bluuebunny/crossref_metadata_2025_split huggingface dataset:
Whole-genome risk prediction of common diseases in human preimplantation embryos
Authors: Kumar Akash , Im Kate , Banjevic Milena , Ng Pauline C. , Tunstall Tate , Garcia Geronimo , Galhardo Luisa , Sun Jiayi , Schaedel Oren N. , Levy Brynn , Hongo Donna , Kijacic Dusan , Kiehl Michelle , Tran Nam D. , Klatsky Peter C. , Rabinowitz Matthew 
Published: March 2022

AbstractPreimplantation genetic testing (PGT) of in-vitro-fertilized embryos has been proposed as a method to reduce transmission of common disease; however, more comprehensive embryo genetic assessment, combining the effects of common variants and rare variants, remains unavailable. Here, we used a combination of molecular and statistical techniques to reliably infer inherited genome sequence in 110 embryos and model susceptibility across 12 common conditions. We observed a genotype accuracy of 99.0–99.4% at sites relevant to polygenic risk scoring in cases from day-5 embryo biopsies and 97.2–99.1% in cases from day-3 embryo biopsies. Combining rare variants with polygenic risk score (PRS) magnifies predicted differences across sibling embryos. For example, in a couple with a pathogenic BRCA1 variant, we predicted a 15-fold difference in odds ratio (OR) across siblings when combining versus a 4.5-fold or 3-fold difference with BRCA1 or PRS alone. Our findings may inform the discussion of utility and implementation of genome-based PGT in clinical practice.
Presence of CrkI-containing microvesicles in squamous cell carcinomas could have ramifications on tumor biology and cancer therapeutics
Authors: Mohamed Mohamed F. , Al-Khudari Samer , Cassini-Vieira Puebla , Erra Amani , Bagabas Reem , Houser Thomas , Stenson Kerstin , Bhayani Mihir , Jelinek Michael J. , Bishehsari Faraz , Kuzel Timothy M. , Shafikhani Sasha H. 
Published: March 2022

AbstractRecently, we described a phenomenon whereby apoptotic cells generate and release CrkI-containing microvesicles, which stimulate proliferation in surrounding cells upon contact to compensate for their own demise. We termed these microvesicles “ACPSVs” for Apoptotic Compensatory Proliferation Signaling microvesicles. As immune cells and a majority of current cancer therapeutics destroy tumor cells primarily by apoptosis, we conducted a small pilot study to assess the possibility that ACPSVs may also be generated in squamous cell carcinomas. We first evaluated a primary and a metastatic squamous cell carcinoma cancer cell lines for their ability to produce ACPSVs under normal and apoptotic conditions. We next conducted a pilot study to assess the occurrence of ACPSVs in solid tumors extracted from 20 cancer patients with squamous cell carcinomas. Both cancer cell lines produced copious amounts of ACPSVs under apoptotic conditions. Interestingly, the metastatic squamous cell carcinoma cancer cell line also produced high levels of ACPSVs under healthy condition, suggesting that the ability to generate ACPSVs may be hijacked by these cells. Importantly, ACPSVs were also abundant in the solid tumors of all squamous cell carcinoma cancer patients. Detection of ACPSVs in cancer has potentially important ramifications in tumor biology and cancer therapeutics which warrants further investigation.
Transgenerational effects of grandparental and parental diets combine with early-life learning to shape adaptive foraging phenotypes in Amblyseius swirskii
Authors: Schausberger Peter , Rendon Dalila 
Published: March 2022

AbstractTransgenerational effects abound in animals. While a great deal of research has been dedicated to the effects of maternal stressors such as diet deficiency, social deprivation or predation risk on offspring phenotypes, we have a poor understanding of the adaptive value of transgenerational effects spanning across multiple generations under benign conditions and the relative weight of multigenerational effects. Here we show that grandparental and parental diet experiences combine with personal early-life learning to form adaptive foraging phenotypes in adult plant-inhabiting predatory mitesAmblyseius swirskii. Our findings provide insights into transgenerational plasticity caused by persistent versus varying conditions in multiple ancestral generations and show that transgenerational effects may be adaptive in non-matching ancestor and offspring environments.
Design of a gold clustering site in an engineered apo-ferritin cage
Authors: Lu Chenlin , Maity Basudev , Peng Xue , Ito Nozomi , Abe Satoshi , Sheng Xiang , Ueno Takafumi , Lu Diannan 
Published: March 2022

