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10 pages, 898 KiB  
Article
Is There a Relationship Between Helicobacter pylori Infection and Anthropometric Status?
by Lilian Camaño Carballo, Alejandro Ernesto Lorenzo Hidalgo, Paola Andrea Romero Riaño, Alejandro Martínez-Rodríguez and Daniela Alejandra Loaiza Martínez
Gastrointest. Disord. 2025, 7(1), 21; https://doi.org/10.3390/gidisord7010021 (registering DOI) - 6 Mar 2025
Abstract
Background: Helicobacter pylori infection, overweight, and obesity are global health concerns. This bacterium is involved in the pathophysiology of chronic gastritis and gastric cancer. Additionally, overweight and obesity, associated with unhealthy eating habits and sedentary lifestyles, cause alterations in the gut microbiota [...] Read more.
Background: Helicobacter pylori infection, overweight, and obesity are global health concerns. This bacterium is involved in the pathophysiology of chronic gastritis and gastric cancer. Additionally, overweight and obesity, associated with unhealthy eating habits and sedentary lifestyles, cause alterations in the gut microbiota that facilitate gastric colonization by Helicobacter pylori. Moreover, individuals with obesity tend to consume low-quality foods due to episodes of anxiety and exhibit elevated insulin levels, which may promote the development of gastric neoplasms. Studies conducted in Latin America have found that over 50% of participants are infected with Helicobacter pylori, a situation similar to that reported in Ecuador, where the prevalence of overweight and obesity in individuals aged 19 to 59 years reached 64.58% in 2018. Both health issues are influenced by the high consumption of processed foods or those prepared under inadequate hygiene conditions. Methods: In this context, this research aimed to correlate the body composition of university students with the prevalence of Helicobacter pylori. An observational, cross-sectional, and descriptive study was conducted with 57 Nursing, Medicine, and Psychology students from Universidad Indoamérica, Ambato campus, during 2024. Fecal samples were analyzed to detect the presence of the bacterium, and anthropometric measurements were taken to establish a possible relationship between these parameters. Results: Of the 57 students who participated, 54.39% tested positive for Helicobacter pylori. However, the presence of the bacteria did not show any relationship with body composition parameters such as fat mass, lean mass, BMI, weight, height, or age. Conclusions: The study found no evidence of a connection between Helicobacter pylori infection and anthropometric parameters in this university population. However, the high incidence of infections highlights the importance of promoting the consumption of safe food and ensuring timely diagnosis and treatment. Full article
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<p>Patients’ test results for <span class="html-italic">Helicobacter pylori.</span></p>
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<p>Test results for <span class="html-italic">Helicobacter pylori</span> antigen detection in stool samples divided by patient gender.</p>
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40 pages, 4884 KiB  
Article
Impacts of Mechanical Injury on Volatile Emission Rate and Composition in 45 Subtropical Woody Broad-Leaved Storage and Non-Storage Emitters
by Yali Yuan, Yimiao Mao, Hao Yuan, Ming Guo, Guomo Zhou, Ülo Niinemets and Zhihong Sun
Plants 2025, 14(5), 821; https://doi.org/10.3390/plants14050821 (registering DOI) - 6 Mar 2025
Abstract
Biogenic volatile organic compounds (BVOCs) significantly impact air quality and climate. Mechanical injury is a common stressor affecting plants in both natural and urban environments, and it has potentially large influences on BVOC emissions. However, the interspecific variability in wounding-induced BVOC emissions remains [...] Read more.
Biogenic volatile organic compounds (BVOCs) significantly impact air quality and climate. Mechanical injury is a common stressor affecting plants in both natural and urban environments, and it has potentially large influences on BVOC emissions. However, the interspecific variability in wounding-induced BVOC emissions remains poorly understood, particularly for subtropical trees and shrubs. In this study, we investigated the effects of controlled mechanical injury on isoprenoid and aromatic compound emissions in a taxonomically diverse set of 45 subtropical broad-leaved woody species, 26 species without and in 19 species with BVOC storage structures (oil glands, resin ducts and glandular trichomes for volatile compound storage). Emissions of light-weight non-stored isoprene and monoterpenes and aromatic compounds in non-storage species showed moderate and variable emission increases after mechanical injury, likely reflecting the wounding impacts on leaf physiology. In storage species, mechanical injury triggered a substantial release of monoterpenes and aromatic compounds due to the rupture of storage structures. Across species, the proportion of monoterpenes in total emissions increased from 40.9% to 85.4% after mechanical injury, with 32.2% of this increase attributed to newly released compounds not detected in emissions from intact leaves. Sesquiterpene emissions, in contrast, were generally low and decreased after mechanical injury. Furthermore, wounding responses varied among plant functional groups, with evergreen species and those adapted to high temperatures and shade exhibiting stronger damage-induced BVOC emissions than deciduous species and those adapted to dry or cold environments. These findings suggest that mechanical disturbances such as pruning can significantly enhance BVOC emissions in subtropical urban forests and should be considered when modeling BVOC fluxes in both natural and managed ecosystems. Further research is needed to elucidate the relationship between storage structure characteristics and BVOC emissions, as well as their broader ecological and atmospheric implications. Full article
(This article belongs to the Section Plant Physiology and Metabolism)
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<p>Emission rates of isoprene (<b>A</b>,<b>B</b>), monoterpenes (<b>C</b>,<b>D</b>), sesquiterpenes (<b>E</b>,<b>F</b>) and aromatic compounds (<b>G</b>,<b>H</b>) from intact and mechanically injured leaves of 45 subtropical tree species (<a href="#plants-14-00821-t001" class="html-table">Table 1</a>) classified among deciduous and evergreen species and species having or lacking specialized volatile-storing structures (resin ducts, glandular trichomes, oil cells and oil glands). (<b>A</b>,<b>C</b>,<b>E</b>,<b>G</b>) are the species actual average (±SE) emission rates, and (<b>B</b>,<b>D</b>,<b>F</b>,<b>H</b>) are the mean emission rates for intact and damaged leaves. Three replicate trees were sampled for each species, and from each tree, two leaves were measured. The values for two replicate leaves per plant were averaged and then the average for three replicate plants was calculated. * denotes significant differences between intact and injured leaf blade emission rates according to paired-samples <span class="html-italic">t</span>-tests (<span class="html-italic">p</span> &lt; 0.05). “ns” denotes no significant difference between the emission rates of intact and injured leaf blade.</p>
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<p>The proportions of compounds (monoterpenes, sesquiterpenes and aromatic compounds) in intact (<b>A</b>) and damaged (<b>B</b>) leaves in species with and without volatile storage structures and group-average share of BVOC classes for intact (<b>C</b>) and damaged (<b>D</b>) leaves in species without storage structures and for intact (<b>E</b>) and damaged (<b>F</b>) leaves in storage species. “New” represents the share of compounds not observed in the emissions of intact leaves and emitted after the leaves were injured.</p>
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<p>Comparison of average ± SE monoterpene and aromatic compound emission rates among intact and mechanically injured evergreen and deciduous leaves with (19 species) and without (26 species) specialized storage for 45 subtropical woody species. The number of species for each group is shown within each bar. Different letters denote significant differences (<span class="html-italic">p</span> &lt; 0.05) between intact and injured leaf blades among the groups according to ANOVA followed by Duncan tests. The comparisons for isoprene and sesquiterpenes were not informative due to too few species for presence of storage/leaf duration combinations (<span class="html-italic">n</span> = 19). The abbreviations are Deci—deciduous species; Eve—evergreen species.</p>
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<p>Comparison of average ± SE monoterpene and aromatic compound emission rates among intact and mechanically injured leaves of species with varying stress resistance, tolerant to high and low temperatures (<b>A</b>,<b>B</b>) and to high light and shade (<b>C</b>,<b>D</b>) among the 45 subtropical woody species studied. The number of species for each group is shown within each bar. Different letters denote significant differences (<span class="html-italic">p</span> &lt; 0.05) between intact and injured leaves among the groups according to ANOVA followed by Duncan tests. Too few combinations of stress tolerance/presence of storage structure were available for isoprene and sesquiterpenes. Species ecological potentials are HT—high temperature resistant (thermophilus, <span class="html-italic">n</span> = 28); CT—cold tolerant (<span class="html-italic">n</span> = 16); LT—high-light resistant (<span class="html-italic">n</span> = 33); ST—shade tolerant (<span class="html-italic">n</span> = 11).</p>
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<p>Schematic overview of emission characteristics of volatile isoprenoids and aromatics, the wounding responses of emissions, and volatile functions as associated with presence of leaf storage structures and ecological adaptations. The direction from the base to the vertex of the isosceles triangles indicates the change in the expression of the given trait.</p>
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19 pages, 1230 KiB  
Article
A Neural-Symbolic Approach to Extract Trust Patterns in IoT Scenarios
by Fabrizio Messina, Domenico Rosaci and Giuseppe M. L. Sarnè
Future Internet 2025, 17(3), 116; https://doi.org/10.3390/fi17030116 (registering DOI) - 6 Mar 2025
Abstract
Trust and reputation relationships among objects represent key aspects of smart IoT object communities with social characteristics. In this context, several trustworthiness models have been presented in the literature that could be applied to IoT scenarios; however, most of these approaches use scalar [...] Read more.
