bluuebunny/crossref_metadata_2025_split huggingface dataset:
LincRNA#1 knockout alone does not affect polled phenotype in cattle heterozygous for the celtic POLLED allele
Authors: Hennig Sadie L. , McNabb Bret R. , Trott Josephine F. , Van Eenennaam Alison L. , Murray James D. 
Published: May 2022

AbstractA long intergenic non-coding RNA (lincRNA#1) is overexpressed in the horn bud region of polled (hornless) bovine fetuses, suggesting a potential role in horn bud suppression. Genome editing was used to test whether the absence of this sequence was associated with the horned phenotype. Two gRNAs with high mutation efficiencies targeting the 5′ and the 3′ regions flanking the lincRNA#1 sequence were co-injected with Cas9 as ribonucleoprotein complexes into bovine zygotes (n = 121) 6 h post insemination. Of the resulting blastocysts (n = 31), 84% had the expected 3.7 kb deletion; of these embryos with the 3.7 kb deletions, 88% were biallelic knockouts. Thirty-nine presumptive edited 7-day blastocysts were transferred to 13 synchronized recipient cows resulting in ten pregnancies, five with embryos heterozygous for the dominant PCPOLLED allele at the POLLED locus, and five with the recessive pp genotype. Eight (80%) of the resulting fetuses were biallelic lincRNA#1 knockouts, with the remaining two being mosaic. RT-qPCR analysis was used to confirm the absence of lincRNA#1 expression in knockout fetuses. Phenotypic and histological analysis of the genotypically (PCp) POLLED, lincRNA#1 knockout fetuses revealed similar morphology to non-edited, control polled fetuses, indicating the absence of lincRNA#1 alone does not result in a horned phenotype.
Automatic radar-based 2-D localization exploiting vital signs signatures
Authors: Mercuri Marco , Russo Pietro , Glassee Miguel , Castro Ivan Dario , De Greef Eddy , Rykunov Maxim , Bauduin Marc , Bourdoux André , Ocket Ilja , Crupi Felice , Torfs Tom 
Published: May 2022

AbstractIn light of the continuously and rapidly growing senior and geriatric population, the research of new technologies enabling long-term remote patient monitoring plays an important role. For this purpose, we propose a single-input-multiple-output (SIMO) frequency-modulated continuous wave (FMCW) radar system and a signal processing technique to automatically detect the number and the 2-D position (azimuth and range information) of stationary people (seated/lying down). This is achieved by extracting the vital signs signatures of each single individual, separating the Doppler shifts caused by the cardiopulmonary activities from the unwanted reflected signals from static reflectors and multipaths. We then determine the number of human subjects present in the monitored environment by counting the number of extracted vital signs signatures while the 2-D localization is performed by measuring the distance from the radar where the vital signs information is sensed (i.e., locating the thoracic region). We reported maximum mean absolute errors (MAEs) of 0.1 m and 2.29$$^{\circ }$$

∘

and maximum root-mean-square errors (RMSEs) of 0.12 m and 3.04$$^{\circ }$$

∘

in measuring respectively the ranges and azimuth angles. The experimental validation demonstrated the ability of the proposed approach in monitoring paired human subjects in a typical office environment.
Apical-out airway organoids as a platform for studying viral infections and screening for antiviral drugs
Authors: Stroulios Georgios , Brown Tyler , Moreni Giulia , Kondro Douglas , Dei Alessandro , Eaves Allen , Louis Sharon , Hou Juan , Chang Wing , Pajkrt Dasja , Wolthers Katja C. , Sridhar Adithya , Simmini Salvatore 
Published: May 2022

AbstractAirway organoids are polarized 3D epithelial structures that recapitulate the organization and many of the key functions of the in vivo tissue. They present an attractive model that can overcome some of the limitations of traditional 2D and Air–Liquid Interface (ALI) models, yet the limited accessibility of the organoids’ apical side has hindered their applications in studies focusing on host–pathogen interactions. Here, we describe a scalable, fast and efficient way to generate airway organoids with the apical side externally exposed. These apical-out airway organoids are generated in an Extracellular Matrix (ECM)-free environment from 2D-expanded bronchial epithelial cells and differentiated in suspension to develop uniformly-sized organoid cultures with robust ciliogenesis. Differentiated apical-out airway organoids are susceptible to infection with common respiratory viruses and show varying responses upon treatment with antivirals. In addition to the ease of apical accessibility, these apical-out airway organoids offer an alternative in vitro model to study host–pathogen interactions in higher throughput than the traditional air–liquid interface model.
Identification of functional features underlying heat stress response in Sprague–Dawley rats using mixed linear models
Authors: Kotlarz Krzysztof , Mielczarek Magda , Wang Yachun , Dou Jinhuan , Suchocki Tomasz , Szyda Joanna 
Published: May 2022

