bluuebunny/crossref_metadata_2025_split huggingface dataset:
Finding spatially variable ligand-receptor interactions from spatial transcriptomes
Authors: LI Shiying , WANG Ruohan , LIU Sitong , Li Shuai Cheng 
Published: July 2023

Abstract
Spatial transcriptomics has emerged as a groundbreaking tool for studying ligand-receptor interactions between cells, and such interactions exhibit spatial variability. To identify spatially variable ligand-receptor interactions (SVIs), we present SPIDER, which constructs cell-cell interaction interfaces and profiles, and identifies spatially variable interaction signals with multiple probabilistic models. We applied SPIDER to six datasets from four platforms of various tissues and obtained intriguing insights. First, we found the SPIDER-constructed interaction interfaces preserving the layer structure in the human dorsolateral prefrontal cortex samples. Similarly, on a human breast cancer dataset, we found interface clusters representing cancer in situ, invasive cancer, and tumor boundaries. Subsequently, applying SPIDER on mouse lung and human pancreatic ductal adenocarcinoma samples produces SVIs that correlate with cell-type markers, annotated clusters, and deconvoluted celltypes, suggesting that SVIs could represent distinct functions from celltypes. Additionally, on a developing mouse embryo dataset, SPIDER identifies distinct SVIs marking sub-brain regions, showing the potential of SVI in representing regional interactions. Investigation into the relation between spatially variable genes and SVIs suggests that the spatial variance of SVIs does not originate from ligands and receptors and that SVI and SVG are complementary in providing biological insights as SVIs enrich additional signaling pathways.
An R-A dual network detection model for abnormal behavior of running vehicles
Authors: Liu Chengpei , SUN QUANJUN , FAN YING , LIN QUNXU , HUANG ZUCHENG , JIANG XUYAO 
Published: July 2023

Abstract

Detection of abnormal behavior of running vehicles plays an essential role in road traffic safety. In this paper, the R-A (ResNet-Adaboost) dual network detection algorithm to cope with the problem that the existing detection algorithm of abnormal running behavior cannot detect different kinds of abnormal running behavior and cannot adapt to different detection scenarios. Firstly, this paper utilizes the YOLOV5-DEEPSORT algorithm to collect the spatial and temporal information of the target vehicle. In this way, various kinds of abnormal running behavior can be detected efficiently. Secondly, based on the information matrix, the entropy method is used to determine the dynamic weight of various abnormal running information, and then to determine the type of information input to the judgment model so as to obtain the information more accurately. Finally, the accurate vehicle running information is input into the R-A detection model. In this paper, an algorithm to estimate the abnormal running information is established as the information classification basis of the R-A detection model. The algorithm calculates the difference between the input vehicle running information matrix and the normal one to judge whether the information matrix is abnormal. Moreover, it is proved by the field experiments and NGSSIM datasets that the R-A detection model is able to detect different abnormal running behavior vehicle in different scenarios. The experimental results show that the R-A model with an accuracy of 90%-95% is better than the existing detection model. Additionally, it can more accurately detect various abnormal behavior of running vehicles.
g-C3N4/Ag@AgCl with Z-scheme Heterojunction and Ag electron bridge for Enhanced Photocatalytic Degradation of Tetracycline Wastewater
Authors: Zhang Baiyan , Zhang Hongfen , Ma Dan , Liang Fangmiao , Lan Hongli , Yan Feifei 
Published: July 2023

Abstract
Building Z-scheme heterojunctions with an electron bridge is a favored function for increasing photocatalytic activity. A facile approach for preparing g-C3N4/Ag@AgCl ternary heterojunctions by co-precipitation and photoreduction was established in this work. First, via co-precipitation, AgCl was modified on the surface of g-C3N4 to create a broad contact area between AgCl and g-C3N4. The AgCl is then reduced to Ag via an in-situ photoreduction technique, resulting in the formation of a ternary composite. The experimental results showed that when g-C3N4 modified 25% of the Ag@AgCl, that is, g-C3N4/Ag@AgCl-25 had the best photocatalytic performance, 94.9% of TC was degraded within 240 minutes, and the reaction rate to TC was 0.1214 min− 1, which was 4.49 times and 8.12 times higher than that of g-C3N4 and Ag/AgCl, respectively. The excellent photocatalytic performance of g-C3N4/Ag@AgCl is attributed to the LSPR effect of Ag NPs and O-doping g-C3N4, which broadens the absorbance performance of g-C3N4, the establishment of Z-type heterojunctions between AgCl NPs and g-C3N4 NSs and Ag NPs as an electron transport bridge accelerate the photogenerated electrons transfer between AgCl and g-C3N4.
The waveform comparison of three common-used fractional viscous acoustic wave equations
Authors: Wang Dan , Wang Zhiliang , Zhang Xinmin , Huang Rong , Song Ziang , Song Guojie 
Published: July 2023