Trust and reputation relationships among objects represent key aspects of smart IoT object communities with social characteristics. In this context, several trustworthiness models have been presented in the literature that could be applied to IoT scenarios; however, most of these approaches use scalar measures to represent different dimensions of trust, which are then integrated into a single global trustworthiness value. Nevertheless, this scalar approach within the IoT context holds a few limitations that emphasize the need for models that can capture complex trust relationships beyond vector-based representations. To overcome these limitations, we already proposed a novel trust model where the trust perceived by one object with respect to another is represented by a directed, weighted graph. In this model, called T-pattern, the vertices represent individual trust dimensions, and the arcs capture the relationships between these dimensions. This model allows the IoT community to represent scenarios where an object may lack direct knowledge of a particular trust dimension, such as reliability, but can infer it from another dimension, like honesty. The proposed model can represent trust structures of the type described, where multiple trust dimensions are interdependent. This work represents a further contribution by presenting the first real implementation of the T-pattern model, where a neural-symbolic approach has been adopted as inference engine. We performed experiments that demonstrate the capability in inferring trust of both the T-pattern and this specific implementation. Full article
(This article belongs to the Special Issue Joint Design and Integration in Smart IoT Systems)
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<p>An example of a simple TPN with two smart IoT objects (i.e., <math display="inline"><semantics> <msub> <mi>o</mi> <mn>1</mn> </msub> </semantics></math> and <math display="inline"><semantics> <msub> <mi>o</mi> <mn>2</mn> </msub> </semantics></math>) considering expertise (X), honesty (H), reliability (R), and security (S) trust issues.</p>
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<p>The three-layer TPA architecture.</p>
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<p>Percentage error <math display="inline"><semantics> <mrow> <mi>e</mi> <mo>(</mo> <mi>H</mi> <mi>O</mi> <mi>N</mi> <mo>)</mo> </mrow> </semantics></math> for different values of number of smart IoT objects <span class="html-italic">n</span> and number of groups <span class="html-italic">k</span>.</p>
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<p>Percentage error <math display="inline"><semantics> <mrow> <mi>e</mi> <mo>(</mo> <mi>S</mi> <mi>E</mi> <mi>C</mi> <mo>)</mo> </mrow> </semantics></math> for different values of number of smart IoT objects <span class="html-italic">n</span> and number of groups <span class="html-italic">k</span>.</p>
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<p>Percentage error <math display="inline"><semantics> <mrow> <mi>e</mi> <mo>(</mo> <mi>E</mi> <mi>X</mi> <mi>P</mi> <mo>)</mo> </mrow> </semantics></math> for different values of number of smart IoT objects <span class="html-italic">n</span> and number of groups <span class="html-italic">k</span>.</p>
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32 pages, 6211 KiB  
Article
Mechanical Structure Design and Motion Simulation Analysis of a Lower Limb Exoskeleton Rehabilitation Robot Based on Human–Machine Integration
by Chenglong Zhao, Zhen Liu, Yuefa Ou and Liucun Zhu
Sensors 2025, 25(5), 1611; https://doi.org/10.3390/s25051611 (registering DOI) - 6 Mar 2025
Abstract
Population aging is an inevitable trend in contemporary society, and the application of technologies such as human–machine interaction, assistive healthcare, and robotics in daily service sectors continues to increase. The lower limb exoskeleton rehabilitation robot has great potential in areas such as enhancing [...] Read more.
Population aging is an inevitable trend in contemporary society, and the application of technologies such as human–machine interaction, assistive healthcare, and robotics in daily service sectors continues to increase. The lower limb exoskeleton rehabilitation robot has great potential in areas such as enhancing human physical functions, rehabilitation training, and assisting the elderly and disabled. This paper integrates the structural characteristics of the human lower limb, motion mechanics, and gait features to design a biomimetic exoskeleton structure and proposes a human–machine integrated lower limb exoskeleton rehabilitation robot. Human gait data are collected using the Optitrack optical 3D motion capture system. SolidWorks 3D modeling software Version 2021 is used to create a virtual prototype of the exoskeleton, and kinematic analysis is performed using the standard Denavit–Hartenberg (D-H) parameter method. Kinematic simulations are carried out using the Matlab Robotic Toolbox Version R2018a with the derived D-H parameters. A physical prototype was fabricated and tested to verify the validity of the structural design and gait parameters. A controller based on BP fuzzy neural network PID control is designed to ensure the stability of human walking. By comparing two sets of simulation results, it is shown that the BP fuzzy neural network PID control outperforms the other two control methods in terms of overshoot and settling time. The specific conclusions are as follows: after multiple walking gait tests, the robot’s walking process proved to be relatively safe and stable; when using BP fuzzy neural network PID control, there is no significant oscillation, with an overshoot of 5.5% and a settling time of 0.49 s, but the speed was slow, with a walking speed of approximately 0.18 m/s, a stride length of about 32 cm, and a gait cycle duration of approximately 1.8 s. The model proposed in this paper can effectively assist patients in recovering their ability to walk. However, the lower limb exoskeleton rehabilitation robot still faces challenges, such as a slow speed, large size, and heavy weight, which need to be optimized and improved in future research. Full article
(This article belongs to the Section Sensors and Robotics)
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<p>Schematic diagram of the human gait cycle (R: Right leg; L: Left leg; IC: Initial Contact; FO: Foot Off; MS: Mid-swing).</p>
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<p>Experiment procedure: (<b>a</b>) distribution of muscle groups in human gait; (<b>b</b>) marker placement locations; (<b>c</b>) tracking of the moving target points.</p>
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<p>Gait model.</p>
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<p>Joint angle change curves within the gait cycle: (<b>a</b>) hip joint angle change; (<b>b</b>) knee joint angle change; (<b>c</b>) ankle joint angle change.</p>
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<p>Lower limb exoskeleton rehabilitation robot joint design: (<b>a</b>) hip joint; (<b>b</b>) knee joint; (<b>c</b>) ankle joint; (<b>d</b>) overall 3D structure.</p>
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<p>Lower limb exoskeleton rehabilitation robot joint design: (<b>a</b>) hip joint; (<b>b</b>) knee joint; (<b>c</b>) ankle joint; (<b>d</b>) overall 3D structure.</p>
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<p>Schematic diagram of the kinematic coordinate system configuration for the left leg of the lower limb exoskeleton.</p>
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<p>Three-dimensional model of the left leg.</p>
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<p>Inverse kinematics verification: (<b>a</b>) forward kinematics model; (<b>b</b>) inverse kinematics model.</p>
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<p>Membership function plots: (<b>a</b>) membership function of input variable <span class="html-italic">e</span>; (<b>b</b>) membership function of input variable <span class="html-italic">ec</span>; (<b>c</b>) membership function of output variable <span class="html-italic">k<sub>p</sub></span>; (<b>d</b>) membership function of output variable <span class="html-italic">k<sub>i</sub></span>; (<b>e</b>) membership function of output variable <span class="html-italic">k<sub>d.</sub></span></p>
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<p>Membership function plots: (<b>a</b>) membership function of input variable <span class="html-italic">e</span>; (<b>b</b>) membership function of input variable <span class="html-italic">ec</span>; (<b>c</b>) membership function of output variable <span class="html-italic">k<sub>p</sub></span>; (<b>d</b>) membership function of output variable <span class="html-italic">k<sub>i</sub></span>; (<b>e</b>) membership function of output variable <span class="html-italic">k<sub>d.</sub></span></p>
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<p>Structure of BP neural network.</p>
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<p>Simulink simulation results: (<b>a</b>) no disturbance; (<b>b</b>) with disturbance.</p>
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<p>Prototype donning demonstration.</p>
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<p>EMG amplitude (%MVC): (<b>a</b>) gastrocnemius; (<b>b</b>) biceps femoris; (<b>c</b>) rectus femoris; (<b>d</b>) tibialis anterior.</p>
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<p>EMG amplitude (%MVC): (<b>a</b>) gastrocnemius; (<b>b</b>) biceps femoris; (<b>c</b>) rectus femoris; (<b>d</b>) tibialis anterior.</p>
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<p>Walking gait test.</p>
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32 pages, 2960 KiB  
Article
Comparing Application-Level Hardening Techniques for Neural Networks on GPUs
by Giuseppe Esposito, Juan-David Guerrero-Balaguera, Josie E. Rodriguez Condia and Matteo Sonza Reorda
Electronics 2025, 14(5), 1042; https://doi.org/10.3390/electronics14051042 (registering DOI) - 6 Mar 2025
Abstract
Neural networks (NNs) are essential in advancing modern safety-critical systems. Lightweight NN architectures are deployed on resource-constrained devices using hardware accelerators like Graphics Processing Units (GPUs) for fast responses. However, the latest semiconductor technologies may be affected by physical faults that can jeopardize [...] Read more.