AbstractSince global temperature is expected to rise by 2 °C in 2050 heat stress may become the most severe environmental factor. In the study, we illustrate the application of mixed linear models for the analysis of whole transcriptome expression in livers and adrenal tissues of Sprague–Dawley rats obtained by a heat stress experiment. By applying those models, we considered four sources of variation in transcript expression, comprising transcripts (1), genes (2), Gene Ontology terms (3), and Reactome pathways (4) and focussed on accounting for the similarity within each source, which was expressed as a covariance matrix. Models based on transcripts or genes levels explained a larger proportion of log2 fold change than models fitting the functional components of Gene Ontology terms or Reactome pathways. In the liver, among the most significant genes were PNKD and TRIP12. In the adrenal tissue, one transcript of the SUCO gene was expressed more strongly in the control group than in the heat-stress group. PLEC had two transcripts, which were significantly overexpressed in the heat-stress group. PER3 was significant only on gene level. Moving to the functional scale, five Gene Ontologies and one Reactome pathway were significant in the liver. They can be grouped into ontologies related to DNA repair, histone ubiquitination, the regulation of embryonic development and cytoplasmic translation. Linear mixed models are valuable tools for the analysis of high-throughput biological data. Their main advantages are the possibility to incorporate information on covariance between observations and circumventing the problem of multiple testing.
On implementation of a semi-analytic strategy to develop an analytical solution of a steady-state isothermal tube drawing model
Authors: Butt Azhar Iqbal Kashif , Shah Nehad Ali , Ahmad Waheed , Botmart Thongchai , Ahmad Naeed 
Published: May 2022

AbstractIn this paper, we consider an isothermal glass tube drawing model consisting of three coupled nonlinear partial differential equations. The steady-state solution of this model is required in order to investigate its stability. With the given initial and boundary conditions, it is not possible to determine an analytical solution of this model. The difficulty lies in determining the constants of integrations while solving the second order ordinary differential equation analytically appearing in the steady-state model. To overcome this difficulty, we present a numerical based approach for the first time to develop an analytical solution of the steady-state isothermal tube drawing model. We use a numerical technique called shooting method to convert the boundary value problem into a set of initial value problems. Once the model has been converted into a system of differential equations with initial values, an integrating technique is implemented to develop the analytical solution. The computed analytical solution is then compared with the numerical solution to better understand the accuracy of obtained solution with necessary discussions.
One-pot synthesis of Au-M@SiO2 (M = Rh, Pd, Ir, Pt) core–shell nanoparticles as highly efficient catalysts for the reduction of 4-nitrophenol
Authors: Hao Junfang , Liu Bin , Maenosono Shinya , Yang Jianhui 
Published: May 2022

AbstractThe conversion of p-nitrophenol (4-NP) to p-aminophenol (4-AP) is of great significance for pharmaceutical and material manufacturing. In this work, Au-M@SiO2 (M = Rh, Pd, Ir, Pt) nanoparticles (NPs) with core–shell structures, which are expected to be excellent catalysts for the transformation of 4-NP to 4-AP, were synthesized by a facile one-pot one-step method. The structure and composition of the NPs were characterized through transmission electron microscopy, X-ray powder diffraction and X-ray photoelectron spectroscopy. Au-M@SiO2 (M = Rh, Pd, Ir, Pt) core–shell NPs showed excellent catalytic activity in the reduction of 4-NP, which is superior to most catalysts reported in the previous literature. The enhanced catalytic activity of Au-M@SiO2 core–shell NPs is presumably related to the bimetallic synergistic effect. This study provides a simple strategy to synthesize core–shell bimetallic NPs for catalytic applications.
Acetylome analysis of acetylation providing new insight into sclerotial generation in medicinal fungus Polyporus umbellatus
Authors: Li Bing , Liu Liu , Shan Tingting , Xing Yongmei , Guo Shunxing 
Published: May 2022

