cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Manipulating the shape of flexible magnetoelastic nanodiscs with meron-like magnetic states
Creators: name: Miranda-Silva, Beatriz
name: Taveira, Pedro H. C.
name: Teixeira, Allison W.
name: Fonseca, Jakson M.
name: Elías, Ricardo G.
name: Vidal-Silva, Nicolas
name: Carvalho-Santos, Vagson L.
Publisher: name: arXiv
Year: 2021
Subjects: subject: Classical Physics (physics.class-ph)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: The control of the magnetic properties of shapeable devices and the manipulation of flexible structures by external magnetic fields is a keystone of future magnetoelectronics-based devices. This work studies the elastic properties of a magnetoelastic nanodisc that hosts a meron as the magnetic state and can be deformed from structures with positive to negative Gaussian curvature. We show that the winding number of the hosted meron is crucial to determine the curvature sign of the stable obtained shape. Additionally, we show that the optimum curvature reached by the nanodisc depends on geometrical and mechanical parameters. It is shown that an increase in the external radius, thickness, and Young's modulus lead to a decrease in the optimum curvature absolute value. Finally, it is shown that the nanodisc's shape also depends on the connection between the polarity and chirality of the vortex-like meron.
description: 8 pages, 6 figures
Helminthes chez les mérous (Perciformes) de la Méditerranée
Creators: name: Chaabane, Amira
Publisher: name: figshare
Year: 2017
Subjects: subject: 60307 Host-Parasite Interactions
subject: FOS: Biological sciences
subject: Parasitology
subject: Zoology
subject: 60301 Animal Systematics and Taxonomy

description: [Helminths from groupers (Perciform) off the Mediterranean Sea]
Thesis was defended in front of the commission on April 29th, 2017
Inverse problem and equivalent contact systems
Creators: name: de León, Manuel
name: Gaset, Jordi
name: Valcázar, Manuel Lainz
Publisher: name: arXiv
Year: 2021
Subjects: subject: Mathematical Physics (math-ph)
subject: FOS: Physical sciences

description: We present several results on the inverse problem and equivalent contactLagrangian systems. These problems naturally lead to consider smooth transformations on the z variable (i.e., reparametrizations of the action). We present the extended contact Lagrangian systems to formalize this notion. With this structure we define horizontal equivalence of Lagrangians, which generalizes the symplectic case. We also present some results on the inverse problem for extended contact systems.
TSGB: Target-Selective Gradient Backprop for Probing CNN Visual Saliency
Creators: name: Cheng, Lin
name: Fang, Pengfei
name: Liang, Yanjie
name: Zhang, Liao
name: Shen, Chunhua
name: Wang, Hanzi
Publisher: name: arXiv
Year: 2021
Subjects: subject: Computer Vision and Pattern Recognition (cs.CV)
subject: Machine Learning (cs.LG)
subject: FOS: Computer and information sciences

description: The explanation for deep neural networks has drawn extensive attention in the deep learning community over the past few years. In this work, we study the visual saliency, a.k.a. visual explanation, to interpret convolutional neural networks. Compared to iteration based saliency methods, single backward pass based saliency methods benefit from faster speed, and they are widely used in downstream visual tasks. Thus, we focus on single backward pass based methods. However, existing methods in this category struggle to uccessfully produce fine-grained saliency maps concentrating on specific target classes. That said, producing faithful saliency maps satisfying both target-selectiveness and fine-grainedness using a single backward pass is a challenging problem in the field. To mitigate this problem, we revisit the gradient flow inside the network, and find that the entangled semantics and original weights may disturb the propagation of target-relevant saliency. Inspired by those observations, we propose a novel visual saliency method, termed Target-Selective Gradient Backprop (TSGB), which leverages rectification operations to effectively emphasize target classes and further efficiently propagate the saliency to the image space, thereby generating target-selective and fine-grained saliency maps. The proposed TSGB consists of two components, namely, TSGB-Conv and TSGB-FC, which rectify the gradients for convolutional layers and fully-connected layers, respectively. Extensive qualitative and quantitative experiments on the ImageNet and Pascal VOC datasets show that the proposed method achieves more accurate and reliable results than the other competitive methods. Code is available at https://github.com/123fxdx/CNNvisualizationTSGB.
description: Accepted by IEEE Transactions on Image Processing. Index Terms: Model interpretability, explanation, saliency map, CNN visualization
Global Topological Dirac Synchronization
Creators: name: Carletti, Timoteo
name: Giambagli, Lorenzo
name: Muolo, Riccardo
name: Bianconi, Ginestra
Publisher: name: arXiv
Year: 2024
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Disordered Systems and Neural Networks (cond-mat.dis-nn)
subject: Mathematical Physics (math-ph)
subject: Dynamical Systems (math.DS)
subject: Adaptation and Self-Organizing Systems (nlin.AO)
subject: FOS: Physical sciences
subject: FOS: Mathematics