Neural networks (NNs) are essential in advancing modern safety-critical systems. Lightweight NN architectures are deployed on resource-constrained devices using hardware accelerators like Graphics Processing Units (GPUs) for fast responses. However, the latest semiconductor technologies may be affected by physical faults that can jeopardize the NN computations, making fault mitigation crucial for safety-critical domains. The recent studies propose software-based Hardening Techniques (HTs) to address these faults. However, the proposed fault countermeasures are evaluated through different hardware-agnostic error models neglecting the effort required for their implementation and different test benches. Comparing application-level HTs across different studies is challenging, leaving it unclear (i) their effectiveness against hardware-aware error models on any NN and (ii) which HTs provide the best trade-off between reliability enhancement and implementation cost. In this study, application-level HTs are evaluated homogeneously and independently by performing a study on the feasibility of implementation and a reliability assessment under two hardware-aware error models: (i) weight single bit-flips and (ii) neuron bit error rate. Our results indicate that not all HTs suit every NN architecture, and their effectiveness varies depending on the evaluated error model. Techniques based on the range restriction of activation function consistently outperform others, achieving up to 58.23% greater mitigation effectiveness while keeping the introduced overhead at inference time low while requiring a contained effort in their implementation. Full article
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<p>Basic convolutional block.</p>
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<p>Hierarchical GPU organization [<a href="#B46-electronics-14-01042" class="html-bibr">46</a>].</p>
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<p>Effect of the fault propagation up to the application level.</p>
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<p>Hardening technique evaluation procedure.</p>
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<p>Fault class distribution. In this figure, the HT names are abbreviated as follows: Baseline (BL), Adaptive Clipper (AC), Swap ReLU6 (SR) and median filter (MF).</p>
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<p>Accuracy degradation for HTs in front of errors injected in weights per bit location.</p>
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<p>Accuracy degradation for HTs when injecting errors in multiple FM bit locations.</p>
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20 pages, 2026 KiB  
Article
Design of Periodic Neural Networks for Computational Investigations of Nonlinear Hepatitis C Virus Model Under Boozing
by Abdul Mannan, Jamshaid Ul Rahman, Quaid Iqbal and Rubiqa Zulfiqar
Computation 2025, 13(3), 66; https://doi.org/10.3390/computation13030066 (registering DOI) - 6 Mar 2025
Abstract
The computational investigation of nonlinear mathematical models presents significant challenges due to their complex dynamics. This paper presents a computational study of a nonlinear hepatitis C virus model that accounts for the influence of alcohol consumption on disease progression. We employ periodic neural [...] Read more.
The computational investigation of nonlinear mathematical models presents significant challenges due to their complex dynamics. This paper presents a computational study of a nonlinear hepatitis C virus model that accounts for the influence of alcohol consumption on disease progression. We employ periodic neural networks, optimized using a hybrid genetic algorithm and the interior-point algorithm, to solve a system of six coupled nonlinear differential equations representing hepatitis C virus dynamics. This model has not previously been solved using the proposed technique, marking a novel approach. The proposed method’s performance is evaluated by comparing the numerical solutions with those obtained from traditional numerical methods. Statistical measures such as mean absolute error, root mean square error, and Theil’s inequality coefficient are used to assess the accuracy and reliability of the proposed approach. The weight vector distributions illustrate how the network adapts to capture the complex nonlinear behavior of the disease. A comparative analysis with established numerical methods is provided, where performance metrics are illustrated using a range of graphical tools, including box plots, histograms, and loss curves. The absolute error values, ranging approximately from 106 to 1010, demonstrate the precision, convergence, and robustness of the proposed approach, highlighting its potential applicability to other nonlinear epidemiological models. Full article
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<p>The schematic diagram of the SLHACR model for HCV transmission.</p>
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<p>A graphical representation of the PNNs-GA-IPA approach to solving the nonlinear HCV-SLHACR model.</p>
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<p>The above graphs show the comparison between and absolute errors of the PNNs-GA-IPA results and the RK4 results.</p>
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<p>The bar graphs show the best weights of PNNs-GA-IPA to approximate the nonlinear HCV-SLHACR model.</p>
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<p>Visualizing the convergence of the MAE values through boxplots and histograms to validate nonlinear HCV model performance.</p>
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<p>Visualizing convergence of the MAE values through boxplots and histograms to validate nonlinear HCV model performance.</p>
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<p>Visualizing convergence of the RMSE values through boxplots and histograms to validate nonlinear HCV model performance.</p>
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<p>Visualizing convergence of the RMSE values through boxplots and histograms to validate nonlinear HCV model performance.</p>
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<p>Visualizing convergence of the TIC values through boxplots and histograms to validate the nonlinear HCV model performance.</p>
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<p>Visualizing convergence of the TIC values through boxplots and histograms to validate the nonlinear HCV model performance.</p>
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21 pages, 14388 KiB  
Article
Adaptive Matching of High-Frequency Infrared Sea Surface Images Using a Phase-Consistency Model
by Xiangyu Li, Jie Chen, Jianwei Li, Zhentao Yu and Yaxun Zhang
Sensors 2025, 25(5), 1607; https://doi.org/10.3390/s25051607 (registering DOI) - 6 Mar 2025
Abstract
The sea surface displays dynamic characteristics, such as waves and various formations. As a result, images of the sea surface usually have few stable feature points, with a background that is often complex and variable. Moreover, the sea surface undergoes significant changes due [...] Read more.
The sea surface displays dynamic characteristics, such as waves and various formations. As a result, images of the sea surface usually have few stable feature points, with a background that is often complex and variable. Moreover, the sea surface undergoes significant changes due to variations in wind speed, lighting conditions, weather, and other environmental factors, resulting in considerable discrepancies between images. These variations present challenges for identification using traditional methods. This paper introduces an algorithm based on the phase-consistency model. We utilize image data collected from a specific maritime area with a high-frame-rate surface array infrared camera. By accurately detecting images with identical names, we focus on the subtle texture information of the sea surface and its rotational invariance, enhancing the accuracy and robustness of the matching algorithm. We begin by constructing a nonlinear scale space using a nonlinear diffusion method. Maximum and minimum moments are generated using an odd symmetric Log–Gabor filter within the two-dimensional phase-consistency model. Next, we identify extremum points in the anisotropic weighted moment space. We use the phase-consistency feature values as image gradient features and develop feature descriptors based on the Log–Gabor filter that are insensitive to scale and rotation. Finally, we employ Euclidean distance as the similarity measure for initial matching, align the feature descriptors, and remove false matches using the fast sample consensus (FSC) algorithm. Our findings indicate that the proposed algorithm significantly improves upon traditional feature-matching methods in overall efficacy. Specifically, the average number of matching points for long-wave infrared images is 1147, while for mid-wave infrared images, it increases to 8241. Additionally, the root mean square error (RMSE) fluctuations for both image types remain stable, averaging 1.5. The proposed algorithm also enhances the rotation invariance of image matching, achieving satisfactory results even at significant rotation angles. Full article
(This article belongs to the Section Remote Sensors)
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<p>Workflow of matching algorithm in this paper.</p>
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<p>The anisotropic weighted moment map: (<b>a</b>) Long-wave infrared image; (<b>b</b>) Medium-wave infrared image.</p>
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<p>Feature point detection results of anisotropic weighted moment diagram. (<b>a</b>) long-wave infrared image (<b>b</b>) medium-wave infrared image.</p>
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<p>Feature point detection results of the original image. (<b>a</b>) long-wave infrared image (<b>b</b>) medium-wave infrared image.</p>
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<p>Descriptor generation flowchart.</p>
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<p>Part of remote sensing images.</p>
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<p>Matching results of long-wave infrared images based on five methods. (<b>a</b>) SIFT; (<b>b</b>) SURF; (<b>c</b>) ORB; (<b>d</b>) HAPCG; (<b>e</b>) Textual algorithm.</p>
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<p>Matching results of medium-wave infrared images based on five methods. (<b>a</b>) SIFT; (<b>b</b>) SURF; (<b>c</b>) ORB; (<b>d</b>) HAPCG; (<b>e</b>) Textual algorithm.</p>
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<p>Matching results of long wave based on the textual algorithm.</p>
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<p>Matching results of medium wave based on the textual algorithm.</p>
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<p>Results of several indicators of long wave.</p>
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<p>Results of several indicators of medium wave.</p>
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<p>Matching results under different rotation differences of the textual algorithm. (<b>a</b>) 30 degrees; (<b>b</b>) 60 degrees; (<b>c</b>) 90 degrees; (<b>d</b>) 120 degrees; (<b>e</b>) 150 degrees; (<b>f</b>) 180 degrees; (<b>g</b>) 210 degrees; (<b>h</b>) 240 degrees; (<b>i</b>) 270 degrees; (<b>j</b>) 300 degrees.</p>
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<p>Result of NCM of the rotated image.</p>
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<p>Result of RMSE of the rotated image.</p>
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13 pages, 2648 KiB  
Article
Comparative Study of Deep Transfer Learning Models for Semantic Segmentation of Human Mesenchymal Stem Cell Micrographs
by Maksim Solopov, Elizaveta Chechekhina, Anna Kavelina, Gulnara Akopian, Viktor Turchin, Andrey Popandopulo, Dmitry Filimonov and Roman Ishchenko
Int. J. Mol. Sci. 2025, 26(5), 2338; https://doi.org/10.3390/ijms26052338 (registering DOI) - 6 Mar 2025
Abstract
The aim of this study is to conduct a comparative assessment of the effectiveness of neural network models—U-Net, DeepLabV3+, SegNet and Mask R-CNN—for the semantic segmentation of micrographs of human mesenchymal stem cells (MSCs). A dataset of 320 cell micrographs annotated by cell [...] Read more.