AbstractWater-soluble and biocompatible protein-protected gold nanoclusters (Au NCs) hold great promise for numerous applications. However, design and precise regulation of their structure at an atomic level remain challenging. Herein, we have engineered and constructed a gold clustering site at the 4-fold symmetric axis channel of the apo-ferritin cage. Using a series of X-ray crystal structures, we evaluated the stepwise accumulation process of Au ions into the cage and the formation of a multinuclear Au cluster in our designed cavity. We also disclosed the role of key residues in the metal accumulation process. X-ray crystal structures in combination with quantum chemical (QC) calculation revealed a unique Au clustering site with up to 12 Au atoms positions in the cavity. Moreover, the structure of the gold nanocluster was precisely tuned by the dosage of the Au precursor. As the gold concentration increases, the number of Au atoms position at the clustering site increases from 8 to 12, and a structural rearrangement was observed at a higher Au concentration. Furthermore, the binding affinity order of the four Au binding sites on apo-ferritin was unveiled with a stepwise increase of Au precursor concentration.
Emergent half-metal at finite temperatures in a Mott insulator
Authors: Jana Gour , Joshi Abhishek , Pal Subhajyoti , Mukherjee Anamitra 
Published: March 2022

AbstractSustaining exotic quantum mechanical phases at high temperatures is a long-standing goal of condensed matter physics. Among them, half-metals are spin-polarized conductors that are essential for realizing room-temperature spin current sources. However, typical half-metals are low-temperature phases whose spin polarization rapidly deteriorates with temperature increase. Here, we first show that a low-temperature insulator with an unequal charge gap for the two spin channels can arise from competing Mott and band insulating tendencies. We establish that thermal fluctuations can drive this insulator to a half-metal through a first-order phase transition by closing the charge gap for one spin channel. This half-metal has 100% spin polarization at the onset temperature of metallization. Further, varying the strength of electron repulsion can enhance the onset temperature while preserving spin polarization. We outline experimental scenarios for realizing this tunable finite temperature half-metal.
Tensor-network study of correlation-spreading dynamics in the two-dimensional Bose-Hubbard model
Authors: Kaneko Ryui , Danshita Ippei 
Published: March 2022

AbstractRecent developments in analog quantum simulators based on cold atoms and trapped ions call for cross-validating the accuracy of quantum-simulation experiments with use of quantitative numerical methods; however, it is particularly challenging for dynamics of systems with more than one spatial dimension. Here we demonstrate that a tensor-network method running on classical computers is useful for this purpose. We specifically analyze real-time dynamics of the two-dimensional Bose-Hubbard model after a sudden quench starting from the Mott insulator by means of the tensor-network method based on infinite projected entangled pair states. Calculated single-particle correlation functions are found to be in good agreement with a recent experiment. By estimating the phase and group velocities from the single-particle and density-density correlation functions, we predict how these velocities vary in the moderate interaction region, which serves as a quantitative benchmark for future experiments and numerical simulations.
The fundamental plane in the hierarchical context
Authors: D’Onofrio M. , Chiosi C. 
Published: March 2022

Context. The fundamental plane (FP) relation and the distribution of early-type galaxies (ETGs) in the FP projections cannot be easily explained in the hierarchical framework, where galaxies grow up by merging and as a result of star formation episodes.
Aims. We want to show here that both the FP and its projections arise naturally from the combination of the virial theorem (VT) and a new time-dependent relation, describing how luminosity and stellar velocity dispersion change during galaxy evolution. This relation has the form of the Faber-Jackson relation, but a different physical meaning: the new relation is L = L0′(t)σβ(t), where its coefficients L0′ and β are time-dependent and can vary considerably from object to object, at variance with those obtained from the fit of the L − σ plane.
Methods. By combining the VT and L = L0′(t)σβ(t) law, we derived an equation for each galaxy that is identical in form to the FP, but with coefficients depending on β. This allowed us to extract the solutions for β as a function of the structural parameters of ETGs and consequently calculate the coefficients of the FP-like equations.
Results. We demonstrate that the observed properties of ETGs in the FP and its projections can be understood in terms of variations of β and L0′. These two parameters encrypt the history of galaxy evolution across the cosmic epochs and determine the future aspect of the FP and its projections. In particular, we show that the FP coefficients are simple averages of those in the FP-like equations valid for each galaxy, and that the variations of β naturally explain the distributions of ETGs observed in the FP projections and the direction of the border of the Zone of Exclusion.
Detection of periodic flares in 6.7 GHz methanol masers G45.804−0.356 and G49.043−1.079
Authors: Olech M. , Durjasz M. , Szymczak M. , Bartkiewicz A. 
Published: March 2022