description: Synchronization is a fundamental dynamical state of interacting oscillators, observed in natural biological rhythms and in the brain. Global synchronization which occurs when non-linear or chaotic oscillators placed on the nodes of a network display the same dynamics as received great attention in network theory. Here we propose and investigate Global Topological Dirac Synchronization on higher-order networks such as cell and simplicial complexes. This is a state where oscillators associated to simplices and cells of arbitrary dimension, coupled by the Topological Dirac operator, operate at unison. By combining algebraic topology with non-linear dynamics and machine learning, we derive the topological conditions under which this state exists and the dynamical conditions under which it is stable. We provide evidence of 1-dimensional simplicial complexes (networks) and 2-dimensional simplicial and cell complexes where Global Topological Dirac Synchronization can be observed. Our results point out that Global Topological Dirac Synchronization is a possible dynamical state of simplicial and cell complexes that occur only in some specific network topologies and geometries, the latter ones being determined by the weights of the higher-order networks
Perturbation Theory-Aided Learned Digital Back-Propagation Scheme for Optical Fiber Nonlinearity Compensation
Creators: name: Lin, Xiang
name: Luo, Shenghang
name: Soman, Sunish Kumar Orappanpara
name: Dobre, Octavia A.
name: Lampe, Lutz
name: Chang, Deyuan
name: Li, Chuandong
Publisher: name: arXiv
Year: 2021
Subjects: subject: Signal Processing (eess.SP)
subject: FOS: Electrical engineering, electronic engineering, information engineering

description: Derived from the regular perturbation treatment of the nonlinear Schrodinger equation, a machine learning-based scheme to mitigate the intra-channel optical fiber nonlinearity is proposed. Referred to as the perturbation theory-aided (PA) learned digital back-propagation (LDBP), the proposed scheme constructs a deep neural network (DNN) in a way similar to the split-step Fourier method: linear and nonlinear operations alternate. Inspired by the perturbation analysis, the intra-channel cross-phase modulation term is conveniently represented by matrix operations in the DNN. The introduction of this term in each nonlinear operation considerably improves the performance, as well as enables the flexibility of PA-LDBP by adjusting the numbers of spans per step. The proposed scheme is evaluated by numerical simulations of a single carrier optical fiber communication system operating at 32 Gbaud with 64-quadrature amplitude modulation and 20*80 km transmission distance. The results show that the proposed scheme achieves approximately 3.5 dB, 1.8 dB, 1.4 dB, and 0.5 dB performance gain in terms of Q2 factor over the linear compensation, when the numbers of spans per step are 1, 2, 4, and 10, respectively. Two methods are proposed to reduce the complexity of PALDBP, i.e., pruning the number of perturbation coefficients and chromatic dispersion compensation in the frequency domain for multi-span per step cases. Investigation of the performance and complexity suggests that PA-LDBP attains improved performance gains with reduced complexity when compared to LDBP in the cases of 4 and 10 spans per step.
Observation of optical gyromagnetic properties in a magneto-plasmonic metamaterial
Creators: name: Yang, Weihao
name: Liu, Qing
name: Wang, Hanbin
name: Chen, Yiqin
name: Yang, Run
name: Xia, Shuang
name: Luo, Yi
name: Deng, Longjiang
name: Qin, Jun
name: Duan, Huigao
name: Bi, Lei
Publisher: name: arXiv
Year: 2021
Subjects: subject: Optics (physics.optics)
subject: FOS: Physical sciences

description: Metamaterials with artificial optical properties have attracted significant research interest. In particular, artificial magnetic resonances in non-unity permeability tensor at optical frequencies in metamaterials have been reported. However, only non-unity diagonal elements of the permeability tensor have been demonstrated to date. A gyromagnetic permeability tensor with non-zero off-diagonal elements has not been observed at the optical frequencies. Here we report the observation of gyromagnetic properties in the near-infrared wavelength range in a magneto-plasmonic metamaterial. The non-zero off-diagonal permeability tensor element causes the transverse magneto-optical Kerr effect (TMOKE) under s-polarized incidence that otherwise vanishes if the permeability tensor is not gyromagnetic. By retrieving the permeability tensor elements from reflection, transmission, and TMOKE spectra, we show that the effective off-diagonal permeability tensor elements reach the 10-3 level at the resonance wavelength (~900 nm) of the split-ring resonators that is at least two orders of magnitude higher than that of magneto-optical materials at the same wavelength. The artificial gyromagnetic permeability is attributed to the change in the local electric field direction modulated by the split-ring resonators. Our study demonstrates the possibility of engineering the permeability and permittivity tensors in metamaterials at arbitrary frequencies, thereby promising a variety of applications of next-generation nonreciprocal photonic devices, magneto-plasmonic sensors, and active metamaterials.
Policy environment analysis for Arctic seaport development: the case of Sabetta (Russia)
Creators: name: Gritsenko, Daria
name: Efimova, Elena
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Medicine
subject: Ecology
subject: FOS: Biological sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Science Policy