The aim of this study is to conduct a comparative assessment of the effectiveness of neural network models—U-Net, DeepLabV3+, SegNet and Mask R-CNN—for the semantic segmentation of micrographs of human mesenchymal stem cells (MSCs). A dataset of 320 cell micrographs annotated by cell biology experts was created. The models were trained using a transfer learning method based on ImageNet pre-trained weights. As a result, the U-Net model demonstrated the best segmentation accuracy according to the metrics of the Dice coefficient (0.876) and the Jaccard index (0.781). The DeepLabV3+ and Mask R-CNN models also showed high performance, although slightly lower than U-Net, while SegNet exhibited the least accurate results. The obtained data indicate that the U-Net model is the most suitable for automating the segmentation of MSC micrographs and can be recommended for use in biomedical laboratories to streamline the routine analysis of cell cultures. Full article
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<p>Training graphs of neural network models for segmenting micrographs of mesenchymal stem cells (MSCs). Dynamics of changes in pixel accuracy (PA) and loss function for the investigated models on training and validation samples of micrographs during training: (<b>a</b>) U-Net, (<b>b</b>) DeepLabV3+, (<b>c</b>) SegNet, and (<b>d</b>) Mask R-CNN.</p>
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<p>Optimal prediction thresholds for U-Net, DeepLabV3+, SegNet, and Mask R-CNN segmentation models (from top to bottom) according to the Dice coefficient (DC), Jaccard index (JI) and PA metrics (from left to right). The optimal thresholds are defined as the maximum values of the functional dependencies of the metric on the threshold value. To plot the dependencies, the average value of each metric was calculated over 64 images from the validation sample at a given value of the varying threshold. The graphs show the mean values (blue line) with standard deviations (highlighted in gray).</p>
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<p>Comparison of the performance of segmentation models based on DC (<b>a</b>), JI (<b>b</b>), and PA (<b>c</b>) metrics. The charts show the distribution of metric values for each model. * <span class="html-italic">p</span> &lt; 0.05; ** <span class="html-italic">p</span> &lt; 0.01; **** <span class="html-italic">p</span> &lt; 0.0001; ns—differences are not significant.</p>
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<p>Examples of segmentation of MSC micrographs by neural network models: original images, ground truth masks, and masks predicted by U-Net, DeepLabV3+, SegNet, and Mask R-CNN models. The micrographs were captured at a magnification of 40×.</p>
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10 pages, 199 KiB  
Article
Neonatal Red Blood Cell Transfusion Practices: A Multi-National Survey Study
by Hassan Al-shehri, Ghaida Ahmad Alghamdi, Ghaida Bander Alshabanat, Bayan Hussain Hazazi, Ghadah Saad Algoraini, Raghad Abdulaziz Alarfaj, Aroob M. Alromih, Najd Mabrouk Anad Alanazi, Raghad Mabrouk Anad Alanazi and Abdullah Alzayed
Healthcare 2025, 13(5), 568; https://doi.org/10.3390/healthcare13050568 (registering DOI) - 6 Mar 2025
Abstract
Background: Blood transfusion is a highly critical life-saving factor in neonates, especially in extremely low birth weight infants. There is a significant lack of consensus on optimal blood transfusion methods for neonates. Aim: To investigate and analyze blood transfusion practice in neonates among [...] Read more.
Background: Blood transfusion is a highly critical life-saving factor in neonates, especially in extremely low birth weight infants. There is a significant lack of consensus on optimal blood transfusion methods for neonates. Aim: To investigate and analyze blood transfusion practice in neonates among neonatologists and neonatal nurses in a multi-country pattern. Methods: From September 2023 to June 2024, a cross-sectional questionnaire-based study was conducted to collect data on global blood transfusion practices in neonates. A questionnaire, developed through an extensive literature review, was distributed to neonatologists and neonatal nurses primarily via e-mail, with additional distribution via social media platforms. Results: This study included a total of 180 neonatologists and neonatal nurses from 27 different countries. Almost 37.7% were working in a level 3 NICU. Approximately 37.7% of the participants stated that they transfuse blood within three hours, and approximately 45.5% stated they usually use 15 mL/kg of blood. After receiving a transfusion, 99.4% of the participants mentioned that they continue to check the vital signs. More than half (72.2%) of NICU practitioners use filters when giving blood. Regarding written instructions and guidelines in the unit for blood transfusion, the majority (84.4%) stated having them in their units, of which, 86.8% mentioned that blood transfusion threshold stated in the guidelines either using hemoglobin or hematocrit. Conclusions: This study found variability in blood transfusion practices around the world. While most have developed neonatal blood transfusion guidelines, certain countries still lack national protocols. Establishing comprehensive guidelines is essential to standardizing procedures, thereby minimizing the risk of inappropriate or unsafe blood transfusions in this neonatology practice. Full article
18 pages, 7858 KiB  
Article
Transcriptome Analysis of Onobrychis viciifolia During Seed Germination Reveals GA3-Inducible Genes Associated with Phenylpropanoid and Hormone Pathways
by Yanyan Luo, Kun Wang, Jiao Cheng and Lili Nan
Int. J. Mol. Sci. 2025, 26(5), 2335; https://doi.org/10.3390/ijms26052335 (registering DOI) - 6 Mar 2025
Abstract
Sainfoin (Onobrychis viciifolia) is a type of leguminous plant with high feeding value. It contains a high concentration of tannins at all growth stages, which can precipitate soluble proteins and form a large number of persistent foams in the rumen, so [...] Read more.
Sainfoin (Onobrychis viciifolia) is a type of leguminous plant with high feeding value. It contains a high concentration of tannins at all growth stages, which can precipitate soluble proteins and form a large number of persistent foams in the rumen, so that ruminant livestock will not develop dilatation disease during green feeding and grazing. The germination rate of O. viciifolia seeds is very low under natural conditions. The preliminary experiment showed that 600 mg/L GA3 treatment significantly improved the germination rate and seed vitality of sainfoin seeds. In comparison to CK, GA3 significantly decreased the relative content of endogenous inhibitors, with the most notable reduction observed in 4-nitroso-N-phenyl-benzenamine. Therefore, we selected the dry seed stage (GZ), imbibition stage (XZ), split stage (LK), and radicle emergence stage (MF) of four different germination stages treated with GA3 for transcriptome analysis. RNA-seq identified 1392, 2534 and 4284 differentially expressed genes (DEGs) in GZ vs. XZ, XZ vs. LK, and LK vs. MF, respectively. During seed germination, DEGs are mainly enriched in hormone signaling and phenylalanine biosynthesis pathways, and up-down-regulation of these DEGs may alter hormone and secondary metabolite levels to promote germination. The results of weighted gene co-expression network construction (WGCNA) also indicate that plant hormone signal transduction and phenylpropanoid biosynthesis play a dominant role in GA3-induced seed germination. In conclusion, the combined analysis of transcriptomic and physiological indicators provided new insights into seed germination and a theoretical basis for further study of candidate genes. Full article
(This article belongs to the Special Issue Advance in Plant Abiotic Stress: 2nd Edition)
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<p>Effects of GA<sub>3</sub> on the germination rate and seed vigor of sainfoin seeds. (<b>A</b>) Effect of GA<sub>3</sub> treatment on the seed germination phenotype of sainfoin; (<b>B</b>) Effect of GA<sub>3</sub> treatment on seed germination rate; (<b>C</b>,<b>E</b>) Effect of GA<sub>3</sub> treatment on plumule and radicle lengths; (<b>D</b>,<b>F</b>) Effect of GA<sub>3</sub> treatment on seed viability. Error bars represent the standard deviation (SD) of six replicates. Bars with different lowercase letters were significantly different according to Duncan’s multiple range test (<span class="html-italic">p</span> &lt; 0.05). “*” represents a highly significant difference according to the <span class="html-italic">t</span>-test.</p>
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<p>Effects of GA<sub>3</sub> on endogenous inhibitors in sainfoin seeds.</p>
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<p>Statistical analysis of differentially expressed genes during germination of sainfoin seeds under GA<sub>3</sub> treatment. (<b>A</b>) Number of total genes, up- and down-regulated DEGs in different comparison groups; (<b>B</b>) Venn diagram showing co-expressed genes of the three comparison groups; (<b>C</b>) Venn diagram of up-regulated genes; (<b>D</b>) Venn diagram of down-regulated genes. DEGs, differentially expressed genes; up, up-regulated DEGs; down, down-regulated DEGs.</p>
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<p>GO and KEGG enrichment analysis of DEGs during germination. (<b>A</b>) GO analysis of DEGs in GA<sub>3</sub>-treated sainfoin seeds during the germination process; (<b>B</b>) KEGG analysis of DEGs in GA<sub>3</sub>-treated sainfoin seeds during germination process.</p>
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<p>Analysis of hormone signal transduction pathways and endogenous hormone concentrations involved in the germination of sainfoin seeds. (<b>A</b>) Expression profile of DEGs associated with the ZA pathway; (<b>B</b>) Expression profile of DEGs associated with GA pathway; (<b>C</b>) Expression profile of DEGs associated with ABA pathway; (<b>D</b>) Expression profile of DEGs associated with IAA pathway; (<b>E</b>) Comparison of ZT, IAA, GA<sub>3</sub>, and ABA concentrations in sainfoin seeds under GA<sub>3</sub> treatment. Sample names are shown at the bottom of the figure. Expression levels, ranging from blue to red, indicate high to low expression of genes. Different lowercase letters indicate significant differences between GA<sub>3</sub>-treated seeds at different germination stages according to Duncan’s multiple range test (<span class="html-italic">p</span> &lt; 0.05). The error bar represents three repeated standard deviations (SD).</p>
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<p>Analysis of phenylalanine biosynthesis pathways involved in the germination of sainfoin seeds. Sample names are shown at the bottom of the figure. Expression levels, ranging from blue to red, indicate high to low expression of genes. All data shown indicate the average mean of three biological replicates (<span class="html-italic">n</span> = 3).</p>
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<p>WGCNA of genes during GA<sub>3</sub>-treated sainfoin seed germination. (<b>A</b>) Cluster dendrograms showing the co-expression modules identified by WGCNA. Each leaf in the tree represents a gene. Branches correspond to highly interconnected gene modules. The color rows below the dendrograms represent the division of modules based on clustering results and the 14 merged modules based on hierarchical clustering; (<b>B</b>) Module-sample relationship based on the Pearson correlation coefficient. Each row corresponds to a module and is represented by a different color. Each column corresponds to samples from different stages of seed germination.</p>
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<p>qRT-PCR validation of nine candidate DEGs. The error bar represents three repeated standard deviations (SD).</p>
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<p>Regulation model of exogenous GA<sub>3</sub> treatment promoting sainfoin seed germination.</p>
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11 pages, 2777 KiB  
Article
A Simple Solution for the Inverse Distance Weighting Interpolation (IDW) Clustering Problem
by Nir Benmoshe
Sci 2025, 7(1), 30; https://doi.org/10.3390/sci7010030 (registering DOI) - 6 Mar 2025
Abstract
Inverse Distance Weighting (IDW) is a common method for spatial interpolation. Still, its accuracy decreases when there is a cluster of measurement stations or when some measuring stations are hidden behind others. This paper introduces Clusters Unifying Through Hiding Interpolation (CUTHI), a simple [...] Read more.
