bluuebunny/crossref_metadata_2025_split huggingface dataset:
Influence of Thermodynamic State Changes on Surface Cloud Radiative Forcing in the Arctic: A Comparison of Two Approaches Using Data From AFLUX and SHEBA
Authors: Stapf Johannes , Ehrlich André , Wendisch Manfred 
Published: February 2021

AbstractThe cloud radiative forcing (CRF) quantifies the warming or cooling effects of clouds. To derive the CRF, reference values of net (downward minus upward) irradiances in cloud‐free conditions are required. There are two groups of techniques to estimate these reference values; one is based on radiative transfer modeling, and a second group uses measurements in cloud‐free situations. To compare both approaches, we first look at a case study from the airborne measurements of radiative and turbulent FLUXes of energy and momentum in the Arctic boundary layer (AFLUX) campaign, where a moving cloud field with a sharp edge separating a cloudy boundary layer from an adjacent evolving cloud‐free area was probed. These data enabled the quantification of the impact of changing atmospheric and surface properties relevant for the reference net irradiances in cloud‐free conditions. The systematically higher surface albedo below clouds compared to cloud‐free conditions, results in a 11 W·m−2 smaller shortwave cooling effect by clouds estimated from the radiative transfer approach compared to the measurement‐based one. Due to the transition of thermodynamic parameters between the cloudy and cloud‐free atmospheric states, a 20 W·m−2 stronger warming effect is estimated by the radiative transfer approach. In a second step, radiative transfer simulations based on radiosoundings from the Surface Heat Budget of the Arctic Ocean campaign are used to quantify the impact of the vertical profiles of thermodynamic properties on the CRF. The largest difference between the longwave CRF estimated by the two methods is found in autumn with up to 25 W·m−2.
Morphodynamic Equilibria in Short Tidal Basins Using a 2DH Exploratory Model
Authors: Boelens Thomas , Qi Tian , Schuttelaars Henk , De Mulder Tom 
Published: February 2021

AbstractA depth‐averaged (2DH) exploratory model is developed to identify morphodynamic equilibria in short mesotidal inlet systems with arbitrary planform geometries. The water motion is forced by an M
2 tidal constituent at the seaward entrance and is described by the depth‐averaged shallow water equations, whereas the depth‐integrated suspended sediment concentration follows from a diffusion equation, taking into account local inertia, horizontal eddy diffusion and topographically induced diffusive effects, erosion, and deposition. Based on a scaling analysis, it follows that the fine sandy bed evolution is dominated by the depth‐integrated diffusive sediment transport. The depth‐integrated advective contributions are one order smaller and therefore neglected. This observation also allows for the neglect of the advective terms in the governing equations. The associated morphodynamic equilibria are directly identified based on a continuation approach. By means of the exploratory model, the morphodynamic equilibria are studied in basins with a planform geometry characterized by width variations as a function of the distance to the seaward boundary. The model results show that in the case of a sufficient degree of widening in the landward direction, the equilibrium bed level exhibits significant lateral structures, characterized by shallow zones and deeper channels. The first channel bifurcation, as observed in many short tidal inlet systems, is forced by the planform geometry of the basin, and the associated physical mechanisms are explained. Furthermore, two mechanisms inducing asymmetric morphodynamic equilibria are investigated, of which the effect of an asymmetric basin planform seems to be dominant over that of the Coriolis force.
Bright, high-repetition-rate water window soft X-ray source enabled by nonlinear pulse self-compression in an antiresonant hollow-core fibre
Authors: Gebhardt M. , Heuermann T. , Klas R. , Liu C. , Kirsche A. , Lenski M. , Wang Z. , Gaida C. , Antonio-Lopez J. E. , Schülzgen A. , Amezcua-Correa R. , Rothhardt J. , Limpert J. 
Published: February 2021