description: In this paper, a structuration model is developed to evaluate opportunities and constraints that may arise for a port authority operating a port in the Arctic. The study builds upon the new institutionalist approach to transport infrastructure policy. It argues that given the specificity of operational conditions in the Arctic, as well as the expectations of the resource-driven future transformations, the conventional port development models cannot accurately depict factors of Arctic port activity. The proposed structuration approach focuses on how four dimensions of the policy environment (physical, economic, institutional, and environmental) enable and constrain policy choices available to a port authority. Application of this model to the case of Sabetta, a deep-sea multi-functional port constructed in the Ob estuary of the Yamal peninsula (Russia), demonstrates the inextricable links between actions and institutions and pinpoints the uncertainty factors that affect Arctic port development ‘from scratch’. The practical objective of this research is to introduce a dynamic multi-factor model for systematic evaluation of the policy environment in Arctic port development. Given that industrial activities in the Arctic region will proceed at the current speed or accelerate, lessons learned from the case of Sabetta will be relevant to other port infrastructure projects in the Arctic.
Synthesis of pH-responsive N-acetyl-cysteine modified starch derivatives for oral delivery
Creators: name: Kwanghyok Jong
name: Benzhi Ju
name: Shufen Zhang
Publisher: name: Taylor & Francis
Year: 2017
Subjects: subject: Biophysics
subject: Space Science
subject: Medicine
subject: Pharmacology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences

description: In this study, a novel type of pH-responsive polymer PyHES-NAC (2-hydroxy-3-(2-propynyloxy) propyl hydroxyethyl starch (PyHES)) – (N-acetyl-cysteine (NAC)) was synthesized. First, PyHES was prepared via hydrophobic modification of hydroxyl groups in hydroxyethyl starch (HES) with propynylglycidyl ether (PGE), and then pH-responsive carboxylic acid group was connected to propynyl group via thiol-yne click reaction with NAC. Aqueous PyHES-NAC solutions exhibited a good transference between hydrophobic (or self-assembly) and hydrophilic static along with the change of pH value and protective properties of drugs under acidic conditions. 10.0% DOX was released under artificial gastric fluid after 2 h, whereas an immediate release (above 80%) was observed under artificial intestinal fluid. Drug loading capacity of PyHES-NAC was increased by the increase of degree of substitution (DS) of hydrophobic propynyl groups in PyHES, and 41 wt% DOX Loading capacity was the highest value in our study area.
The DFT+$Σ_2$ method for electron correlation effects at transition metal surfaces
Creators: name: Droghetti, Andrea
name: Radonjić, Miloš M.
name: Halder, Anita
name: Rungger, Ivan
name: Chioncel, Liviu
Publisher: name: arXiv
Year: 2021
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: We present a computational approach for electronically correlated metallic surfaces and interfaces, which combines Density Functional and Dynamical Mean Field Theory using a multi-orbital perturbative solver for the many-body problem. Our implementation is designed to describe ferromagnetic metallic thin films on a substrate. The performances are assessed in detail for a Fe monolayer on a W(110) substrate, a prototypical nanoscale magnetic system. Comparing our results to photoemission data, we find qualitative and quantitative improvements in the calculated spectral function with respect to the results of Density Functional Theory within the local spin density approximation. In particular, the spin-splitting of the $d$ states is drastically reduced and, at the same time, their spectral width becomes narrower. The method is therefore able to account for the main correlation effects in the system.
Minkowski Functionals of SDSS-III BOSS : Hints of Possible Anisotropy in the Density Field?
Creators: name: Appleby, Stephen
name: Park, Changbom
name: Pranav, Pratyush
name: Hong, Sungwook E.
name: Hwang, Ho Seong
name: Kim, Juhan
name: Buchert, Thomas
Publisher: name: arXiv
Year: 2021
Subjects: subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: FOS: Physical sciences

description: We present measurements of the Minkowski functionals extracted from the SDSS-III BOSS catalogs. After defining the Minkowski functionals, we describe how an unbiased reconstruction of these statistics can be obtained from a field with masked regions and survey boundaries, validating our methodology with Gaussian random fields and mock galaxy snapshot data. From the BOSS galaxy data we generate a set of four density fields in three dimensions corresponding to the northern and southern skies of LOWZ and CMASS catalogs, smoothing over large scales such that the field is perturbatively non-Gaussian. We extract the Minkowski functionals from each data set separately, and measure their shapes and amplitudes by fitting a Hermite polynomial expansion. For the shape parameter of the Minkowski functional curves $a_0$, that is related to the bispectrum of the field, we find that the LOWZ-South data presents a systematically lower value of $a_0 = -0.080 \pm 0.040$ than its northern sky counterpart $a_0 = 0.032 \pm 0.024$. Although the significance of this discrepancy is low, it potentially indicates some systematics in the data or that the matter density field exhibits anisotropy at low redshift. By assuming a standard isotropic flat $Λ$CDM cosmology, the amplitudes of Minkowski functionals from the combination of northern and southern sky data give the constraints $Ω_{\rm c} h^2 n_{\rm s} = 0.110 \pm 0.006$ and $0.111 \pm 0.008$ for CMASS and LOWZ, respectively, which is in agreement with the Planck $Λ$CDM best-fit $Ω_{\rm c}h^{2} n_{\rm s} = 0.116 \pm 0.001$.
Constraints on planetary and asteroid-mass primordial black holes from continuous gravitational-wave searches
Creators: name: Miller, Andrew L.
name: Aggarwal, Nancy
name: Clesse, Sébastien
name: De Lillo, Federico
Publisher: name: arXiv
Year: 2021
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: Instrumentation and Methods for Astrophysics (astro-ph.IM)
subject: FOS: Physical sciences