AbstractSclerotium-forming fungi are ecologically diverse and possess notable pathogenic or medicinal properties. The sclerotial generation mechanism is still elusive though Polyporus umbellatus sclerotia are typical Traditional Chinese Medicine with diuretic and antitumor effects. Protein acetylation displays a crucial role in several biological processes, but the functions of acetylation in this valuable fungus are unknown at present. In this study, acetylome of P. umbellatus was studied using nano LC-Triple TOF mass spectrometry system following immune-affinity-based enrichment. Totally, 648 acetylated sites in 342 proteins were identified and nine motifs were found to be conserved in P. umbellatus including KacY, KacA, KacL, KacG, MacS, MacA, RacA, RacL, and RacG. Acetylated proteins taken part in types of biological processes, particularly to those in biological processes associated with reactive oxygen species (ROS) metabolism. Inhibitors complement tests were carried out to verify the role of ROS in acetylation modification. It was concluded that oxidative stress regulated sclerotial generation via proteins acetylation in P. umbellatus. The present study presents new insight into the essential roles of acetylation in sclerotial formation, which may also be applicable for other sclerotium-forming fungi.
Effect of smoking on the development and outcomes of inflammatory bowel disease in Taiwan: a hospital-based cohort study
Authors: Chen Bor-Cheng , Weng Meng-Tzu , Chang Chin-Hao , Huang Ling-Yun , Wei Shu-Chen 
Published: May 2022

AbstractSmoking influences the risks of inflammatory bowel disease (IBD). A hospital-based cohort was conducted to evaluate the effect of smoking on the development and outcomes of IBD, with age, sex and comorbidities matched non-IBD controls from the National Health Interview Survey database of Taiwan. 700 IBD patients (360 ulcerative colitis (UC), 340 Crohn’s disease (CD)) were analyzed for outcomes; and 575 patients (297 UC, 278 CD) were analyzed for prevalence. Smoking prevalence was significantly lower in UC patients than controls (20.9% vs. 30.4%, p < 0.01), but no difference between CD patients and controls (19.8% vs. 22.1%, p = 0.60). UC smokers had fewer admissions (1.6 vs. 2.5, p < 0.05) but higher rates of new cancer development (16% vs. 6.7%, p < 0.05) and mortality (16% vs. 4.9%, p < 0.01) than nonsmokers. CD smokers tended to have higher rates of stricturing and penetrating diseases (p < 0.05), and higher surgery risk (60.3% vs. 38.3%, p < 0.01) than nonsmokers. Smoking prevents UC occurrence and is associated with fewer hospitalization but increases risks of cancer and mortality. By contrast, smoking does not affect CD occurrence but is related to more aggressive behavior which results in a higher surgical rate.
A QR code-based user-friendly visual cryptography scheme
Authors: Ren Lijing , Zhang Denghui 
Published: May 2022

AbstractBenefiting from the development of the Internet and smart devices, it is now convenient to transmit images anywhere and anytime, which poses a new challenge for image security. The Visual Cryptography Scheme (VCS) is a secret sharing method for protecting an image without a key, the merit of VCS is the human visual system (HVS) can restore the secret image by simply superimposing qualified shares, without any computation. To eliminate noise-like shares in traditional VCS, this paper presents a novel QR code-based expansion-free and meaningful visual cryptography scheme (QEVCS), which generates visually appealing QR codes for transmitting meaningful shares. When distributing on public networks, this scheme does not attract the attention of potential attackers. By limiting the gray-level of a halftoned image, QEVCS both keep the computation-free of visual cryptography and the size of recovery image same as the secret images. The experimental results show the effectiveness of QEVCS when preserving the privacy of images.
Childhood Dysarthria: Auditory-Perceptual Profiles Against the Background of Typical Speech Motor Development
Authors: Schölderle Theresa , Haas Elisabet , Ziegler Wolfram 
Published: May 2022

Purpose:
The purpose of this study was to describe childhood dysarthria by means of auditory-perceptual analyses covering all speech subsystems. We aimed to identify the most seriously affected auditory-perceptual dimensions in the observed dysarthria profiles and to detect specific markers of childhood dysarthria against the backdrop of typical speech development. Moreover, the relationship between the speech disorder and other relevant aspects of multiple disability was investigated.