Abstract
The forward simulation of the viscous acoustic wave equation is an essential part of geophysics and energy resources exploration research. The viscous acoustic seismic wave equations are diverse, even if we limit the study scope to the fractional viscous wave equations. In the present study, we consider three commonly used fractional-order viscous wave equations: the fractional viscous acoustic wave (FVAW) equation, dispersion-dominated wave (DDW) equation, and attenuation-dominated wave (ADW) equation. The acoustic wave (AW) equation, as a special fractional wave equation, is used to compare with the three viscous acoustic equations. The asymptotic local finite difference (ALFD) method is adopted to solve the three fractional wave equations, while the Lax-Wendroff Correction (LWC) scheme is used to solve the integer wave equation. The analysis shows that the stability of the ADW equation is the most rigorous, and that of the DDW equation is the most flexible. When the numerical wave number \(\vartheta =\pi\), the maximum phase velocity errors of the FVAW equation, DDW equation, ADW equation, and AW equation are 27.78%, 28.02%, 2.25%, and 3.04%, respectively. Numerical experiments show that the waveforms simulated by the four equations with the same parameters are distinct. Specifically, the FVAW equation, DDW equation, and quality factor Q are sensitive to the arrival time, while the FVAW equation, ADW equation, and quality factor Q are sensitive to the amplitude. Furthermore, the change of amplitude is more apparent than that of the arrival time, giving the results that the arrival time is more robust than the amplitude.
Adaptive chicken swarm optimization algorithm for identifying structural parameters of 6-DOF mechanical arm
Authors: Xu Zhiqiang , Xia Junyong , Zhong Fei 
Published: July 2023

Abstract
Accurately identifying the structural parameters of the mechanical arm can effectively increase its precision. Firstly, the kinematic model of the mechanical arm is constructed by adopting the MDH method. Secondly, based on the single-point conical hole repeatability, the objective function characterizing the single-point repeatability error is established. Thirdly, an adaptive chicken swarm optimization algorithm (mCSO) is put forward to tackle the issue of low convergence accuracy of chicken swarm optimization algorithm (CSO). Then, combined with the objective function characterizing the single-point repeatability error, the structural parameters of the mechanical arm are identified using algorithms CSO and mCSO, respectively. Finally, repeat the single-point conical hole repeatability experiment using the mechanical arm before and after identification. The experimental result reveals that the single-point repeatability error of the mechanical arm after mCSO identification is greatly reduced.
Altered intratumoral immune composition after Nivolumab treatment in patients with recurrent glioblastoma
Authors: Hadrup Sine , Skadborg Signe , Maarup Simone , Draghi Arianna , Borch Annie , Hendriksen Sille , Mundt Filip , Mann Matthias , Skjoeth-Rasmussen Jane , Yde Christina Westmose , Poulsen Hans , Hasselbach Benedikte , Svane Inge Marie , Lassen Ulrik 
Published: July 2023

Abstract
Glioblastoma is an aggressive brain tumor with poor prognosis, and consequently immunotherapy is being explored as a potential treatment option. However, it is unclear whether systemic immunotherapy can reach and modify the tumor microenvironment in the brain. We evaluated immune characteristics in tumor and blood samples from recurrent glioblastoma patients, who received Nivolumab and Bevacizumab. One group received Nivolumab one week prior to surgery, and immune characteristics of the tumor were compared to control patients receiving salvage resection without prior Nivolumab treatment. Nivolumab-bound T-cells could be detected in tumor tissue, along with increasing numbers of both activated and differentiated CD4+ and CD8+ T-cells. An associated upregulation of co-inhibitory receptors on T-cells was observed following Nivolumab treatment. Additionally, tumor-reactivity was detected in tumor infiltrating lymphocytes (TILs) from Nivolumab-treated patients, and neoantigen-reactive T-cells could be identified in both TILs and blood, indicating a systemic response towards GBM in a subset of patients.
Assessing the Impact of Community Health Education on Hepatitis B and C Prevention
Authors: Areqi Abdullah Ahmed , Muslot Manal , Muslot Dalia 
Published: July 2023