Inverse Distance Weighting (IDW) is a common method for spatial interpolation. Still, its accuracy decreases when there is a cluster of measurement stations or when some measuring stations are hidden behind others. This paper introduces Clusters Unifying Through Hiding Interpolation (CUTHI), a simple approach to enhance IDW accuracy. CUTHI calculates a weight for each station that considers its visibility from the interpolation point, reducing the influence of clustered or hidden stations. The method is tested in three cases: elevation data, rainfall measurements, and a mathematical function. Results demonstrate that CUTHI consistently outperforms traditional IDW, especially in areas with clustered measurement stations. CUTHI also treats the bull’s eye problem. This improved accuracy makes CUTHI a valuable tool for various applications requiring precise spatial interpolation. Full article
(This article belongs to the Section Environmental and Earth Science)
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<p>An interpolated point in blue between one red measurement point on the right that has the value of 8 and a few red measurement points on the left that all have a value of 2.</p>
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<p>The blue interpolated point is much farther than the distance between the red measurement’s points.</p>
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<p>Angle α when calculating the CUTHI weight is at the hiding red station (H) between the blue interpolated point (I) and the red measurement station (M).</p>
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<p>The value of s that gives the minimal error as a function of measuring points for the rain gauges test case (red), the elevation map (blue), and the mathematical function (green).</p>
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<p>The accuracy (R<sup>2</sup>) of IDW and CUTHI as a function of stations for the rain gauges test case (<b>upper</b> panel), elevation test case (<b>middle</b> panel), and function test case (<b>lower</b> panel).</p>
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<p>The same as <a href="#sci-07-00030-f005" class="html-fig">Figure 5</a> but for RMSD.</p>
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<p>The correlation between the observation data and the interpolation data for IDW (red) and CUTHI (yellow) for the rain gauges test case (<b>upper</b> panel), elevation test case (<b>middle</b> panel), and function test case (<b>lower</b> panel). The blue line represents a perfect match.</p>
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<p>Interpolation maps of the rain gauges test case using IDW (<b>right</b> panel) and CUTHI (<b>left</b> panel).</p>
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16 pages, 4400 KiB  
Article
White Matter Microstructural Alterations in Type 2 Diabetes: A Combined UK Biobank Study of Diffusion Tensor Imaging and Neurite Orientation Dispersion and Density Imaging
by Abdulmajeed Alotaibi, Mostafa Alqarras, Anna Podlasek, Abdullah Almanaa, Amjad AlTokhis, Ali Aldhebaib, Bader Aldebasi, Malak Almutairi, Chris R. Tench, Mansour Almanaa, Ali-Reza Mohammadi-Nejad, Cris S. Constantinescu, Rob A. Dineen and Sieun Lee
Medicina 2025, 61(3), 455; https://doi.org/10.3390/medicina61030455 (registering DOI) - 6 Mar 2025
Abstract
Background and objectives: Type 2 diabetes mellitus (T2DM) affects brain white matter microstructure. While diffusion tensor imaging (DTI) has been used to study white matter abnormalities in T2DM, it lacks specificity for complex white matter tracts. Neurite orientation dispersion and density imaging (NODDI) [...] Read more.
Background and objectives: Type 2 diabetes mellitus (T2DM) affects brain white matter microstructure. While diffusion tensor imaging (DTI) has been used to study white matter abnormalities in T2DM, it lacks specificity for complex white matter tracts. Neurite orientation dispersion and density imaging (NODDI) offers a more specific approach to characterising white matter microstructures. This study aims to explore white matter alterations in T2DM using both DTI and NODDI and assess their association with disease duration and glycaemic control, as indicated by HbA1c levels. Methods and Materials: We analysed white matter microstructure in 48 tracts using data from the UK Biobank, involving 1023 T2DM participants (39% women, mean age 66) and 30,744 non-T2DM controls (53% women, mean age 64). Participants underwent 3.0T multiparametric brain imaging, including T1-weighted and diffusion imaging for DTI and NODDI. We performed region-of-interest analyses on fractional anisotropy (FA), mean diffusivity (MD), axial diffusivity (AD), radial diffusivity (RD), orientation dispersion index (ODI), intracellular volume fraction (ICVF), and isotropic water fraction (IsoVF) to assess white matter abnormalities. Results: We observed reduced FA and ICVF, and increased MD, AD, RD, ODI, and IsoVF in T2DM participants compared to controls (p < 0.05). These changes were associated with longer disease duration and higher HbA1c levels (0 < r ≤ 0.2, p < 0.05). NODDI identified microstructural changes in white matter that were proxies for reduced neurite density and disrupted fibre orientation, correlating with disease progression and poor glucose control. In conclusion, NODDI contributed to DTI in capturing white matter differences in participants with type 2 diabetes, suggesting the feasibility of NODDI in detecting white matter alterations in type 2 diabetes. Type 2 diabetes can cause white matter microstructural abnormalities that have associations with glucose control. Conclusions: The NODDI diffusion model allows the characterisation of white matter neuroaxonal pathology in type 2 diabetes, giving biophysical information for understanding the impact of type 2 diabetes on brain microstructure. Future research should focus on the longitudinal tracking of these microstructural changes to better understand their potential as early biomarkers for cognitive decline in T2DM. Full article
(This article belongs to the Section Neurology)
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<p>Flowchart of the included study sample based on the study inclusion/exclusion criteria.</p>
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<p>(<b>A</b>) Violin plots for the fornix as a selected white matter tract (from the de-confounded dataset) with a larger effect size to visualise the intergroup DTI and NODDI-based white matter alterations in patients with T2DM (<span class="html-italic">p</span> &lt; 0.05, false discovery rate adjustment). (<b>B</b>) Global alterations with the effect sizes of each measure in each tract over the whole brain. Genu of corpus callosum (GCC), fornix, cingulate of gyrus, superior longitudinal fasciculus (SLF), anterior corona radiata (ACR), anterior limb of the internal capsule (ALIC), posterior limb of the internal capsule (PLIC), posterior thalamic radiation (PTR), tapetum, splenium of corpus callosum (SCC), external capsule (EC), and retro-lenticular part of the internal capsule (RPIC).</p>
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<p>The right tapetum is a selected white matter tract from the de-confounded dataset to visualise the association between the white matter change detected by DTI/NODDI and the metabolic profile. (<b>A</b>) Association between white matter alterations in the right tapetum and disease duration; (<b>B</b>) Association between white matter alterations in the right tapetum and HbA1c.</p>
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<p>The right tapetum is a selected white matter tract from the de-confounded dataset to visualise the association between the white matter change detected by DTI/NODDI and the metabolic profile. (<b>A</b>) Association between white matter alterations in the right tapetum and disease duration; (<b>B</b>) Association between white matter alterations in the right tapetum and HbA1c.</p>
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<p>Correlations between disease duration and HbA1c with major white matter tracts in participants with T2DM. White matter structures were selected only for visualisation purposes. (<b>A</b>) White matter tracts included. (<b>B</b>) Altered ICVF and disease duration/HbA1c. (<b>C</b>) Altered ODI and disease duration/HbA1c. (<b>D</b>) Altered IsoVF and disease duration/HbA1c. Red: positive correlation; blue: negative correlation. These illustrated correlations are based on a brain model derived from a white matter atlas.</p>
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25 pages, 11548 KiB  
Article
The Effects of Sika Deer Antler Peptides on 3T3-L1 Preadipocytes and C57BL/6 Mice via Activating AMPK Signaling and Gut Microbiota
by Tong Sun, Zezhuang Hao, Fanying Meng, Xue Li, Yihua Wang, Haowen Zhu, Yong Li and Yuling Ding
Molecules 2025, 30(5), 1173; https://doi.org/10.3390/molecules30051173 (registering DOI) - 6 Mar 2025
Abstract
(1) Background: To explore the anti-obesity effects and mechanisms of sika deer velvet antler peptides (sVAP) on 3T3-L1 preadipocytes and in high-fat diet (HFD)-induced obese mice. (2) Methods: sVAP fractions of different molecular weights were obtained via enzymatic hydrolysis and ultrafiltration. Their anti-lipid [...] Read more.