Context. Periodicity in 6.7 GHz methanol maser sources is a rare phenomenon that was discovered during long-term monitoring programmes. Understanding the underlying processes that lead to periodic variability might provide insights into the physical processes in high-mass star-forming regions.
Aims. We aim to identify and describe new periodic methanol masers.
Methods. The observations were obtained with the Torun 32 m antenna. Time series analysis was conducted using well-proven statistical methods. Additionally, NEOWISE data were used to search for a correlation between infrared and maser fluxes.
Results. We found two new periodic sources, G45.804−0.356 and G49.043−1.079, with periods of 416.9 and 469.3 days, respectively. For G49.043−1.079, infrared variability is simultaneous with methanol flares.
Conclusions. A most likely cause of the periodicity in G49.043−1.079 is modulated accretion. For G45.804-0.356, the periodicity cannot be explained with the available data, and further research is needed.
Satellite magnetic data reveal interannual waves in Earth’s core
Authors: Gillet Nicolas , Gerick Felix , Jault Dominique , Schwaiger Tobias , Aubert Julien , Istas Mathieu 
Published: March 2022

Significance
The physics responsible for most of the interannual geomagnetic field changes, continually recorded by satellites for 20 years, is a long-standing open issue. By analyzing magnetic data, we detect Magneto–Coriolis waves in the Earth’s outer core that account for a significant part of this signal. We further propose theoretical advances in the physical characterization of these waves, enabling a deeper understanding of the dynamics behind the geomagnetic signal. It should allow one to better sketch the heterogeneous magnetic field deep within the core, shedding further light on the mechanisms that sustain the geodynamo. Our interpretation does not require the presence of a stratified layer at the top of the core, with potent consequences regarding the Earth’s thermal history.
Photopharmacological modulation of native CRAC channels using azoboronate photoswitches
Authors: Udasin Ronald , Sil Anwesha , Zomot Elia , Achildiev Cohen Hadas , Haj Jozafina , Engelmayer Nurit , Lev Shaya , Binshtok Alexander M. , Shaked Yuval , Kienzler Michael A. , Palty Raz 
Published: March 2022

SignificanceCalcium release–activated calcium (CRAC) channels play key roles in the regulation of cellular signaling, transcription, and migration. Here, we describe the design, chemical synthesis, and characterization of photoswitchable channel inhibitors that can be switched on and off depending on the wavelength of light used. We use the compounds to induce light-dependent modulation of channel activity and downstream gene expression in human immune cells. We further expand the usage of the compounds to control seeding of cancer cells in target tissue and regulation of response to noxious stimuli in vivo in mice.
The age of the opening of the Ice-Free Corridor and implications for the peopling of the Americas
Authors: Clark Jorie , Carlson Anders E. , Reyes Alberto V. , Carlson Elizabeth C. B. , Guillaume Louise , Milne Glenn A. , Tarasov Lev , Caffee Marc , Wilcken Klaus , Rood Dylan H. 
Published: March 2022

SignificanceThe Ice-Free Corridor (IFC) has long played a key role in hypotheses about the peopling of the Americas. Earlier assessments of its age suggested that the IFC was available for a Clovis-first migration, but subsequent developments now suggest a pre-Clovis occupation of the Americas that occurred before the opening of the IFC, thus supporting a Pacific coastal migration route instead. However, large uncertainties in existing ages from the IFC cannot preclude its availability as a route for the first migrations. Resolving this debate over migration route is important for addressing the questions of when and how the first Americans arrived. We report cosmogenic nuclide exposure ages that show that the final opening of the IFC occurred well after pre-Clovis occupation.
sEH-derived metabolites of linoleic acid drive pathologic inflammation while impairing key innate immune cell function in burn injury
Authors: Bergmann Christian B. , McReynolds Cindy B. , Wan Debin , Singh Nalin , Goetzman Holly , Caldwell Charles C. , Supp Dorothy M. , Hammock Bruce D. 
Published: March 2022