AbstractBright, coherent soft X-ray radiation is essential to a variety of applications in fundamental research and life sciences. To date, a high photon flux in this spectral region can only be delivered by synchrotrons, free-electron lasers or high-order harmonic generation sources, which are driven by kHz-class repetition rate lasers with very high peak powers. Here, we establish a novel route toward powerful and easy-to-use SXR sources by presenting a compact experiment in which nonlinear pulse self-compression to the few-cycle regime is combined with phase-matched high-order harmonic generation in a single, helium-filled antiresonant hollow-core fibre. This enables the first 100 kHz-class repetition rate, table-top soft X-ray source that delivers an application-relevant flux of 2.8 × 106 photon s−1 eV−1 around 300 eV. The fibre integration of temporal pulse self-compression (leading to the formation of the necessary strong-field waveforms) and pressure-controlled phase matching will allow compact, high-repetition-rate laser technology, including commercially available systems, to drive simple and cost-effective, coherent high-flux soft X-ray sources.
On the road to smart biomaterials for bone research: definitions, concepts, advances, and outlook
Authors: Montoya Carolina , Du Yu , Gianforcaro Anthony L. , Orrego Santiago , Yang Maobin , Lelkes Peter I. 
Published: February 2021

AbstractThe demand for biomaterials that promote the repair, replacement, or restoration of hard and soft tissues continues to grow as the population ages. Traditionally, smart biomaterials have been thought as those that respond to stimuli. However, the continuous evolution of the field warrants a fresh look at the concept of smartness of biomaterials. This review presents a redefinition of the term “Smart Biomaterial” and discusses recent advances in and applications of smart biomaterials for hard tissue restoration and regeneration. To clarify the use of the term “smart biomaterials”, we propose four degrees of smartness according to the level of interaction of the biomaterials with the bio-environment and the biological/cellular responses they elicit, defining these materials as inert, active, responsive, and autonomous. Then, we present an up-to-date survey of applications of smart biomaterials for hard tissues, based on the materials’ responses (external and internal stimuli) and their use as immune-modulatory biomaterials. Finally, we discuss the limitations and obstacles to the translation from basic research (bench) to clinical utilization that is required for the development of clinically relevant applications of these technologies.
The population genomics of adaptive loss of function
Authors: Monroe J. Grey , McKay John K. , Weigel Detlef , Flood Pádraic J. 
Published: February 2021

AbstractDiscoveries of adaptive gene knockouts and widespread losses of complete genes have in recent years led to a major rethink of the early view that loss-of-function alleles are almost always deleterious. Today, surveys of population genomic diversity are revealing extensive loss-of-function and gene content variation, yet the adaptive significance of much of this variation remains unknown. Here we examine the evolutionary dynamics of adaptive loss of function through the lens of population genomics and consider the challenges and opportunities of studying adaptive loss-of-function alleles using population genetics models. We discuss how the theoretically expected existence of allelic heterogeneity, defined as multiple functionally analogous mutations at the same locus, has proven consistent with empirical evidence and why this impedes both the detection of selection and causal relationships with phenotypes. We then review technical progress towards new functionally explicit population genomic tools and genotype-phenotype methods to overcome these limitations. More broadly, we discuss how the challenges of studying adaptive loss of function highlight the value of classifying genomic variation in a way consistent with the functional concept of an allele from classical population genetics.
Shape effect on MHD flow of time fractional Ferro-Brinkman type nanofluid with ramped heating
Authors: Saqib Muhammad , Khan Ilyas , Shafie Sharidan , Mohamad Ahmad Qushairi 
Published: February 2021

AbstractThe colloidal suspension of nanometer-sized particles of Fe3O4in traditional base fluids is referred to as Ferro-nanofluids. These fluids have many technological applications such as cell separation, drug delivery, magnetic resonance imaging, heat dissipation, damping, and dynamic sealing. Due to the massive applications of Ferro-nanofluids, the main objective of this study is to consider the MHD flow of water-based Ferro-nanofluid in the presence of thermal radiation, heat generation, and nanoparticle shape effect. The Caputo-Fabrizio time-fractional Brinkman type fluid model is utilized to demonstrate the proposed flow phenomenon with oscillating and ramped heating boundary conditions. The Laplace transform method is used to solve the model for both ramped and isothermal heating for exact solutions. The ramped and isothermal solutions are simultaneously plotted in the various figures to study the influence of pertinent flow parameters. The results revealed that the fractional parameter has a great impact on both temperature and velocity fields. In the case of ramped heating, both temperature and velocity fields decreasing with increasing fractional parameter. However, in the isothermal case, this trend reverses near the plate and gradually, ramped, and isothermal heating became alike away from the plate for the fractional parameter. Finally, the solutions for temperature and velocity fields are reduced to classical form and validated with already published results.
TRPM8 channel inhibitor-encapsulated hydrogel as a tunable surface for bone tissue engineering
Authors: Acharya Tusar Kanta , Kumar Satish , Tiwari Nikhil , Ghosh Arijit , Tiwari Ankit , Pal Subhashis , Majhi Rakesh Kumar , Kumar Ashutosh , Das Rashmita , Singh Abhishek , Maji Pradip K. , Chattopadhyay Naibedya , Goswami Luna , Goswami Chandan 
Published: February 2021

