plasmonic systems. Our findings unveil the possibility of using multiparticle scattering to perform exquisite control of quantum plasmonic systems.
Distribution and orientation of nerve fibers and myelin assembly in a brain section retrieved by small-angle neutron scattering
Authors: Maiti Santanu , Frielinghaus Henrich , Gräßel David , Dulle Martin , Axer Markus , Förster Stephan 
Published: August 2021

AbstractThe structural connectivity of the brain has been addressed by various imaging techniques such as diffusion weighted magnetic resonance imaging (DWMRI) or specific microscopic approaches based on histological staining or label-free using polarized light (e.g., three-dimensional Polarized Light Imaging (3D-PLI), Optical Coherence Tomography (OCT)). These methods are sensitive to different properties of the fiber enwrapping myelin sheaths i.e. the distribution of myelin basic protein (histology), the apparent diffusion coefficient of water molecules restricted in their movements by the myelin sheath (DWMRI), and the birefringence of the oriented myelin lipid bilayers (3D-PLI, OCT). We show that the orientation and distribution of nerve fibers as well as myelin in thin brain sections can be determined using scanning small angle neutron scattering (sSANS). Neutrons are scattered from the fiber assembly causing anisotropic diffuse small-angle scattering and Bragg peaks related to the highly ordered periodic myelin multilayer structure. The scattering anisotropy, intensity, and angular position of the Bragg peaks can be mapped across the entire brain section. This enables mapping of the fiber and myelin distribution and their orientation in a thin brain section, which was validated by 3D-PLI. The experiments became possible by optimizing the neutron beam collimation to highest flux and enhancing the myelin contrast by deuteration. This method is very sensitive to small microstructures of biological tissue and can directly extract information on the average fiber orientation and even myelin membrane thickness. The present results pave the way toward bio-imaging for detecting structural aberrations causing neurological diseases in future.
Bias in Zipf’s law estimators
Authors: Pilgrim Charlie , Hills Thomas T 
Published: August 2021

AbstractThe prevailing maximum likelihood estimators for inferring power law models from rank-frequency data are biased. The source of this bias is an inappropriate likelihood function. The correct likelihood function is derived and shown to be computationally intractable. A more computationally efficient method of approximate Bayesian computation (ABC) is explored. This method is shown to have less bias for data generated from idealised rank-frequency Zipfian distributions. However, the existing estimators and the ABC estimator described here assume that words are drawn from a simple probability distribution, while language is a much more complex process. We show that this false assumption leads to continued biases when applying any of these methods to natural language to estimate Zipf exponents. We recommend that researchers be aware of the bias when investigating power laws in rank-frequency data.
Effect of extracorporeal shock wave therapy on keratinocytes derived from human hypertrophic scars
Authors: Cui Hui Song , Joo So Young , Cho Yoon Soo , Park Ji Heon , Ro Yu Mi , Kim June-Bum , Seo Cheong Hoon 
Published: August 2021

AbstractHypertrophic scars represent a common complication in burn patients. In addition to cosmetic defects, they may cause serious sensory abnormalities such as pain and itching, severe dysfunction depending on the site, and emotional disorders such as anxiety and depression. The present study aimed to identify the molecular mechanisms underlying the use of extracorporeal shock wave therapy in keratinocytes. Keratinocytes derived from hypertrophic scar tissue were cultured and expression of proliferation markers (keratin 5 and 14), activation markers (keratin 6 and 17), differentiation markers (keratin 1, 10, and involucrin), apoptosis factors (Bax, Bcl2, and Caspase 14), and proliferation/differentiation regulators (p21 and p27) was investigated to compared with that of those in keratinocytes derived from normal skin tissue. Scar-derived keratinocytes were treated with extracorporeal shock waves under 1000 impulses at 0.1, 0.2, and 0.3 mJ/mm2. Shock waves altered the molecular pattern of proliferation, activation, differentiation, and apoptosis, as well as proliferation/ differentiation regulators, including Bax, Bcl2, ASK1, p21, p27, and Notch1. In summary, we show that extracorporeal shock wave therapy regulates the proliferation and differentiation of keratinocytes derived from hypertrophic scar to maintain normal epidermal integrity.
ANFIS-Net for automatic detection of COVID-19
Authors: Al-ali Afnan , Elharrouss Omar , Qidwai Uvais , Al-Maaddeed Somaya 
Published: August 2021