Abstract
This study assesses the impact of community health education on hepatitis B and C prevention, focusing on knowledge levels and behavior change among participants. A quasi-experimental design, specifically a pre- and post-test design, was employed to evaluate the effectiveness of the intervention. The study was conducted in a selected community with a high proportion of individuals at risk of hepatitis B and C. Participants were recruited through community organizations and local health clinics. Data was collected through pre- and post-intervention assessments, measuring participants' knowledge and behaviors related to hepatitis B and C prevention. The community health education intervention consisted of educational sessions, distribution of informational materials, and interactive activities. Paired sample t-tests were conducted to analyze the changes in knowledge and behavior scores before and after the intervention. The results showed a significant improvement in participants' knowledge levels regarding hepatitis B and C after the intervention. Participants demonstrated increased understanding of transmission routes, symptoms and signs, prevention methods, treatment options, and the importance of vaccination. The intervention had a positive impact on behavior change, with participants showing an increase in the utilization of barrier methods and safe injection practices, as well as a reduction in needle-sharing behavior. These findings indicate that community health education is effective in enhancing knowledge and promoting positive behaviors related to hepatitis B and C prevention. The study supports the value of educational interventions in empowering individuals to make informed decisions and adopt preventive practices. By equipping individuals with accurate information and promoting behavior change, community health education programs contribute to reducing the incidence and prevalence of hepatitis B and C infections..
A Single Intranasal Dose of Essential Oil Spray Confers Modulation of the Nasopharyngeal Microbiota and Short-term Inhibition of Mannheimia in Feedlot Cattle: A Pilot Study
Authors: Magossi Gabriela , Schmidt Kaycie , Winders Thomas , Carlson Zachary , Holman Devin B. , Underdahl Sarah , Swanson Kendall , Amat Samat 
Published: July 2023

Abstract
Five essential oils (EOs) were previously characterized in vitro and identified as candidate EOs for the development of an intranasal EO spray to mitigate bovine respiratory disease (BRD) pathogens. In the present study, these EOs were evaluated for their potential to (i) reduce BRD pathogens, (ii) modulate nasopharyngeal microbiota, and (iii) influence animal performance, feeding behavior and immune response when administered intranasally to feedlot cattle. Forty beef steer calves (7–8 months old, Initial body weight = 284 ± 5 kg [SE]) received either an intranasal EO spray (ajowan, thyme, fennel, cinnamon leaf, and citronella) or PBS (Control; n = 20/group) on day 0. Deep nasopharyngeal swabs were collected (days − 1, 1, 2, 7, 14, 28 and 42) and processed for 16S rRNA gene sequencing, qPCR, and culturing. Significant effects of EO on community structure (d1), microbial richness and diversity, and relative abundance of some dominant phyla (d1, d2, and d14), and the overall interaction network structure of the nasopharyngeal microbiota were detected. The EO calves had reduced abundance of Mannheimia (4.34% vs. 10.4%) on d2, and M. haemolytica prevalence on d7 as compared to control calves. Feed intake, average daily gain, feeding behavior and blood cell counts were not affected by EO treatment. Overall, a single intranasal dose of EO spray resulted in moderate modulation of nasopharyngeal microbiota and short-term inhibition of Mannheimia while not influencing animal performance, feeding behavior or immune response. Our study, for the first time, shows the potential use of intranasal EO to mitigate BRD in feedlot cattle.
Shear Wave Velocity (Vs) and SPT Resistance (N) Correlation for the Isfahan Metro, Iran
Authors: Chatrayi Hosein , Hajizadeh Farnusch , Taghavi Behnam 
Published: July 2023