description: We present new constraints on the merging rates of planetary-mass and asteroid-mass primordial black hole binaries using limits on continuous waves(quasi-monochromatic, quasi-infinite duration signals) derived from an all-sky search for isolated compact objects in the first six months of the third observing run (O3a) of LIGO/Virgo. We calculate the merging rates of these binaries in a model-independent way, and convert them to constraints on the primordial black hole abundance with minimal modelling assumptions. Our results show that we are sensitive to sources at most $\mathcal{O}(10$ pc) away for systems with chirp masses of $\mathcal{O}(10^{-5}M_\odot)$ at gravitational-wave frequencies around 30-40 Hz. These results also show that continuous-wave searches could in the future directly probe the existence of planetary-mass and asteroid-mass primordial black holes, especially those in binaries with asymmetric mass ratios. Furthermore, they demonstrate that new methods accounting for the full nonlinear gravitational-wave frequency evolution are needed to improve constraints on primordial black holes.
description: 8 pages, 4 figures
INTERNALISASI NILAI-NILAI PENDIDIKAN KI HADJAR DEWANTARA DALAM MODEL PEMBELAJARAN DI PERGURUAN TINGGI (Studi Eksperimen di Jurusan Tadris Matematika)
Creators: name: Winarso, Widodo
Publisher: name: figshare
Year: 2017
Subjects: subject: 130103 Higher Education
subject: FOS: Educational sciences

description: Department of Mathematics education curriculum implementation Based KKNI who have not provided the container development of character education for students. This can be seen from the learning process in college that still relies on aspects of increased knowledge. Achievement of learning on aspects of attitudes / values ​​still are administrative without being pushed on the feasibility of value investment education daily life. Applied learning models are still oriented to conventional learning eg discussions, lectures, discussion and assignment. It is necessary to present innovations in the learning model for students. Model-oriented learning in the context of nationalism (educational values ​​Ki Hadjar Dewantara). so that by applying the learning model of value investment Ki Hajar Dewantara education can increase educational purposes at universities. The method used in this study is quasi-experimental design with a Two-Group Test post-only design. The population in this study that students of Department of Mathematics Education. The sample research nonprobability sampling using purposive sampling technique. Experiments in which the class is used as the Class A total of 39 students and the class is a class B control as many as 33 students. Results of research dianataranya that the student response to the application of learning models planting educational values ​​Ki Hadjar Dewantara is quite good. Students learning attitude was quite good with a big achievement average score of 64.41. Effect of application of learning models planting educational values ​​Ki Hadjar Dewantara attitude towards learning in mathematics education majors and significant effect on average there are differences in learning outcomes experimental class is higher than population control class learning outcomes. It states that the application of learning models planting educational values ​​Ki Hadjar Dewantara effectively implemented in the Department of Mathematics Education.
A reduced unified continuum formulation for vascular fluid-structure interaction
Creators: name: Lan, Ingrid S.
name: Liu, Ju
name: Yang, Weiguang
name: Marsden, Alison L.
Publisher: name: arXiv
Year: 2021
Subjects: subject: Computational Physics (physics.comp-ph)
subject: FOS: Physical sciences

description: We recently derived the unified continuum and variational multiscale formulation for fluid-structure interaction (FSI) using the Gibbs free energy. Restricting our attention to vascular FSI, we now reduce this arbitrary Lagrangian-Eulerian (ALE) formulation by adopting three assumptions for the vascular wall. The resulting reduced unified continuum formulation achieves monolithic FSI coupling in the Eulerian frame through a simple modification of the fluid boundary integral. While ostensibly similar to the semi-discrete formulation of the coupled momentum method, its underlying derivation does not rely on an assumption of a fictitious body force in the elastodynamics sub-problem and therefore represents a direct simplification of the ALE method. Uniform temporal discretization is performed via the generalized-$α$ scheme. In contrast to the predominant approach yielding only first-order accuracy for pressure, we collocate both pressure and velocity at the intermediate time step to achieve uniform second-order temporal accuracy. In conjunction with quadratic tetrahedral elements, our methodology offers higher-order temporal and spatial accuracy for quantities of clinical interest. Furthermore, without loss of consistency, a segregated predictor multi-corrector algorithm is developed to preserve the same block structure as for the incompressible Navier-Stokes equations in the implicit solver's associated linear system. Block preconditioning of a monolithically coupled FSI system is therefore made possible for the first time. Compared to alternative preconditioners, our three-level nested block preconditioner, which improves representation of the Schur complement, demonstrates robust performance over a wide range of physical parameters. We present verification against Womersley's deformable wall theory and additionally develop practical modeling techniques for clinical applications.
PDMM: A novel Primal-Dual Majorization-Minimization algorithm for Poisson Phase-Retrieval problem
Creators: name: Fatima, Ghania
name: Li, Zongyu
name: Arora, Aakash
name: Babu, Prabhu
Publisher: name: arXiv
Year: 2021
Subjects: subject: Signal Processing (eess.SP)
subject: Optimization and Control (math.OC)
subject: Computation (stat.CO)
subject: FOS: Electrical engineering, electronic engineering, information engineering
subject: FOS: Mathematics
subject: FOS: Computer and information sciences