AbstractA major limitation in the bio-medical sector is the availability of materials suitable for bone tissue engineering using stem cells and methodology converting the stochastic biological events towards definitive as well as efficient bio-mineralization. We show that osteoblasts and Bone Marrow-derived Mesenchymal Stem Cell Pools (BM-MSCP) express TRPM8, a Ca2+-ion channel critical for bone-mineralization. TRPM8 inhibition triggers up-regulation of key osteogenesis factors; and increases mineralization by osteoblasts. We utilized CMT:HEMA, a carbohydrate polymer-based hydrogel that has nanofiber-like structure suitable for optimum delivery of TRPM8-specific activators or inhibitors. This hydrogel is ideal for proper adhesion, growth, and differentiation of osteoblast cell lines, primary osteoblasts, and BM-MSCP. CMT:HEMA coated with AMTB (TRPM8 inhibitor) induces differentiation of BM-MSCP into osteoblasts and subsequent mineralization in a dose-dependent manner. Prolonged and optimum inhibition of TRPM8 by AMTB released from the gels results in upregulation of osteogenic markers. We propose that AMTB-coated CMT:HEMA can be used as a tunable surface for bone tissue engineering. These findings may have broad implications in different bio-medical sectors.
Glypican-3 targeted delivery of 89Zr and 90Y as a theranostic radionuclide platform for hepatocellular carcinoma
Authors: Labadie Kevin P. , Ludwig Andrew D. , Lehnert Adrienne L. , Hamlin Donald K. , Kenoyer Aimee L. , Sullivan Kevin M. , Daniel Sara K. , Mihailovic Tara N. , Sham Jonathan G. , Orozco Johnnie J. , Yeung Raymond S. , Chen Delphine L. , Wilbur D. Scott , Miyaoka Robert S. , Park James O. 
Published: February 2021

AbstractGlypican-3 (GPC3) is a tumor associated antigen expressed by hepatocellular carcinoma (HCC) cells. This preclinical study evaluated the efficacy of a theranostic platform using a GPC3-targeting antibody αGPC3 conjugated to zirconium-89 (89Zr) and yttrium-90 (90Y) to identify, treat, and assess treatment response in a murine model of HCC. A murine orthotopic xenograft model of HCC was generated. Animals were injected with 89Zr-labeled αGPC3 and imaged with a small-animal positron emission/computerized tomography (PET/CT) imaging system (immuno-PET) before and 30 days after radioimmunotherapy (RIT) with 90Y-labeled αGPC3. Serum alpha fetoprotein (AFP), a marker of tumor burden, was measured. Gross tumor volume (GTV) and SUVmax by immuno-PET was measured using fixed intensity threshold and manual segmentation methods. Immuno-PET GTV measurements reliably quantified tumor burden prior to RIT, strongly correlating with serum AFP (R2 = 0.90). Serum AFP was significantly lower 30 days after RIT in 90Y-αGPC3 treated animals compared to those untreated (p = 0.01) or treated with non-radiolabeled αGPC3 (p = 0.02). Immuno-PET GTV measurements strongly correlated with tumor burden after RIT (R2 = 0.87), and GTV of animals treated with 90Y-αGPC3 was lower than in animals who did not receive treatment or were treated with non-radiolabeled αGPC3, although this only trended toward statistical significance. A theranostic platform utilizing GPC3 targeted 89Zr and 90Y effectively imaged, treated, and assessed response after radioimmunotherapy in a GPC3-expressing HCC xenograft model.
Human visual motion perception shows hallmarks of Bayesian structural inference
Authors: Yang Sichao , Bill Johannes , Drugowitsch Jan , Gershman Samuel J. 
Published: February 2021