(1) Background: To explore the anti-obesity effects and mechanisms of sika deer velvet antler peptides (sVAP) on 3T3-L1 preadipocytes and in high-fat diet (HFD)-induced obese mice. (2) Methods: sVAP fractions of different molecular weights were obtained via enzymatic hydrolysis and ultrafiltration. Their anti-lipid effects on 3T3-L1 cells were assessed with Oil Red O staining. The optimal fraction was tested in HFD-induced obese C57BL/6 mice to explore anti-obesity mechanisms. Peptide purification used LC-MS/MS, followed by sequence analysis and molecular docking for activity prediction. (3) Results: The peptide with the best anti-obesity activity was identified as sVAP-3K (≤3 kDa). sVAP-3K reduced lipid content and proliferation in 3T3-L1 cells, improved lipid profiles and ameliorated adipocyte degeneration in HFD mice, promoted the growth of beneficial gut microbiota, and maintained lipid metabolism. Additionally, sVAP-3K activated the AMP-activated protein kinase (AMPK) signaling pathway, regulating adipogenic transcription factors. sVAP-3K exhibited ten major components (peak area ≥ 1.03 × 108), with four of the most active components being newly discovered natural oligopeptides: RVDPVNFKL (m/z 363.21371), GGEFTPVLQ (m/z 474.24643), VDPENFRL (m/z 495.25735), and VDPVNFK (m/z 818.44043). (4) Conclusion: This study identifies four novel oligopeptides in sVAP-3K as key components for anti-obesity effects, offering new evidence for developing natural weight-loss drugs from sika deer velvet. Full article
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<p>Screening the optimal deer antler hydrolysate using 3T3-L1 preadipocytes. (<b>A</b>) Cytotoxicity assay of different hydrolysate at 50 μg/mL. (<b>B</b>) Quantification of the lipid accumulation in 50 μg/mL sVAP-treated and non-treated (control) adipocytes after Oil Red O elution. (<b>C</b>) Intracellular lipid accumulation in 3T3-L1 adipocytes after completion of the differentiation process (50 μm = 20×). Microscopic images of adipocytes stained with Oil Red O. Compared to the CON group: * <span class="html-italic">p</span> &lt; 0.05, ** <span class="html-italic">p</span> &lt; 0.01, *** <span class="html-italic">p</span> &lt; 0.001, and **** <span class="html-italic">p</span> &lt; 0.0001. Pep.—pepsin; Try.—trypsin; Chy.—chymotrypsin; Mul.—multi-enzyme; Dis.—dispase; Alc.—alcalase; Pro.—protamex.</p>
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<p>Cytotoxicity assay of sVAP with different molecular weights on 3T3-L1 cells.</p>
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<p>(<b>A</b>) Fix cells and stain with ORO (50 μm). (<b>B</b>) Dissolve the stained lipid droplets in isopropanol and quantify intracellular Lip–acc. Compared to the CON group: ** <span class="html-italic">p</span> &lt; 0.01, and *** <span class="html-italic">p</span> &lt; 0.001.</p>
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<p>The effect of oral administration of sVAP-3K on HFD-induced weight gain and dietary intake in C57BL/6 mice. Administer sVAP (150 or 300 mg/kg) to HFD-induced C57BL/6 mice five times a week for 11 weeks. (<b>A</b>) Display of representative mice from each group at the end of week 11. (<b>B</b>) Image confirming the body adipose using CT method. (<b>C</b>) Mouse abdominal circumference data. (<b>D</b>) Mouse body length data. (<b>E</b>) The weight of mice was measured every week. (<b>F</b>) The average weekly food intake of each group. (<b>G</b>,<b>H</b>) Measurements of abdominal fat and liver weight. Compared to the CON group: ** <span class="html-italic">p</span> &lt; 0.01, *** <span class="html-italic">p</span> &lt; 0.001, and **** <span class="html-italic">p</span> &lt; 0.0001. Compared to the HFD group: # <span class="html-italic">p</span> &lt; 0.05 and #### <span class="html-italic">p</span> &lt; 0.0001.</p>
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<p>The blood glucose levels and (<b>A</b>) offline curve area AUC of (<b>B</b>) different groups of C57BL/6 mice at 0, 15, 30, 60, and 120 min after ingestion of 20% glucose. Compared to the CON group: **** <span class="html-italic">p</span> &lt; 0.0001. Compared to the HFD group: ## <span class="html-italic">p</span> &lt; 0.01 and ### <span class="html-italic">p</span> &lt; 0.001.</p>
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<p>(<b>A</b>) High-density lipoprotein cholesterol content. (<b>B</b>) Low-density lipoprotein cholesterol. (<b>C</b>) Total cholesterol content. (<b>D</b>) Triglyceride levels. (<b>E</b>) Aspartate transaminase. (<b>F</b>) Alanine transaminase. Compared to the CON group: *** <span class="html-italic">p</span> &lt; 0.001 and **** <span class="html-italic">p</span> &lt; 0.0001. Compared to the HFD group: # <span class="html-italic">p</span> &lt; 0.05, ## <span class="html-italic">p</span> &lt; 0.01, ### <span class="html-italic">p</span> &lt; 0.001, and #### <span class="html-italic">p</span> &lt; 0.0001.</p>
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<p>(<b>A</b>) The effect of oral sVAP−3K on protein expression in liver tissue of HFD mice. (<b>B</b>) The effect of oral sVAP−3K on protein expression in abdominal fat tissue of HFD mice. P−AMPK and lipogenesis-related proteins were evaluated by Western blotting using specific protein antibodies. GADPH protein is used as an internal control. Compared to the CON group: **** <span class="html-italic">p</span> &lt; 0.0001. Compared to the HFD group: ## <span class="html-italic">p</span> &lt; 0.01, ### <span class="html-italic">p</span> &lt; 0.001, and #### <span class="html-italic">p</span> &lt; 0.0001.</p>
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<p>Pathological sections of C57BL/6 mouse liver and adipose tissue. (<b>A</b>) HE staining results of mice liver tissue. (<b>B</b>) ORO staining results of mice liver tissue. (<b>C</b>) HE staining results of abdominal fat tissue in mice. (<b>D</b>) The results of abdominal fat ORO staining in mice. (<b>E</b>,<b>F</b>) The effects of sVAP-3K on adipocytes in the liver and abdominal fat tissue of mice. (<b>E</b>) Liver ORO value. (<b>F</b>) Fat ORO value. (<b>G</b>) The number of adipocytes in each group per equal area. Compared to the CON group: **** <span class="html-italic">p</span> &lt; 0.0001. Compared to the HFD group: ### <span class="html-italic">p</span> &lt; 0.001, and #### <span class="html-italic">p</span> &lt; 0.0001. a/b/c/d1—CON group; a/b/c/d2—HFD group; a/b/c/d3—HFD-P group; a/b/c/d4—HFD-L group; a/b/c/d5—HFD-H group.</p>
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<p>Analysis of gut flora diversity of sVAP−3K on HFD mice. (<b>A</b>) Dilution curve. (<b>B</b>) Chao index. (<b>C</b>) Ace index. (<b>D</b>) Sobs index. (<b>E</b>) Shannon index. (<b>F</b>) Simpson index. (<b>G</b>) PCA diagram. (<b>H</b>) PCoA diagram. (<b>I</b>) PC1 diagram. Compared to the CON group: * <span class="html-italic">p</span> &lt; 0.05, ** <span class="html-italic">p</span> &lt; 0.01.</p>
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<p>Analysis of community composition in each group. (<b>A</b>) Venn diagram. (<b>B</b>) Circos diagram. (<b>C</b>) Distribution at the level of the phylum. (<b>D</b>) The ratio of F/B in each group. (<b>E</b>) Distribution at the level of the genus. (<b>F</b>) Community heatmap analysis on genus level. Compared to the CON group: **** <span class="html-italic">p</span> &lt; 0.0001. Compared to the HFD group: #### <span class="html-italic">p</span> &lt; 0.0001.</p>
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<p>LEfSe analysis: (<b>A</b>) LDA score plot and (<b>B</b>) LEfSe clade evolutionary diagram.</p>
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<p>sVAP-3K component total ion chromatogram.</p>
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<p>sVAP −3K secondary mass spectrometry image. (<b>A</b>) RVDPVNFKL; (<b>B</b>) GGEFTPVLQ; (<b>C</b>) VDPENFRL; (<b>D</b>) VDPVNFK.</p>
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<p>Docking results with 8K8C molecules. (<b>A</b>) RVDPVNFKL; (<b>B</b>) GGEFTPVLQ; (<b>C</b>) VDPENFRL; (<b>D</b>) VDPVNFK.</p>
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<p>Docking results with 3LMF molecules. (<b>A</b>) RVDPVNFKL; (<b>B</b>) GGEFTPVLQ; (<b>C</b>) VDPENFRL; (<b>D</b>) VDPVNFK.</p>
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29 pages, 9800 KiB  
Article
3D-CWC: A Method to Evaluate the Geological Suitability for Layered Development and Utilization of Urban Underground Space
by Jiamin Mo, Ling Zhu, Wei Liu, Ping Wen, Zhiqiang Xie, Rong Li, Chunhou Ji, Wei Cheng, Yangbin Zhang, Chaoya Chen, Qijia Yang and Junxiao Wang
Land 2025, 14(3), 551; https://doi.org/10.3390/land14030551 (registering DOI) - 5 Mar 2025
Abstract
Assessing the geological suitability of urban underground space development is crucial for mitigating geological risks. Traditional 2D evaluation methods fail to capture complex vertical variations in underground space, hindering precise planning. This paper presents an innovative 3D-CWC framework, combining a weighted cloud model [...] Read more.