description: In this paper, we introduce a novel iterative algorithm for the problem of phase-retrieval where the measurements consist of only the magnitude of linear function of the unknown signal, and the noise in the measurements follow Poisson distribution. The proposed algorithm is based on the principle of majorization-minimization (MM); however, the application of MM here is very novel and distinct from the way MM has been usually used to solve optimization problems in the literature. More precisely, we reformulate the original minimization problem into a saddle point problem by invoking Fenchel dual representation of the log (.) term in the Poisson likelihood function. We then propose tighter surrogate functions over both primal and dual variables resulting in a double-loop MM algorithm, which we have named as Primal-Dual Majorization-Minimization (PDMM) algorithm. The iterative steps of the resulting algorithm are simple to implement and involve only computing matrix vector products. We also extend our algorithm to handle various L1 regularized Poisson phase-retrieval problems (which exploit sparsity). The proposed algorithm is compared with previously proposed algorithms such as wirtinger flow (WF), MM (conventional), and alternating direction methods of multipliers (ADMM) for the Poisson data model. The simulation results under different experimental settings show that PDMM is faster than the competing methods, and its performance in recovering the original signal is at par with the state-of-the-art algorithms.
Additional file 1 of Overexpressing HPGDS in adipose-derived mesenchymal stem cells reduces inflammatory state and improves wound healing in type 2 diabetic mice
Creators: name: Ouyang, Long
name: Qiu, Daojing
name: Fu, Xin
name: Wu, Aiping
name: Yang, Pengyuan
name: Yang, Zhigang
name: Wang, Qian
name: Yan, Li
name: Xiao, Ran
Publisher: name: figshare
Year: 2022
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Molecular Biology
subject: Physiology
subject: FOS: Biological sciences
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Marine Biology
subject: Science Policy

description: Additional file 1. Table S1. Oligonucleotide primers used in the real-time. Table S2. Differentially expressed genes between non-diabetic and diabetic full thickness skin biopsies. Fig. S1. Hpgds and COX-2 were significantly increased in LPS-induced RAW 264.7 macrophage. a–c Hpgds (a) and COX-2 (b) mRNA expression in RAW 264.7 macrophage treated with LPS (200 ng/ml) for 12 h were detected by qRT-PCR and PGD2 (c) concentration in culture medium was detected by elisa. The data are presented as the mean ± SD. *P < 0.05; **P < 0.01. n = 5. Fig. S2. Hpgds overexpression and its influence on hADSC biological characeristics. a Hpgds mRNA expression efficiency in hADSCHpgds (i); Concentration of PGD2 in supernatant of hADSCHpgds (ii). b Flow cytometry analysis of stem cells markers, CD44, CD73, CD90 and CD105 on hADSCHpgds. P > 0.05. c Proliferation ability of hADSCHpgds at 1, 2, 3, 4, 5, 6 and 7 days. P > 0.05. d hADSCHpgds apoptosis analysis. P > 0.05. e hADSCHpgds migration analysis at 0, 6, 12, 24 h. P > 0.05. f hADSCHpgds adipogenic and osteogenic differentiation staining at 2 weeks and 3 weeks, respectively, and PPARγ and RUNX2 mRNA expression analysis at 7 days and 14 days. P > 0.05. The data are presented as the mean ± SD. n = 5. Fig. S3. In vivo tracking and security of hADSCHpgds. a Imagings were taken after hADSCHpgds-VitroGel transplanted at wound bed (i) and wound edge tissue slice images (ii) at 1, 3, 5, 7, 10, 14 and 16 days. The data are presented as the mean ± SD. n = 5. b Hematoxylin-eosin staining analysis of the skin and muscle around wound and heart, liver, spleen, lung and kidney 3 months postsurgery.
Nonlinear evolution of internal gravity waves in the Earth's ionosphere: Analytical and numerical approach
Creators: name: Kaladze, T. D.
name: Misra, A. P.
name: Roy, A.
name: Chatterjee, D.
Publisher: name: arXiv
Year: 2021
Subjects: subject: Atmospheric and Oceanic Physics (physics.ao-ph)
subject: Plasma Physics (physics.plasm-ph)
subject: FOS: Physical sciences