Method:

Thirty-one children with neurologic conditions were assessed with Bogenhausen Dysarthria Scales for Childhood Dysarthria, a German tool for the auditory-perceptual analysis of dysarthria in children. Nine relevant speech dimensions (
scales
, e.g., voice quality [VOQ]) and 29 individual symptoms (
features
, e.g., breathy) were evaluated. Moreover, we documented motor, communicative, and cognitive–linguistic measures (i.e., Gross Motor Function Classification System [GMFCS], Communication Function Classification System [CFCS], Test for Reception of Grammar [TROG-D], and memory span). Recently published data from typically developing children were used for the purpose of age normalization.

Results:
Dysarthria severity was moderately correlated with GMFCS and CFCS but not with TROG-D and memory span. At the group level, respiration, articulation, and prosodic modulation were most severely affected, whereas voice function was only mildly affected or even spared in the majority of children. Four features were identified as most relevant markers of childhood dysarthria: conspicuous rhythm/stress pattern, hypernasality, strained–strangled voice, and reduced articulatory precision.

Conclusions:
Childhood dysarthria is part of a complex multiple disability, but speech motor skills may still dissociate from gross-motor and cognitive–linguistic functions. Auditory-perceptual analyses incorporating age norms allow for a comprehensive description and identification of childhood dysarthria.
Redefining prior feature space via finetuning a triplet network for few‐shot learning
Authors: Wu Jiaying , Hu Jinglu 
Published: May 2022

AbstractFew‐shot learning is to distinguish novel concepts with few annotated data, which has attracted much attention due to its requirement of limited training data for target classes. Recent few‐shot learning methods usually pretrain a feature extractor with images from the base set to boost the performance of few‐shot tasks and classify novel categories in this prior feature space. However, it is difficult for the pretrained feature extractor to extract accurate representations for novel categories, resulting in large amounts of overlapping areas between new classes. To address these issues, the prior feature space with a triplet network to learn a more discriminative space is refined, where features belonging to same class are pulled together and that from different classes are pushed apart. Specifically, the authors first follow recent paradigm of pretraining to obtain a prior feature space. Then, a triplet network with contrastive learning is trained to project the features from this space into a low‐dimensional one. The main difference lies in that the authors’ model is based on Maximum A Posteriori (MAP) and the triplet network with hallucinated features is finetuned from it to make them generalise well to novel categories. Finally, the authors conduct classification tasks in the finetuned space. The authors’ intuition is that the overlapping areas in novel categories can be separated by finetuning the triplet network pretrained on base set with contrastive learning. Experimental results on four few‐shot benchmarks show that it significantly outperforms the baseline methods, improves around 1.09% ∼ 13.09% than the best results in each dataset on both 1‐ and 5‐shot tasks.
The stereo matching algorithm based on an improved adaptive support window
Authors: Qi Jiyang , Liu Liang 
Published: May 2022

AbstractIn binocular stereo matching, there has been a problem of low matching accuracy and noise immunity in discontinuous regions and weak‐textured regions. This paper proposes a stereo matching algorithm based on an improved adaptive support window. In the cost computation stage, first, according to the preset arm length and colour threshold, a cross‐based arm is obtained, which centres on the pixel to be matched; then the adaptive regions of the vertical arm and the horizontal arm are constructed respectively, which have different shape and size. Finally, the union of the two adaptive regions is used as the final support window of Census transform. Performance evaluations on Middlebury stereo data sets demonstrate that the proposed algorithm outperforms other seven most challenging stereo matching algorithms. The mismatching rate of this algorithm is greatly reduced, and the anti‐noise performance is also improved considerably. Because the construction of the adaptive region is based on strict criteria and comprehensive consideration, the algorithm proposed in the paper can improve the matching accuracy in the weak‐textured regions and discontinuous disparity regions.
Online vehicle trajectory compression algorithm based on motion pattern recognition
Authors: Zhang Kaixuan , Zhao Dongbao , Liu Wenkai 
Published: May 2022