Significance
Oxylipins alter immune cell function and potentially drive pathophysiology in burn and sepsis patients. Past and recent data reveal a correlation between increased systemic EpOME levels and reduced survival in human burn trauma and sepsis. This work extends these studies and provides evidence that the downstream sEH-derived metabolites, DiHOMEs, are driving worsening outcomes by altering the immune response. Inhibiting DiHOME metabolite formation with the sEH inhibitor, 1-trifluoromethoxyphenyl-3-(1-propionylpiperidin-4-yl) urea (TPPU), restored immune function by increasing immune cell survival and function. These data support the hypothesis that sEH-derived linoleic acid diols are responsible for increased mortality in burn and sepsis patients and also provide a rationale for testing the therapeutic blockage of DiHOME generation in burn and sepsis patients to improve their outcomes.
A sociopragmatic account of religiosity and secularity in fictional narratives
Authors: Elsaadany Kamel Abdelbadie 
Published: March 2022

AbstractThis paper investigates the religiosity/secularity dichotomy in Naguib Mahfouz’s novels, which is shaped by cultural narratives that convey his ideas. It analyzes a defined corpus of Mahfouz’s narratives that articulate his notions of religiosity/secularity. Through an interdisciplinary methodology combining the application of pragmatics, interactional sociolinguistics, and contextual analysis, it aims to determine Mahfouz’s potentiality for perceiving and narrativizing religiosity and secularity in twentieth-century Egypt. It discusses how Mahfouz adopts sociopragmatic techniques to give a bright picture of the secularist discourse but a negative one for the Islamist one presented as inevitably incapable, crude, schizophrenic and idiosyncratic. Mahfouz openly destabilizes the religious/secular dichotomy by juxtaposing religious and secular discourses in his early and later narratives, where he scrutinizes secularity, advocating it as the only way out of and uprooting, religiosity. The adoption of an interdisciplinary framework proves to be theoretically and empirically motivated in order to show how Mahfouz’s narratives reflect their originator’s own beliefs and those of the narrated society, including its value systems.
Improved stabilization scheme for extreme ultraviolet quantum interference experiments
Authors: Uhl Daniel , Wituschek Andreas , Bangert Ulrich , Binz Marcel , Callegari Carlo , Di Fraia Michele , Plekan Oksana , Prince Kevin Charles , Cerullo Giulio , Giannessi Luca , Danailov Miltcho , Sansone Giuseppe , Laarmann Tim , Michiels Rupert , Mudrich Marcel , Piseri Paolo , Squibb Richard James , Feifel Raimund , Stranges Stefano , Stienkemeier Frank , Bruder Lukas 
Published: March 2022

Abstract
Interferometric pump–probe experiments in the extreme ultraviolet (XUV) domain are experimentally very challenging due to the high phase stability required between the XUV pulses. Recently, an efficient phase stabilization scheme was introduced for seeded XUV free electron lasers (FELs) combining shot-to-shot phase modulation with lock-in detection Wituschek et al (2020 Nat. Commun.
11 883). This method stabilized the seed laser beampath on the fundamental ultraviolet wavelength to a high degree. Here, we extend this scheme including the stabilization of the XUV beampath, incorporating phase fluctuations from the FEL high gain harmonic generation process. Our analysis reveals a clear signal improvement with the new method compared to the previous stabilization scheme.
Exploring temperature dependent electron–electron interaction of rocksalt SnS and SnSe within Matsubara-time domain
Authors: Sihi Antik , Pandey Sudhir K 
Published: March 2022

Abstract
Both experimental and theoretical studies show non-trivial topological behaviour in native rocksalt phase for SnS and SnSe and categorize these materials in topological crystalline insulators. Here, the detailed electronic structures studies of SnS and SnSe in the rocksalt phase are carried out using many-body GW based theory and density functional theory both for ground states and temperature dependent excited states. The estimated values of fundamental direct bandgaps around L-point using G
0
W
0 (mBJ) are ∼0.27 (∼0.13) eV and ∼0.37 (∼0.17) eV for SnS and SnSe, respectively. The strength of hybridization between Sn 5p and S 3p (Se 4p) orbitals for SnS (SnSe) shows strong k-dependence. The behaviour of