Assessing the geological suitability of urban underground space development is crucial for mitigating geological risks. Traditional 2D evaluation methods fail to capture complex vertical variations in underground space, hindering precise planning. This paper presents an innovative 3D-CWC framework, combining a weighted cloud model with three-dimensional geological modeling, to address vertical complexity and uncertainty in geological assessments. The study area, located in the northern part of Kunming’s Second Ring Road, is divided into 22 million 25 m × 25 m × 1 m 3D units for evaluation. The framework uses the improved AHP and CRITIC methods to assign weights to key geological indicators, addressing both subjective and objective uncertainty, and employs a cloud model to determine geological suitability levels. The results are visualized using 3D geological modeling. The key findings include the following: (1) approximately 71% of the area within a −50 m depth range is suitable or more suitable for underground space development; (2) active fractures and groundwater are the main unfavorable factors; and (3) the geological suitability varies significantly with depth, with shallow areas being less suitable due to soft soil and complex hydrogeological conditions. The framework is further applied to assess the geological suitability of Kunming Metro Line 10, providing valuable decision support for infrastructure development. Compared to existing methods, this framework integrates cloud modeling and 3D geological modeling, offering a more comprehensive approach to handling underground space complexity. It is adaptable and holds potential for global applications, supporting urban underground space development in diverse geological conditions. Full article
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<p>Study area’s geographic location in the northern section of the Second Ring Road, central Kunming, Yunnan Province. Subfigure (<b>a</b>) represents China. Subfigure (<b>b</b>) represents Yunnan Province. Subfigure (<b>c</b>) represents Kunming City. (Source: Sky Map).</p>
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<p>Flowchart of geological suitability assessment for underground space using the 3D-CWC evaluation model.</p>
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<p>Evaluation indicator system constructed in this paper.</p>
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<p>Illustration of standard cloud model.</p>
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<p>Cloud model process flow diagram.</p>
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<p>Performance comparison of weighting methods, including weight distribution (<b>a</b>), error analysis (<b>b</b>), stability evaluation (<b>c</b>), and Pearson correlation assessment (<b>d</b>).</p>
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<p>Cloud model diagram for secondary evaluation indicators.</p>
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<p>Lithologic model of the study area.</p>
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<p>3D-CWC thematic maps of evaluation indicators, (<b>a</b>) geomorphic units; (<b>b</b>) foundation bearing capacity; (<b>c</b>) bedrock depth; (<b>d</b>) groundwater depth; (<b>e</b>) groundwater corrosivity; and (<b>f</b>) geotechnical peculiarities.</p>
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<p>Comprehensive cloud map for suitability assessment.</p>
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<p>Zoning map of suitability evaluation in the study area.</p>
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<p>Zoning map of evaluation at various depths in the study area: (<b>a</b>) Shallow layer (0~−10 m) zoning map; (<b>b</b>) Sub shallow layer (−10~−30 m) zoning map; (<b>c</b>) Deep layer (−30~−50 m) zoning map; (<b>d</b>) Depth = −5 m zoning map; (<b>e</b>) Depth = −10 m zoning map; (<b>f</b>) Depth = −30 m zoning map; (<b>g</b>) Depth = −15 m zoning map; (<b>h</b>) Depth = −40 m zoning map; (<b>i</b>) Depth = −50 m zoning map.</p>
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<p>Attribute query for evaluation indicators of any block in the 3D suitability evaluation map of the study area.</p>
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<p>Geological suitability classes at different depths.</p>
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<p>Geological suitability evaluation results for the underground space along the Line 10 section within the study area.</p>
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<p>The impact of selected indicators on underground space geological suitability evaluation.</p>
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<p>Variance distribution of evaluation units with different sizes.</p>
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38 pages, 5006 KiB  
Article
Changes in the Proteomic Profile After Audiogenic Kindling in the Inferior Colliculus of the GASH/Sal Model of Epilepsy
by Laura Zeballos, Carlos García-Peral, Martín M. Ledesma, Jerónimo Auzmendi, Alberto Lazarowski and Dolores E. López
Int. J. Mol. Sci. 2025, 26(5), 2331; https://doi.org/10.3390/ijms26052331 (registering DOI) - 5 Mar 2025
Abstract
Epilepsy is a multifaceted neurological disorder characterized by recurrent seizures and associated with molecular and immune alterations in key brain regions. The GASH/Sal (Genetic Audiogenic Seizure Hamster, Salamanca), a genetic model for audiogenic epilepsy, provides a powerful tool to study seizure mechanisms and [...] Read more.
Epilepsy is a multifaceted neurological disorder characterized by recurrent seizures and associated with molecular and immune alterations in key brain regions. The GASH/Sal (Genetic Audiogenic Seizure Hamster, Salamanca), a genetic model for audiogenic epilepsy, provides a powerful tool to study seizure mechanisms and resistance in predisposed individuals. This study investigates the proteomic and immune responses triggered by audiogenic kindling in the inferior colliculus, comparing non-responder animals exhibiting reduced seizure severity following repeated stimulation versus GASH/Sal naïve hamsters. To assess auditory pathway functionality, Auditory Brainstem Responses (ABRs) were recorded, revealing reduced neuronal activity in the auditory nerve of non-responders, while central auditory processing remained unaffected. Cytokine profiling demonstrated increased levels of proinflammatory markers, including IL-1 alpha (Interleukin-1 alpha), IL-10 (Interleukin-10), and TGF-beta (Transforming Growth Factor beta), alongside decreased IGF-1 (Insulin-like Growth Factor 1) levels, highlighting systemic inflammation and its interplay with neuroprotection. Building on these findings, a proteomic analysis identified 159 differentially expressed proteins (DEPs). Additionally, bioinformatic approaches, including Gene Set Enrichment Analysis (GSEA) and Weighted Gene Co-expression Network Analysis (WGCNA), revealed disrupted pathways related to metabolic and inflammatory epileptic processes and a module potentially linked to a rise in the threshold of seizures, respectively. Differentially expressed genes, identified through bioinformatic and statistical analyses, were validated by RT-qPCR. This confirmed the upregulation of six genes (Gpc1—Glypican-1; Sdc3—Syndecan-3; Vgf—Nerve Growth Factor Inducible; Cpne5—Copine 5; Agap2—Arf-GAP with GTPase domain, ANK repeat, and PH domain-containing protein 2; and Dpp8—Dipeptidyl Peptidase 8) and the downregulation of two (Ralb—RAS-like proto-oncogene B—and S100b—S100 calcium-binding protein B), aligning with reduced seizure severity. This study may uncover key proteomic and immune mechanisms underlying seizure susceptibility, providing possible novel therapeutic targets for refractory epilepsy. Full article
(This article belongs to the Special Issue Neuroproteomics: Focus on Nervous System Function and Disease)
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<p>Progression of audiogenic seizure severity of GASH/Sal hamsters submitted to the sAUK protocol.</p>
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<p>Severity index progression of the two groups, responder and non-responder hamsters, during the fifteen-day protocol. From the 15th stimulation, differences in the mean severity index between the two groups were detected (<span class="html-italic">p</span> &lt; 0.05) except for the 17th and 38th stimulus, at which no differences were detected (non-significant, n.s). Each point represents the mean ± SEM (error bars) of the severity index.</p>
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<p>Threshold analysis for stimulated hamsters. Before the start and the last day of the protocol, GASH/Sal hamsters were submitted to ABRs. No significant differences were detected for the mean threshold between t0 and final time, neither for left (<span class="html-italic">p</span> = 0.07) nor right (<span class="html-italic">p</span> = 0.122) ear with the Mann–Whitney test (<span class="html-italic">n</span> = 7). Graphs display the mean with SEM error bars.</p>
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<p>Representation of the average of the ABR waves for ascending intensities (60 to 90 dB). ABR waveforms obtained after click stimulation from the animals analyzed before (<b>left side</b>) and after the audiogenic kindling (<b>right side</b>). Plot shows ABR amplitudes in microvolts (mV) for each waveform response (I, II, III, IV, and V) measured at 90 dB SPL. Wave I corresponds to the response of the auditory nerve, wave II to the cochlear nuclei, wave III is associated with the superior olivary complex, wave IV corresponds to the lateral lemniscus and inferior colliculus, and finally, wave V refers to the response of the medial geniculate body. It is important to note that no significant differences were observed between the initial (t0) and final time points in the left ear (blue) nor in the right ear (red) of the audiogenic kindling.</p>