AbstractAmong the most leading causes of mortality across the globe are infectious diseases which have cost tremendous lives with the latest being coronavirus (COVID-19) that has become the most recent challenging issue. The extreme nature of this infectious virus and its ability to spread without control has made it mandatory to find an efficient auto-diagnosis system to assist the people who work in touch with the patients. As fuzzy logic is considered a powerful technique for modeling vagueness in medical practice, an Adaptive Neuro-Fuzzy Inference System (ANFIS) was proposed in this paper as a key rule for automatic COVID-19 detection from chest X-ray images based on the characteristics derived by texture analysis using gray level co-occurrence matrix (GLCM) technique. Unlike the proposed method, especially deep learning-based approaches, the proposed ANFIS-based method can work on small datasets. The results were promising performance accuracy, and compared with the other state-of-the-art techniques, the proposed method gives the same performance as the deep learning with complex architectures using many backbone.
Identification of potential autoantigens in anti-CCP-positive and anti-CCP-negative rheumatoid arthritis using citrulline-specific protein arrays
Authors: Poulsen Thomas B. G. , Damgaard Dres , Jørgensen Malene M. , Senolt Ladislav , Blackburn Jonathan M. , Nielsen Claus H. , Stensballe Allan 
Published: August 2021

AbstractThe presence or absence of autoantibodies against citrullinated proteins (ACPAs) distinguishes two main groups of rheumatoid arthritis (RA) patients with different etiologies, prognoses, disease severities, and, presumably, disease pathogenesis. The heterogeneous responses of RA patients to various biologics, even among ACPA-positive patients, emphasize the need for further stratification of the patients. We used high-density protein array technology for fingerprinting of ACPA reactivity. Identification of the proteome recognized by ACPAs may be a step to stratify RA patients according to immune reactivity. Pooled plasma samples from 10 anti-CCP-negative and 15 anti-CCP-positive RA patients were assessed for ACPA content using a modified protein microarray containing 1631 different natively folded proteins citrullinated in situ by protein arginine deiminases (PADs) 2 and PAD4. IgG antibodies from anti-CCP-positive RA plasma showed high-intensity binding to 87 proteins citrullinated by PAD2 and 99 proteins citrullinated by PAD4 without binding significantly to the corresponding native proteins. Curiously, the binding of IgG antibodies in anti-CCP-negative plasma was also enhanced by PAD2- and PAD4-mediated citrullination of 29 and 26 proteins, respectively. For only four proteins, significantly more ACPA binding occurred after citrullination with PAD2 compared to citrullination with PAD4, while the opposite was true for one protein. We demonstrate that PAD2 and PAD4 are equally efficient in generating citrullinated autoantigens recognized by ACPAs. Patterns of proteins recognized by ACPAs may serve as a future diagnostic tool for further subtyping of RA patients.
Ultrasound-assisted extraction of protein from Bombay locusts and its impact on functional and antioxidative properties
Authors: Kingwascharapong Passakorn , Chaijan Manat , Karnjanapratum Supatra 
Published: August 2021

AbstractImpact of ultrasound-assisted process (UAP) on yield, functional properties, antioxidant properties and molecular characteristics of protein extracted from Bombay locusts (BL) (Patanga succinta L.) was studied. Different conditions of UAP were implemented for different amplitudes (40–60%) and times (10–30 min) during aqueous extraction. Notably, UAP could enhance yield and protein recovery, compared with those from typical process (TP) (continuously stirred at 100 rpm at room temperature for 1 h). UAP conditions used governed the change of surface hydrophobicity and free α-amino content of BL. UAP could improve solubility of BL, especially at pH levels higher than 2. UAP had no significant (p > 0.05) detrimental effects on foaming capacity and stability of BL. Nevertheless, UAP, particularly at 50–60% amplitudes, affected the emulsion activity and stability of BL. UAP provided BL with high radical scavenging activities and good electron donating ability, especially that from 60% amplitude for 20 min (UAP-60/20). UAP-60/20 showed the impact on change of isoelectric point and molecular characteristic monitored by Fourier transform infrared (FTIR) of BL, compared to those from TP. In addition, BL was also an excellent source of both essential and nonessential amino acids. Therefore, UAP potentially enhanced BL extraction efficiency, resulting the BL with good functional and antioxidative properties.