description: The nonlinear propagation of internal gravity waves in the weakly ionized, incompressible Earth's ionosphere is studied using the fluid theory approach. Previous theory in the literature is advanced by the effects of the terrestrial inhomogeneous magnetic field embedded in weakly ionized ionospheric layers ranging in altitude from about $50$ to $500$ km. It is shown that the ionospheric conducting fluids can support the formation of solitary dipolar vortices (or modons). Both analytical and numerical solutions of the latter are obtained and analyzed. It is found that in absence of the Pedersen conductivity, different vortex structures with different space localization can be formed which can move with the supersonic velocity without any energy loss. However, its presence can cause the amplitude of the solitary vortices to decay with time and the vortex structure can completely disappear owing to the energy loss. Such energy loss can be delayed, i.e., the vortex structure can prevail for relatively a longer time if the nonlinear effects associated with either the stream function or the density variation become significantly higher than the dissipation due to the Pedersen conductivity. The main characteristic dynamic parameters are also defined which are in good correlation with the existing experimental data.
description: 12 pages, 6 figures; Revised version to appear in Advances in Space Research (2022)
Long non-coding RNA PTPRG-AS1/microRNA-124-3p regulates radiosensitivity of nasopharyngeal carcinoma via the LIM Homeobox 2-dependent Notch pathway through competitive endogenous RNA mechanism
Creators: name: Shen, Zhangquan
name: Wu, Yang
name: He, Guijun
Publisher: name: Taylor & Francis
Year: 2022
Subjects: subject: Biophysics
subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Physiology
subject: Environmental Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: Hematology

description: Nasopharyngeal carcinoma (NPC) is a malignant tumor in the nasopharyngeal cavity. LncRNA PTPRG-AS1 is essential in NPC radiosensitivity. This study sought to explore the mechanism of PTPRG-AS1 in NPC radiosensitivity by regulating the miR-124-3p/LHX2 axis. First, NPC-related microarray was analyzed to screen differentially expressed lncRNAs. PTPRG-AS1 and miR-124-3p expression patterns in NPC tissues and adjacent tissues of NPC patients and NPC cell lines were detected by RT-qPCR. PTPRG-AS1 was knocked down in CNE2 and 5–8 F cells by transfection. The radiosensitivity, proliferation and apoptosis before and after radiotherapy (0/6 Gy) were detected by cloning formation assay, CCK-8 assay, and flow cytometry. Bioinformatics, Pearson correlation analysis, RNA pull-down, and luciferase reporter assays were performed to explore the regulatory relationship of the lncRNA PTPRG-AS1/miR-124-3/LHX2 axis. The corresponding functions were verified in the complementation test. The levels of LHX2 and Notch pathway-related proteins were detected by Western blot. PTPRG-AS1 was upregulated in NPC cell lines and tissues. PTPRG-AS1 knockdown decreased NPC cell proliferation and promoted radiotherapy-induced apoptosis and cell radiosensitivity. PTPRG-AS1 upregulated LHX2 as a ceRNA of miR-124-3p. miR-124-3p inhibition partially reversed PTPRG-AS1 silencing-induced NPC cell radiosensitivity. miR-124-3p targeted LHX2. LHX2 overexpression attenuated the miR-124-3p overexpression-induced NPC cell radiosensitivity. LHX2 attenuated NPC cell radiosensitivity by activating the Notch pathway. Briefly, lncRNA PTPRG-AS1 reduced NPC cell radiosensitivity by regulating the miR-124-3p/LHX2 axis through the ceRNA mechanism.
Band Structure and Polarization Effects in Photothermoelectric Spectroscopy of a Bi2Se3 Device
Creators: name: Pournia, Seyyedesadaf
name: Jnawali, Giriraj
name: Need, Ryan F.
name: Jackson, Howard E.
name: Wilson, Stephen D.
name: Smith, Leigh M.
Publisher: name: arXiv
Year: 2021
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: Bi2Se3 is a prototypical topological insulator which has a small band gap (~0.3 eV) and topologically protected conducting surface states. This material exhibits quite strong thermoelectric effects. Here we show in a mechanically exfoliated thick (~100 nm) nanoflake device that we can measure the energy dependent optical absorption through the photothermoelectric effect. Spectral signatures are seen for a number of optical transitions between the valence and conduction bands, including a broad peak at 1.5 eV which is likely dominated by bulk band-to-band optical transitions but is at the same energy as the well known optical transition between the two topologically protected conducting surface states. We also observe a surprising linear polarization dependence in the response of the device that reflects the influence of the metal contacts.
description: 17 pages, 4 figures
Additional file 7: of Atp8 is in the ground pattern of flatworm mitochondrial genomes
Creators: name: Egger, Bernhard
name: Bachmann, Lutz
name: Fromm, Bastian
Publisher: name: figshare
Year: 2017
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Marine Biology
subject: Plant Biology