W

¯

(ω), which is the averaged value of diagonal matrix elements of fully screened Coulomb interaction, suggests to use full-GW method for exploring the excited states because the correlation effects within these two materials are relatively weak. The temperature dependent electronic structure calculations for SnS and SnSe provide linearly decreasing behaviour of bandgaps with rise in temperatures. The existence of collective excitation of quasiparticles in form of plasmon is predicted for these compounds, where the estimated values of plasmon frequency are ∼9.5 eV and ∼9.3 eV for SnS and SnSe, respectively. The imaginary part of self-energy and mass renormalization factor (Z

k
(ω)) due to electron–electron interaction (EEI) are also calculated along W–L–Γ direction for both the materials, where the estimated ranges of Z

k
(ω) are 0.70 to 0.79 and 0.71 to 0.78 for SnS and SnSe, respectively, along this k-direction. The present comparative study reveals that the behaviour of temperature dependent EEI for SnS and SnSe are the almost same and EEI is important for high temperature transport properties.
Reducing leakage current and enhancing polarization in multiferroic 3D super-nanocomposites by microstructure engineering
Authors: Enriquez Erik , Lu Ping , Li Leigang , Zhang Bruce , Wang Haiyan , Jia Quanxi , Chen Aiping 
Published: March 2022

Abstract
Multiferroic materials have generated great interest due to their potential as functional device materials. Nanocomposites have been increasingly used to design and generate new functionalities by pairing dissimilar ferroic materials, though the combination often introduces new complexity and challenges unforeseeable in single-phase counterparts. The recently developed approaches to fabricate 3D super-nanocomposites (3D‐sNC) open new avenues to control and enhance functional properties. In this work, we develop a new 3D‐sNC with CoFe2O4 (CFO) short nanopillar arrays embedded in BaTiO3 (BTO) film matrix via microstructure engineering by alternatively depositing BTO:CFO vertically-aligned nanocomposite layers and single-phase BTO layers. This microstructure engineering method allows encapsulating the relative conducting CFO phase by the insulating BTO phase, which suppress the leakage current and enhance the polarization. Our results demonstrate that microstructure engineering in 3D‐sNC offers a new bottom–up method of fabricating advanced nanostructures with a wide range of possible configurations for applications where the functional properties need to be systematically modified.
Fe3O4-doped silk fibroin-polyacrylamide hydrogel for selective and highly efficient absorption of cationic dyes pollution in water
Authors: Hu Yongqin , Hou Chen , An Jia , Fang Junan , Shi Yuxia , Fan Qianxi , Liu Guoyi , Liu Yufei 
Published: March 2022

Abstract
Overuse of organic dyes has caused serious threats to the ecosystem and human health. However, the development of high-efficient, environmentally friendly, selective, and degradable cationic dye adsorbents remains a huge challenge. In this work, a novel Fe3O4 nanoparticles doped silk fibroin-polyacrylamide magnetic hybrid hydrogel (Fe3O4@SF-PAAM) was successfully fabricated by combining free radical polymerization to prepare hydrogels and in situ co-precipitation to prepare nanoparticles. The obtained Fe3O4@SF-PAAM hydrogel shows strong magnetic performance with saturated magnetic of 10.2 emu mg−1 and excellent swelling properties with a swelling ratio of 55867%. In addition, Fe3O4@SF-PAAM can adsorb cationic dyes such as methylene blue (MB), crystal violet, and Rhodamine B, but has no adsorption effect on anionic dyes such as methyl orange, congo red, and carmine, indicating that Fe3O4@SF-PAAM has good selective adsorption properties for cationic dyes. Interestingly, the adsorption capacity of Fe3O4@SF-PAAM was approached 2025 mg g–1 for MB (MB, a typical cation dye) at 25 °C and neutral. Meanwhile, the hybrid hydrogel is reusable, the removal rate for MB is still over 90% after the five adsorption–desorption cycles. The fabricated magnetic hybrid hydrogel is a kind of a highly-efficiency and eco-friendly adsorbent and presents great potential applications in water purification and environmental protection.