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<p>Amplitude and latency analysis before and after the sAUK protocol. For both ears at the end of the protocol, the amplitude of wave I was significantly lower than before the protocol (<span class="html-italic">p</span> &lt; 0.05), without significant changes in the amplitude of the rest of the waves. No significant changes were detected for any latencies measured for left and right ears. Each bar in the histograms represents mean ± SEM. * <span class="html-italic">p</span>-value &lt; 0.05.</p>
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<p>Differences in cytokine levels in blood between GASH/Sal naïve hamsters (<span class="html-italic">n</span> = 6) and stimulated non-responder hamsters (<span class="html-italic">n</span> = 4). We detected higher protein levels in almost all the cytokines included in the array except for the Insulin-like Growth Factor 1 (IGF-1). * <span class="html-italic">p</span>-value &lt; 0.05; ** &lt; 0.01; *** &lt; 0.001. Dashed line indicates the normalization level related to the different cytokines in the GASH naïve hamsters. Depending on the normality of the samples, unpaired <span class="html-italic">t</span>-test or Mann–Whitney test was used. Each bar in the histograms represents mean ± SEM. Abbreviations: GCSF (Granulocyte Colony-Stimulating Factor), IFN-gamma (Interferon-gamma), IGF-1 (Insulin-like Growth Factor 1), IL-1 alpha (Interleukin-1 alpha), IL-1 beta (Interleukin-1 beta), IL-4 (Interleukin-4), IL-6 (Interleukin-6), IL-10 (Interleukin-10), KC (Keratinocyte Chemoattractant), LIX (LPS-induced CXC Chemokine), MCP-1 (Monocyte Chemoattractant Protein 1), M-CSF (Macrophage Colony-Stimulating Factor), MIP-1 alpha (Macrophage Inflammatory Protein 1 alpha), RAGE (Receptor for Advanced Glycation End-products), SDF-1 (Stromal Cell-Derived Factor 1), TARC (Thymus and Activation-Regulated Chemokine), TGF-beta (Transforming Growth Factor beta), TNF-alpha (Tumor Necrosis Factor alpha), VEGF-A (Vascular Endothelial Growth Factor A).</p>
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<p>Principal component analysis considering all proteins with and without batch effect. The x axis and y axis represent the first and second components, respectively. (<b>A</b>) PCA with batch effect. Animals NR-4, NR-5, NR-6, and NR-7 (green) correspond to experiment 2, while all naïve animals plus NR-21, NR-22, and NR-23 (red) proceeded in experiment 1. (<b>B</b>) PCA without batch effect. A total of 91.6% (11/12) of the animals fall within the same cluster (green).</p>
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<p>Uniform Manifold Approximation and Projection (UMAP) dimension plot. Both plots represent dimensions 2 and 1 of the UMAP algorithm on the y axis and the x axis, respectively. The plot was constructed with all detected proteins.</p>
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<p>Volcano plot of DEPs GASH.sAUK.NR vs. GASH.naïve. The volcano plot represents the y-axis and x-axis −log10 (<span class="html-italic">p</span>-value) and the Cohen effect size, respectively.</p>
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<p>Uniform Manifold Approximation and Projection (UMAP) dimension plot. The plot represents dimensions 2 and 1 of the UMAP algorithm on the y axis and the x axis, respectively. The plot was constructed with all DEPs detected in the univariate analysis.</p>
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<p>Gene expression differences of genes encoding the overexpressed DEPs in the inferior colliculus of GASH.sAUK.NR vs. GASH.naïve. Histogram shows relative quantities of transcripts of <span class="html-italic">Gpc1</span>, <span class="html-italic">Sdc3</span>, <span class="html-italic">Vgf</span>, <span class="html-italic">Cpe</span>, <span class="html-italic">G3bp2</span>, <span class="html-italic">Cpne5</span>, <span class="html-italic">Agap2</span>, <span class="html-italic">Madd</span>, <span class="html-italic">Ikbkg</span>, and <span class="html-italic">Dpp8</span>. The relative mRNA expression of each gene was normalized to <span class="html-italic">β-actin</span>. Each bar in the histograms represents mean ± SEM. Asterisks indicate significant differences between experimental groups (* <span class="html-italic">p</span> &lt; 0.05, ** <span class="html-italic">p</span> &lt; 0.01, *** <span class="html-italic">p</span> &lt; 0.001). Dashed line indicates the normalization level related to the different transcripts in the GASH naïve hamsters. Abbreviations: <span class="html-italic">Agap2</span>: Arf-GAP with GTPase domain, ANK repeat, and PH domain-containing protein 2; <span class="html-italic">Sdc3</span>: Syndecan 3; <span class="html-italic">Cpe</span>: Carboxypeptidase E; <span class="html-italic">Cpne5</span>: Copine 5; <span class="html-italic">Dpp8</span>: Dipeptidyl Peptidase 8; GASH.sAUK.NR: non-responder GASH/Sal submitted to audiogenic kindling; <span class="html-italic">G3bp2</span>: GTPAse Activating Protein (SH3 Domain) Binding Protein 2; <span class="html-italic">Gpc1</span>: Glypican-1; <span class="html-italic">Ikbkg</span>: Inhibitor of kappaB Kinase Gamma; <span class="html-italic">Madd</span>: MAP Kinase Activating Death Domain; <span class="html-italic">Vgf</span>: Nerve Growth Factor Inducible.</p>
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<p>(<b>A</b>) UpSet plot. Enriched terms showed high semantic similarity and many shared genes except for “Bilanges serum and rapamycin sensitive genes” and “CXCR4 pathway”. The plot was constructed with the R package ComplexUpset (version 1.3.5) [<a href="#B22-ijms-26-02331" class="html-bibr">22</a>,<a href="#B23-ijms-26-02331" class="html-bibr">23</a>]. (<b>B</b>) Ridge plot. The density distributions of all enriched terms exhibited peak frequency values clustered around −1.75 CES. The top enriched downregulated pathway in GSEA was “Glycolysis and gluconeogenesis”. The plot was constructed with the R package enrichplot (version 1.26.6) [<a href="#B24-ijms-26-02331" class="html-bibr">24</a>]. Abbreviations of source databases: CGP (Chemical and genetic perturbations from the Human Molecular Signatures Database), KEGG (Kyoto Encyclopedia of Genes and Genomes), PID (Pathway Interaction Database), and WP (Wikipathways).</p>
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<p>Inferior colliculus expression changes of GSEA-selected genes. (<b>A</b>) Histograms show relative quantities of transcripts from the metabolic epileptic disorders pathway: <span class="html-italic">Slc25a1</span>, <span class="html-italic">Shmt2</span>, <span class="html-italic">Dld</span> in the GASH.sAUK.NR compared to GASH.naïve hamsters. (<b>B</b>) Histograms show relative quantities of transcripts from the CXCR4 pathway: <span class="html-italic">Ralb</span>, <span class="html-italic">Itch</span>, and <span class="html-italic">Fyn</span> in the GASH.sAUK.NR compared to GASH.naïve hamsters. The relative mRNA expression of each gene was normalized to <span class="html-italic">β-actin</span>. Each bar in the histograms represents mean ± SEM. Asterisks indicate significant differences between experimental groups (* <span class="html-italic">p</span> &lt; 0.05). Dashed line indicates the normalization level related to the different transcripts in the GASH naïve hamsters. Abbreviations: CXCR4: C-X-C: Chemokine Receptor Type 4; <span class="html-italic">Dld</span>: Dihydrolipoamide Dehydrogenase; <span class="html-italic">Fyn</span>: FYN Proto-Oncogene, Src Family Tyrosine Kinase; GASH.sAUK.NR: non-responder GASH/Sal submitted to audiogenic kindling; <span class="html-italic">Itch</span>: Itchy E3 Ubiquitin Protein Ligase; <span class="html-italic">Ralb</span>: RAS-Like proto-oncogene B; <span class="html-italic">Shmt2</span>: Serine Hydroxymethyltransferase 2; <span class="html-italic">Slc25a1</span>: Solute Carrier Family 25 Member 1.</p>
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<p>Scale independence (<b>A</b>) and mean connectivity (<b>B</b>) of different soft-thresholding values. The chosen value was set at 30. (<b>C</b>) Merged modules dendrogram. Clusters were constructed based on the TOM matrix using hierarchical clustering and the Dynamic Tree Cut method. Modules whose eigenprotein correlation was above 0.25 were merged. The minimum module set size was established at 30. (<b>D</b>) Module–epilepsy association. The heatmap illustrates the 17 module correlations with epilepsy status. Module gray is excluded considering that it includes genes with no module associations. Module green (MEgreen) was significant. ** <span class="html-italic">p</span>-value &lt; 0.01.</p>
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<p>Gene expression changes of WGCNA-selected candidates in the inferior colliculus of GASH.sAUK.NR vs. GASH.naïve. Histograms show relative quantities of transcripts <span class="html-italic">Slc1a2</span>, <span class="html-italic">Slc1a3</span>, <span class="html-italic">Akt1</span>, <span class="html-italic">Cyfip2</span> and <span class="html-italic">S100b</span>. The relative mRNA expression of each gene was normalized to <span class="html-italic">β-actin</span>. Each bar in the histograms represents mean ± SEM. Asterisks indicate significant differences between experimental groups (* <span class="html-italic">p</span> &lt; 0.05, ** <span class="html-italic">p</span> &lt; 0.01). Dashed line indicates the normalization level related to the different transcripts in the GASH naïve hamsters. Abbreviations: <span class="html-italic">Akt1</span>: RAC-alpha serine/threonine-protein kinase; <span class="html-italic">Cyfip2</span>: Cytoplasmic FMR1 Interacting Protein 2; <span class="html-italic">S100b</span>: S100 calcium-binding protein B; GASH.sAUK.NR: non-responder GASH/Sal submitted to audiogenic kindling; <span class="html-italic">Slc1a2</span>: Solute Carrier Family 1 Member 2; <span class="html-italic">Slc1a3</span>: Solute Carrier Family 1 Member 3.</p>
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<p>Experimental design. It includes the auditory brainstem response test performed before the stimulation protocol, the proper sAUK protocol, and the bioinformatic and statistics procedures conducted for the selection of genes subsequently analyzed by RT-qPCR.</p>
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