description: Analysis of gene order rearrangements using TreeREx [15] and CREx [13], including family diagrams. (PDF 418Â kb)
Enhanced Frequency noise suppression for LISA by combining cavity and arm locking control systems
Creators: name: Valliyakalayil, Jobin Thomas
name: Sutton, Andrew J. H.
name: Spero, Robert E.
name: Shaddock, Daniel A.
name: McKenzie, Kirk
Publisher: name: arXiv
Year: 2021
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: This paper presents a novel method for laser frequency stabilisation in the Laser Interferometer Space Antenna (LISA) mission by locking a laser to two stable length references - the arms of the interferometer and an on-board optical cavity. The two references are digitally fused using carefully designed control systems, attempting minimal or no changes to the baseline LISA mission hardware. The interferometer arm(s) provides the most stable reference available in the LISA science band (0.1 mHz - 1 Hz), while the cavity sensor's wide-band and linear readout enables additional control system gain below and above the LISA band. The main technical issue with this dual sensor approach is the undesirable slow laser frequency pulling which couples into the control system with the imperfect knowledge of the Doppler shift of the light due to relative spacecraft motion along the LISA arm. This paper outlines requirements on the Doppler shift knowledge to maintain the cavity well within the resonance when activating the fused control system. Two Doppler shift estimation methods are presented that use the already on-board measurements, the inter-spacecraft interferometer link (the main science measurement), and the absolute inter-spacecraft laser ranging system. Both methods reach the required precision after a few thousand seconds of measurement integration. The paper demonstrates an approach to initialise and engage the proposed laser stabilization system, starting from free-running laser and ending with the dual sensor frequency control system. The results show that the technique lowers the residual laser frequency noise in the LISA science band by over 3 orders of magnitude, potentially allowing the requirements on Time-Delay-Interferometry (TDI) to be relaxed - possibly to the point where first-generation TDI may be sufficient.
description: 17 pages, 15 figures
Additional file 5: of Atp8 is in the ground pattern of flatworm mitochondrial genomes
Creators: name: Egger, Bernhard
name: Bachmann, Lutz
name: Fromm, Bastian
Publisher: name: figshare
Year: 2017
Subjects: subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Marine Biology

description: tRNA secondary structures in the mitochondrial genome of Macrostomum lignano as predicted by MITOS [20]. (PDF 591Â kb)
Effect of the Atomic Dipole-Dipole Interaction on the Phase Diagrams of Field-Matter Interactions I: Variational procedure
Creators: name: Cordero, Sergio
name: Castaños, Octavio
name: López-Peña, Ramón
name: Nahmad-Achar, Eduardo
Publisher: name: arXiv
Year: 2021
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We establish, within the second quantization method, the general dipole-dipole Hamiltonian interaction of a system of $n$-level atoms. The variational energy surface of the $n$-level atoms interacting with $\ell$-mode fields and under the Van Der Waals forces is calculated with respect the tensorial product of matter and electromagnetic field coherent states. This is used to determine the quantum phase diagram associated to the ground state of the system and quantify the effect of the dipole-dipole Hamiltonian interaction. By considering real induced electric dipole moments, we find the quantum phase transitions for $2$- and $3$-level atomic systems interacting with $1$- and $2$- modes of the electromagnetic field, respectively. The corresponding order of the transitions is established by means of Ehrenfest classification; for some undetermined cases, we propose two procedures: the difference of the expectation value of the Casimir operators of the $2$-level subsystems, and by maximizing the Bures distance between neighbor variational solutions.
description: 17 pages, 9 figures
Study of circular geodesics and shadow of rotating charged black hole surrounded by perfect fluid dark matter immersed in plasma
Creators: name: Das, Anish
name: Saha, Ashis
name: Gangopadhyay, Sunandan
Publisher: name: arXiv
Year: 2021
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: In this work, we consider a rotating charged black hole surrounded by perfect fluid dark matter. We consider the system to be immersed in non-magnetised, pressureless plasma. First, we evaluate the null geodesics in order to study the co-rotating and counter rotating photon orbits. Further, we analyse the null geodesics to calculate the celestial coordinates ($α, β$). The celestial coordinates are used to determine the black hole shadow radius ($R_s$). Thereafter, we observe and analyse the effects of black hole spacetime, perfect fluid dark matter and plasma parameters ($a$, $Q$, $χ$, $k$) on the black hole shadow in detail. Finally, we study the effect of plasma distribution on the effective potential ($V_{eff}$) of the black hole spacetime as encountered by the photons. We also present bounds on the plasma parameter from the observational data from $M87^{*}$ central supermassive black hole.
description: V1, 22 pages, 17 figures; V2, 29 pages, 27 figures; To appear in Classical and Quantum gravity
Additional file 4: of Atp8 is in the ground pattern of flatworm mitochondrial genomes
Creators: name: Egger, Bernhard
name: Bachmann, Lutz
name: Fromm, Bastian
Publisher: name: figshare
Year: 2017
Subjects: subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Marine Biology