Abstract
The evaluation of earthquake damage is a crucial problem for ground improvement, and it is dependent on the ground motion. The shear wave velocity determines the features of an earthquake motion at a location (Vs). Although the shear wave velocity profile at a location might not be easily accessible, the number of blows (N) from a standard penetration test (SPT) is. The establishment of a trustworthy connection between Vs, as determined by multichannel analysis of surface wave testing, and N, as determined by SPT at Isfahan Metro Line 2, is presented in this study. These tests have been run on a total of 22 boring logs (within a radius of 30 km). The index qualities of the SPT samples are examined in a lab setting. The study is crucial for this area since the resistance of the subway structure must be examined. An empirical correlation between Vs and N was created based on the statistical analyses. All soil types, sands only, and clay alone are treated individually in this manner. The established ties are comparable to those established for other sites around the world. Also, a comparison with relevant relations is provided. Given that ground motion is one of the key characteristics in seismic microzonation of the area, the proposed relations will be useful.
One Produces Multi: A Drug-free Cardiovascular Stent Functionalized with Tailored Collagen Supports in-situ Healing of Vascular Tissues
Authors: Wang Yunbing , Wu Haoshuang , Yang Li , Luo Rifang , Huang Kaiyang , Qin Yumei , Yang Xia , Zhang Xingdong 
Published: July 2023

Abstract
Drug-eluting stent implantation suppresses the proliferation of vascular endothelial cells and smooth muscle cells and thus intimal hyperplasia. However, drug-eluting stent remains limited by delayed reendothelialization, impaired intimal remodeling, and potentially increased late restenosis. Here, we show a drug-free coating formulation functionalized with meticulously tailored recombinant humanized collagen type III (rhCol III) that performs “one produces multi” behavior in response to injured tissue following stent implantation. In vitro and in vivo experiments have demonstrated that the “one produces multi” coating has the properties of resisting coagulation, reducing inflammatory responses by regulating macrophage polarization, and inhibiting the proliferation of smooth muscle cells. Furthermore, the drug-free coating accelerated neointimal healing probably via cell signaling of CCL5, CEACAM6, GATA3, and XBP, which influences the cell adhesion, proliferation, migration, and apoptosis pathways. Compared with drug-eluting stent, the rhCOL III-coated stent reduced in-stent restenosis and improved vascular neointimal healing 3 months after implantation in both rabbit and porcine models. Collectively, the “one produces multi” drug-free strategy has the potential to serve as a new inspiration for next-generation stent development.
A Linear Approximate Robust Strategic Asset Allocation with Inflation-Deflation Hedging Demand
Authors: Kusuda Koji , Kikuchi Kentaro 
Published: July 2023

Abstract
This study considers a finite-time consumption-investment problem for investors with homothetic robust utility under the quadratic security market model with stochastic volatilities and inflation rates. This leads to a nonlinear nonhomogeneous partial differential equation for indirect utility. We propose a linear approximation method and derive the approximate optimal robust portfolio decomposed into myopic, intertemporal hedging, and inflation-deflation hedging demands. Furthermore, we propose a method for estimating our quadratic security market model that achieves the stability of optimal portfolio estimates. We then apply our estimation method to a two-factor quadratic security market model. Our numerical analysis shows that the market timing effects in the optimal robust allocation are significant and nonlinear, and are mainly due to inflation-deflation hedging demand in addition to myopic demand.
Impact of Neoadjuvant Chemotherapy on Breast Cancer-Related Lymphedema after Axillary Lymph Node Dissection: A Retrospective Cohort Study
Authors: Jia Miaomiao , Pan Lihui , Yang Haibo , Gao Jinnan , Guo Fan 
Published: July 2023