AbstractMotion relations in visual scenes carry an abundance of behaviorally relevant information, but little is known about how humans identify the structure underlying a scene’s motion in the first place. We studied the computations governing human motion structure identification in two psychophysics experiments and found that perception of motion relations showed hallmarks of Bayesian structural inference. At the heart of our research lies a tractable task design that enabled us to reveal the signatures of probabilistic reasoning about latent structure. We found that a choice model based on the task’s Bayesian ideal observer accurately matched many facets of human structural inference, including task performance, perceptual error patterns, single-trial responses, participant-specific differences, and subjective decision confidence—especially, when motion scenes were ambiguous and when object motion was hierarchically nested within other moving reference frames. Our work can guide future neuroscience experiments to reveal the neural mechanisms underlying higher-level visual motion perception.
DFT, Monte Carlo and molecular dynamics simulations for the prediction of corrosion inhibition efficiency of novel pyrazolylnucleosides on Cu(111) surface in acidic media
Authors: Oukhrib Rachid , Abdellaoui Youness , Berisha Avni , Abou Oualid Hicham , Halili Jeton , Jusufi Kaltrina , Ait El Had Mustapha , Bourzi Hassan , El Issami Souad , Asmary Fatmah Ali , Parmar Virinder S. , Len Christophe 
Published: February 2021

AbstractFive novel pyrazolylnucleosides have been evaluated theoretically for their corrosion inhibition efficiency on the Cu(111) surface in acidic media. DFT calculations were carried out to exhibit the intrinsic properties such as lowest unoccupied (ELUMO) and highest occupied (EHOMO) molecular orbital energies, as well as energy gap (∆E), chemical hardness (η), chemical softness (σ), electronegativity (χ), electrophilicity (ω) and nucleophilicity (ε). The theoretical FT-IR spectra were recorded to indicate the presence of the specific bonds in the studied molecules. The surface interactions between the inhibitor molecules and the metal surface were investigated using molecular dynamics simulations andMonte Carlo(MC) simulations. As a result, we have found that the inhibitor pyrazolylnucleosides5a–ehave strong interactions with Cu(111) surface, and therefore have excellent predictive inhibition power against copper corrosion.
Analysis of extracellular vesicle mRNA derived from plasma using the nCounter platform
Authors: Bracht Jillian W. P. , Gimenez-Capitan Ana , Huang Chung-Ying , Potie Nicolas , Pedraz-Valdunciel Carlos , Warren Sarah , Rosell Rafael , Molina-Vila Miguel A. 
Published: February 2021

AbstractExtracellular vesicles (EVs) are double-layered phospholipid membrane vesicles that are released by most cells and can mediate intercellular communication through their RNA cargo. In this study, we tested if the NanoString nCounter platform can be used for the analysis of EV-mRNA. We developed and optimized a methodology for EV enrichment, EV-RNA extraction and nCounter analysis. Then, we demonstrated the validity of our workflow by analyzing EV-RNA profiles from the plasma of 19 cancer patients and 10 controls and developing a gene signature to differentiate cancer versus control samples. TRI reagent outperformed automated RNA extraction and, although lower plasma input is feasible, 500 μL provided highest total counts and number of transcripts detected. A 10-cycle pre-amplification followed by DNase treatment yielded reproducible mRNA target detection. However, appropriate probe design to prevent genomic DNA binding is preferred. A gene signature, created using a bioinformatic algorithm, was able to distinguish between control and cancer EV-mRNA profiles with an area under the ROC curve of 0.99. Hence, the nCounter platform can be used to detect mRNA targets and develop gene signatures from plasma-derived EVs.
Spatio-temporal distribution characteristics and influencing factors of COVID-19 in China
Authors: Chen Youliang , Li Qun , Karimian Hamed , Chen Xunjun , Li Xiaoming 
Published: February 2021