description: tRNA secondary structures in the mitochondrial genome of Stenostomum sthenum as predicted by MITOS [20]. (PDF 640Â kb)
Systemic RNA oxidation can be used as a biomarker of infection in challenged with Vibrio parahaemolyticus
Creators: name: Pian, Ya-Ya
name: Nie, Jing-Jing
name: Wang, Chen-Chen
name: Liu, Qian
name: Liu, Zhen
name: Zhang, Li-Qun
name: Ou-Yang, Qiu-Geng
name: Fan, Guo-Qing
name: Zeng, Lv-Tao
name: Dang, Ya-Min
name: Ma, Ya-Qing
name: Zhang, Wei
name: Gao, Zhen-xiang
name: Hu, Ji-Hong
name: Cai, Jian-Ping
Publisher: name: Taylor & Francis
Year: 2021
Subjects: subject: Space Science
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: More and more evidence support the concept that RNA oxidation plays a substantial role in the progress of multiple diseases; however, only a few studies have reported RNA oxidation caused by microbial pathogens. Urinary 8-oxo-7,8-dihydroguanosine (8-oxo-Gsn) and 8-oxo-7,8-dihydro-2′-deoxyguanosine (8-oxo-dGsn), which are broadly used as indicators of oxidative damage of RNA and DNA, were analyzed in this study to determine which can be used as a biomarker of infection in challenged with Vibrio parahaemolyticus (V. parahaemolyticus). In this work, 24 specific-pathogen-free (SPF) male SD rats were randomly divided into two groups: an infection group and a phosphate-buffered saline (PBS) control group. Our results proved that 8-oxo-Gsn rather than 8-oxo-dGsn was significantly increased after challenged with V. parahaemolyticus in urine and tissue samples of SD rats compared with the PBS control group. Simultaneously, white blood cells (WBCs) counts, intestinal inflammation and inflammatory factors (including CRP, IL-6, IL-1β, TNF-α, IL-10, and IL-17A) were also increased sharply. Which has more clinical value is that the trend of urinary 8-oxo-Gsn was consistent with WBCs, intestinal inflammation and all kinds of inflammatory factors. More importantly is that urinary 8-oxo-Gsn of infection group was positively correlated with WBCs and various inflammatory cytokines. In a word, our results demonstrated that as a systemic RNA oxidation biomarker, we hope 8-oxo-Gsn can be used as a biomarker of the severity of microbial pathogens infection, rather than a specific biomarker of microbial pathogens infection.
Shear banding instability in \remove{high entropy} multi-component metallic glasses: Interplay of composition and short-range order}
Creators: name: Karimi, Kamran
name: Esfandiarpour, Amin
name: Alvarez-Donado1, Rene
name: Alava1, Mikko J.
name: Papanikolaou, Stefanos
Publisher: name: arXiv
Year: 2021
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: Other Condensed Matter (cond-mat.other)
subject: FOS: Physical sciences

description: The shear-banding instability in quasi-statically driven bulk metallic glasses emerges from collective dynamics, mediated by shear transformation zones and associated non-local elastic interactions. It is also phenomenologically known that sharp structural features of shear bands are typically correlated to the sharpness of the plastic yielding transition, being predominant in commonly studied alloys composed of multiple different elements, that have very different atomic radii. However, in the opposite limit \remove{of high-entropy multicomponent alloys,} where elements' radii are relatively similar, plastic yielding of bulk metallic glasses is highly dependent on compositional and ordering features. In particular, a known mechanism at play involves the formation of short-range order dominated by icosahedra-based clusters. Here, we report on atomistic simulations of multi-component metallic glasses with different chemical compositions showing that the degree of strain localization is largely controlled by the interplay between composition-driven icosahedra-ordering and collectively-driven shear transformation zones. By altering compositions, strain localization ranges from diffuse homogenized patterns to singular crack-like features. We quantify the dynamical yielding transition by measuring the atoms' susceptibility to plastic rearrangements, strongly correlated to the local atomic structure. We find that the abundance of short-range ordering of icosahedra within rearranging zones increases glassy materials' capacity to delocalize strain. The kind of plastic yielding can be often qualitatively inferred by the commonly used compositional descriptor that characterizes element associations, the misfit parameter $δ_a$, and also by uncommon ones, such as shear-band width and shear-band dynamics' correlation parameters.
Additional file 3: of Atp8 is in the ground pattern of flatworm mitochondrial genomes
Creators: name: Egger, Bernhard
name: Bachmann, Lutz
name: Fromm, Bastian
Publisher: name: figshare
Year: 2017
Subjects: subject: Space Science
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology

description: Gene annotation tables of Stenostomum sthenum and Macrostomum lignano with gene name, start and stop positions and codons, length and the direction of transcription (- for the minus strand). (PDF 41Â kb)
Effects of Ligand vs. Linker on Phase Behavior and Mechanical Properties of Nanoparticle Gels
Creators: name: Chen, Qizan
name: Devarajan, Dinesh Sundaravadivelu
name: Nikoubashman, Arash
name: Howard, Michael P.
name: Mittal, Jeetain
Publisher: name: arXiv
Year: 2024
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: Nanoparticle gels have attracted considerable attention due to their highly tunable properties. One strategy for producing nanoparticle gels involves using strong local attractions between polymeric molecules, such as DNA hybridization or dynamic covalent chemistry, to form percolated nanoparticle networks. These molecules can be used in two distinct roles: as "ligands" with one end grafted to a nanoparticle or as "linkers" with both ends free. Here, we explore how these roles shape the phase behavior and mechanical properties of gel-like nanoparticle assemblies using coarse-grained simulations. We systematically vary the interaction strength and bending stiffness of both ligands and linkers. We find that phase separation can be limited to low nanoparticle volume fractions by making the ligands rigid, consistent with previous studies on linked nanoparticle gels. At fixed interaction strength and volume fraction, both ligand- and linker-mediated nanoparticle assemblies show similar mechanical responses as bending stiffness is varied. However, a comparison between the two association schemes reveals that the linked nanoparticles form rigid percolated networks that are less stretchable than the ligand-grafted gels, despite exhibiting similar tensile strength. We attribute these differences between ligands and linkers to the distinct structural arrangement of nanoparticles within the gel. Our findings highlight the potential to use different association schemes to tune specific mechanical properties.