AbstractWith the popularity of various portable mobile devices with positioning functions, a large amount of spatial‐temporal trajectory data has emerged. To effectively compress large‐scale vehicle trajectory data and serve intelligent transportation system, we propose a spatial‐temporal trajectory data compression algorithm based on vehicle motion pattern recognition. The algorithm recognizes vehicles' turning behaviour and variable speed behaviour during the driving process through the analysis of vehicle motion patterns, and extracts the trajectory's turning feature points and variable speed feature points, so as to achieve online compression of the vehicle trajectory. By means of large‐scale experimental datasets, the authors compare this algorithm with representative trajectory compression algorithms in various performance metrics. The experimental results indicate that as an online vehicle trajectory compression algorithm, the proposed algorithm is superior to representative compression algorithms in compression accuracy and computational efficiency, and the compression results can reflect semantic motion information such as turning patterns and variable speed patterns in the trajectory. Therefore, this algorithm has comprehensive advantages, which is foundational for trajectory data mining in intelligent transportation systems.
A heterogeneous accelerated simulation framework for wind field dynamic model
Authors: Li Bing , Zhao Haoran , Zhang Kunpeng 
Published: May 2022

AbstractThis paper proposes an efficient and extensible simulation framework for mid‐fidelity wind field model based on heterogeneous architecture. The wind field model consists of 3‐D wind inflow, wake dynamics, and wind turbine models. The CPU‐GPU heterogeneous platform accelerates the 3‐D wind inflow model simulation by performing large‐scale parallel computing based on GPU. The CPU is utilized to dispatch the simulation and perform serial computing. Compared with the conventional simulation tool, the simulation speed of the 3‐D wind inflow model is highly improved, which fulfils the requirement of the real‐time wind field simulation. The hardware architecture of the framework is designed to be highly extensible by multiple computing nodes for 3‐D wind inflow, wake dynamic, and wind turbine model. The extendability enables the ability for large‐scale wind field simulation with high efficiency. A 5 × 2 × 0.35 wind field consisting of three wind turbines is used as the case. The case study was conducted and analyzed, proving that the framework can capture the detailed wake dynamic, wind turbine dynamic, and wind inflow dynamic. Meanwhile, the calculation speed of disturbed wind speed increased by 264 times.
The transfer of polarized radiation in resonance lines with partial frequency redistribution, J-state interference, and arbitrary magnetic fields
Authors: Alsina Ballester E. , Belluzzi L. , Trujillo Bueno J. 
Published: May 2022

Aims. We present the theoretical framework and numerical methods we have implemented to solve the problem of the generation and transfer of polarized radiation in spectral lines without assuming local thermodynamical equilibrium, while accounting for scattering polarization, partial frequency redistribution (due to both the Doppler effect and elastic collisions), J-state interference, and hyperfine structure. The resulting radiative transfer code allows one to model the impact of magnetic fields of an arbitrary strength and orientation through the Hanle, incomplete Paschen-Back, and magneto-optical effects. We also evaluate the suitability of a series of approximations for modeling the scattering polarization in the wings of strong resonance lines at a much lower computational cost, which is particularly valuable for the numerically intensive case of three-dimensional radiative transfer.
Methods. We examine the suitability of the considered approximations by using our radiative transfer code to model the Stokes profiles of the Mg  II h & k lines and of the H I Lyman-α line in magnetized one-dimensional models of the solar atmosphere.
Results. Neglecting Doppler redistribution in the scattering processes that are unperturbed by elastic collisions (i.e., treating them as coherent in the observer’s frame) produces a negligible error in the scattering polarization wings of the Mg II resonance lines and a minor one in the Lyman-α wings, although it is unsuitable to model the cores of these lines. For both lines, the scattering processes that are perturbed by elastic collisions only give a significant contribution to the intensity component of the emissivity. Neglecting collisional as well as Doppler redistribution (so that all scattering processes are coherent) represents a rough but suitable approximation for the wings of the Mg II resonance lines, but a very poor one for the Lyman-α wings. The magnetic sensitivity in the scattering polarization wings of the considered lines can be modeled by accounting for the magnetic field in only the ηI and ρV coefficients of the Stokes-vector transfer equation (i.e., using the zero-field expression for the emissivity).