AbstractIn December 2019, corona virus disease 2019 (COVID-19) has broken out in China. Understanding the distribution of disease at the national level contributes to the formulation of public health policies. There are several studies that investigating the influencing factors on distribution of COVID-19 in China. However, more influencing factors need to be considered to improve our understanding about the current epidemic. Moreover, in the absence of effective medicine or vaccine, the Chinese government introduced a series of non-pharmaceutical interventions (NPIs). However, assessing and predicting the effectiveness of these interventions requires further study. In this paper, we used statistical techniques, correlation analysis and GIS mapping expression method to analyze the spatial and temporal distribution characteristics and the influencing factors of the COVID-19 in mainland China. The results showed that the spread of outbreaks in China’s non-Hubei provinces can be divided into five stages. Stage I is the initial phase of the COVID-19 outbreak; in stage II the new peak of the epidemic was observed; in stage III the outbreak was contained and new cases decreased; there was a rebound in stage IV, and stage V led to level off. Moreover, the cumulative confirmed cases were mainly concentrated in the southeastern part of China, and the epidemic in the cities with large population flows from Wuhan was more serious. In addition, statistically significant correlations were found between the prevalence of the epidemic and the temperature, rainfall and relative humidity. To evaluate the NPIs, we simulated the prevalence of the COVID-19 based on an improved SIR model and under different prevention intensity. It was found that our simulation results were compatible with the observed values and the parameter of the time function in the improved SIR model for China is a = − 0.0058. The findings and methods of this study can be effective for predicting and managing the epidemics and can be used as an aid for decision makers to control the current and future epidemics.
Differential expression of PD-L1 between primary and metastatic epithelial ovarian cancer and its clinico-pathological correlation
Authors: Parvathareddy Sandeep Kumar , Siraj Abdul K. , Al-Badawi Ismail A. , Tulbah Asma , Al-Dayel Fouad , Al-Kuraya Khawla S. 
Published: February 2021

AbstractOvarian cancer (OC) is one of the most common gynecologic cancer, which has the worst prognosis and highest mortality rate. The lack of curative treatment and the high relapse rate, especially in advanced OC, continues to present a clinical challenge, highlighting the need for new therapeutic strategies. This study was performed to compare the expression of PD-L1 in primary epithelial ovarian cancer (EOC) and their corresponding peritoneal metastases, as well as to evaluate its correlation with clinico-pathological parameters. In total, 194 treatment naïve paired EOC and peritoneal metastasis were analyzed by immunohistochemistry for PD-L1 expression. Clinico-pathological information was available for all patients. Significant differences in PD-L1 expression were found between primary EOC and peritoneal metastasis (p < 0.0001). We found discordant tumor cell PD-L1 expression between primary tumors and corresponding peritoneal metastasis in 34% (66/194) of cases. Furthermore, PD-L1 expression in peritoneal metastasis samples was significantly associated with adverse prognostic factors, such as high proliferative index (Ki67) (p = 0.0039) and high histologic grade (p = 0.0330). In conclusion, the discordance of PD-L1 expression between primary EOC and corresponding peritoneal metastases suggests that its assessment as a potential biomarker for predicting response to anti-PD-L1 therapy may require analysis of metastatic lesions.
The potential pathways underlying the association of propyl-paraben exposure with aeroallergen sensitization and EASI score using metabolomics analysis
Authors: Lee Yujin , Lee Eun , Yon Dong Keon , Jee Hye Mi , Baek Hey Sung , Lee Seung Won , Cho Joo-Youn , Han Man Yong 
Published: February 2021

AbstractPropyl-paraben exposure is associated with aeroallergen sensitization, but its association with atopic dermatitis (AD) is inconclusive. No studies have been conducted on the metabolomic pathways underlying these associations. We investigated the associations between propyl-paraben exposure and aeroallergen sensitization, AD, and Eczema Area and Severity Index (EASI) score and identified the underlying pathways using untargeted metabolomics analysis. We enrolled 455 children in a general population study. Skin prick tests were performed with the assessment of EASI score. Urinary propyl-, butyl-, ethyl-, and methyl-paraben levels were measured. Untargeted metabolomics analysis was performed on the first and fifth urine propyl-paraben quintile groups. The highest urine propyl-paraben quintile group was associated with aeroallergen sensitization, but not with AD. Glycine, threonine, serine, ornithine, isoleucine, arabinofuranose, d-lyxofuranose, citrate, and picolinic acid levels were higher, whereas palmitic acid and 2-palmitoylglycerol levels were lower in the highest quintile propyl-paraben group, than in the lowest quintile group. The propyl-paraben-induced metabolic perturbations were associated with serine and glycine metabolisms, branched-chain amino acid metabolism, and ammonia recycling. Propyl-paraben exposure was associated with aeroallergen sensitization and EASI score, partially via metabolomic changes related with oxidative stress, mTOR, peroxisome proliferator-activated receptors pathway, aryl hydrocarbon receptor signaling pathways, and tricarboxylic acid cycle.