Abstract
Purpose
We aimed to evaluate whether neoadjuvant chemotherapy (NAC) could be a risk factor for breast cancer-related lymphedema (BCRL) associated with axillary lymph node dissection (ALND).
Patients and Methods:
A total of 596 patients with cT0-4N0-3M0 breast cancer who underwent ALND and chemotherapy were retrospectively analyzed between March 2012 and March 2022. NAC was administered in 188 patients (31.54%), while up-front surgery in 408 (68.46%). Univariate and multivariable Cox regression analyses were performed to determine whether NAC was an independent risk factor for BCRL. With propensity score matching (PSM), the NAC group and up-front surgery group were matched 1:1 by age, body mass index (BMI), molecular subtypes, type of breast surgery, and the number of positive lymph nodes. Kaplan-Meier survival analyses were performed for BCRL between groups before and after PSM. Subgroup analyses were conducted to explore whether NAC differed for BCRL occurrence in people with different characteristics.
Results
At a median follow-up of 36.30 months, 130 patients (21.81%) experienced BCRL [NAC, 50/188 (26.60%) vs. up-front surgery, 80/408 (19.61%); P = 0.030]. Multivariable analysis identified that NAC [hazard ratio, 1.503; P = 0.033] was an independent risk factor for BCRL. In addition, the hormone receptor-negative/human epidermal growth factor receptor 2-negative (HR-/HER2-) subtype, breast-conserving surgery (BCS), and increased positive lymph nodes significantly increased BCRL risk. After PSM, NAC remained a risk factor for BCRL [hazard ratio, 1.896; P = 0.007]. Subgroup analyses showed that NAC had a consistent BCRL risk in most clinical subgroups.
Conclusion
NAC receipt has a statistically significant increase in BCRL risk in patients with ALND. These patients should be closely monitored and may benefit from early BCRL intervention.
Aptamer-functionalized interface nanopores enable amino acid-specific single-molecule proteomics
Authors: Schlotter Tilman , Kloter Tom , Hengsteler Julian , Ragavan Sujeni , Hu Haiying , Zhang Xinyu , Duru Jens , Vörös Janos , Zambelli Tomaso , Nakatsuka Nako 
Published: July 2023

Abstract
Single-molecule proteomics based on nanopore technology has made significant advances in recent years. However, to achieve nanopore sensing with single amino acid resolution, several bottlenecks must be tackled: controlling nanopore sizes with nanoscale precision and slowing molecular translocations events. Herein, we address these challenges by coupling amino acid-specific DNA aptamers to interface nanopores with dynamically tunable pores. A phenylalanine aptamer was used as a proof-of-concept; aptamer recognition of phenylalanine moieties led to retention of specific peptides, slowing translocation speeds. We decoupled specific binding between aptamers and peptides with phenylalanine moieties from nonspecific interactions (e.g., electrostatics) using optical waveguide lightmode spectroscopy. Aptamer-modified interface nanopores differentiated peptides containing phenylalanine vs. control peptides with structurally similar amino acids (i.e., tyrosine and tryptophan). When the duration of aptamer-target interactions inside the nanopore were prolonged by lowering the applied voltage, discrete ionic current levels with repetitive motifs were observed. Such reoccurring signatures in the measured signal suggest that the proposed method has the possibility to resolve amino acid-specific aptamer recognition, a step towards single-molecule proteomics.
A developed multiplex RT-PCR assay for simultaneous detection of four main viruses on pepper (Capsicum spp.)
Authors: Gong Mingxia , Zhao Zengjing , Wu Xing , Zhao Hu , Wang Meng , He Zhi , Wang Risheng 
Published: July 2023

Abstract
Viral diseases cause severe losses commonly and become one of main global limiting factors in pepper production. Chilli veinal mottle virus (ChiVMV), pepper veinal mottle virus (PVMV), cucumber mosaic virus (CMV), and pepper mild mottle virus (PMMoV) are the dominant viruses damaging pepper in South China. To detect these viruses efficiently, a developed multiplex reverse transcription polymerase chain reaction (RT-PCR) method was established. Four pairs of specific primers were used to amplify a 990 bp product for PMMoV, a 923 bp product for ChiVMV, a 823 bp product for PVMV, and a 682 bp product for CMV. The optimal primer concentration, the optimal reaction annealing temperature and cycle number were determined. The developed multiplex RT-PCR could detect PMMoV, ChiVMV, CMV and PVMV from cDNA diluted up to 10–4, 10–4, 10–3 and 10–3, respectively. Then it was sucessfully used to detect virus infection from eight mixed pepper leaf samples. The result were basically consistent with that of monoplex RT-PCR. Additionally, seventy-five diseased samples collected from nine major pepper growing regions in Guangxi were analyzed by the developed multiplex RT-PCR. The results showed that most of samples were coinfected by two or more viruses, and ChiVMV and PVMV had relatively higher total detection rates of 65.33% and 60.00% respectivlely. The results also indicated that the four viruses infecting pepper weren't evenly distributed in Guangxi. In a conclusion, the developed multiplex RT-PCR here will be a efficient tool for routine molecular diagnosis of PMMoV, ChiVMV, PVMV and CMV.