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13 pages, 3030 KiB  
Article
Gastrointestinal Shedding of Rubulaviruses from Egyptian Rousette Bats: Temporal Dynamics and Spillover Implications
by Tauya S. Muvengi, Marinda Mortlock, Morgan P. Kain and Wanda Markotter
Microorganisms 2024, 12(12), 2505; https://doi.org/10.3390/microorganisms12122505 - 4 Dec 2024
Viewed by 531
Abstract
Bats are recognized as reservoirs for diverse paramyxoviruses, some of which are closely related to known human pathogens or directly implicated in zoonotic transmission. The emergence of the zoonotic Sosuga virus (SOSV) from Egyptian rousette bats (ERBs), which caused an acute febrile illness [...] Read more.
Bats are recognized as reservoirs for diverse paramyxoviruses, some of which are closely related to known human pathogens or directly implicated in zoonotic transmission. The emergence of the zoonotic Sosuga virus (SOSV) from Egyptian rousette bats (ERBs), which caused an acute febrile illness in a reported human case in Africa, has increased the focus on the zoonotic potential of the Rubulavirinae subfamily. Previous studies identified human parainfluenza virus 2 (HPIV2)- and mumps (MuV)-related viruses in ERBs from South Africa, with HPIV2-related viruses restricted to gastrointestinal samples, an underexplored target for rubulavirus biosurveillance, suggesting that sample-type bias may have led to their oversight. To address this, we performed a longitudinal analysis of population-level fecal samples from an ERB maternity roost for rubulavirus RNA, employing a broadly reactive hemi-nested RT-PCR assay targeting the polymerase gene. We detected HPIV2- and MuV-related viruses in addition to numerous pararubulaviruses, highlighting significant viral diversity. Temporal analysis of three major clades revealed peaks in rubulavirus shedding that correlated with seasonal environmental changes and host reproductive cycles, although shedding patterns varied between clades. These findings identify specific periods of increased risk for the spillover of bat-associated rubulaviruses to humans, providing critical information for developing targeted mitigation strategies to minimize zoonotic transmission risk within the local community. Full article
(This article belongs to the Section Virology)
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Figure 1

Figure 1
<p>Map showing the location of the sampling area in Limpopo province, South Africa. The location of Ga Mampa is marked with a red asterisk.</p>
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<p>A Bayesian phylogeny constructed using the partial polymerase gene sequences (186 nucleotides) of the rubulaviruses detected in Egyptian rousette bat fecal samples using an <span class="html-italic">Avula-Rubulavirinae</span> specific assay. The phylogeny was constructed in BEAST v2.5.1. using the transversion model with a gamma distribution and invariant sites (TVM + I + G). The phylogenetic tree was captured in proportional view, and posterior probabilities &gt; 0.5 are shown at internal nodes. Colored sequences were detected in this study. Sequences from the same bat population from a previous study are indicated with a dot. Sequences from characterized viral species are indicated in boldface. The numbers in brackets at the end of each sequence represent the number of detections per sequence. Rubulavirus clades are highlighted in green (mumps-related viruses), orange (human parainfluenza 2-related viruses) and purple (genus <span class="html-italic">Pararubulavirus</span>-related viruses).</p>
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<p>Predicted within-year variation among three rubulavirus clades detected in Egyptian rousette bat fecal sample pools.</p>
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<p>Predicted monthly prevalence of virus sequences in the three rubulavirus clades detected over a period of 2.5 years. Dots represent the proportion of positive samples and shaded areas represent 95% confidence intervals. Different colors represent the different clades and correspond to the same-colored clades depicted in <a href="#microorganisms-12-02505-f002" class="html-fig">Figure 2</a>.</p>
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21 pages, 8968 KiB  
Article
Lightning Detection Using GEO-KOMPSAT-2A/Advanced Meteorological Imager and Ground-Based Lightning Observation Sensor LINET Data
by Seung-Hee Lee and Myoung-Seok Suh
Remote Sens. 2024, 16(22), 4243; https://doi.org/10.3390/rs16224243 - 14 Nov 2024
Viewed by 658
Abstract
In this study, GEO-KOMPSAT-2A/Advanced Meteorological Imager (GK2A/AMI) and Lightning NETwork (LINET) data were used for lightning detection. A total of 20 lightning cases from the summer of 2020–2021 were selected, with 14 cases for training and 6 for validation to develop lightning detection [...] Read more.
In this study, GEO-KOMPSAT-2A/Advanced Meteorological Imager (GK2A/AMI) and Lightning NETwork (LINET) data were used for lightning detection. A total of 20 lightning cases from the summer of 2020–2021 were selected, with 14 cases for training and 6 for validation to develop lightning detection algorithms. Since these two datasets have different spatiotemporal resolutions, spatiotemporal matching was performed to use them together. To find the optimal lightning detection algorithm, we designed 25 experiments and selected the best experiment by evaluating the detection level. Although the best experiment had a high POD (>0.9) before post-processing, it also showed over-detection of lightning. To minimize the over-detection problem, statistical and Region-Growing post-processing methods were applied, improving the detection performance (FAR: −19.14~−24.32%; HSS: +76.92~+86.41%; Bias: −59.3~−66.9%). Also, a sensitivity analysis of the collocation criterion between the two datasets showed that the detection level improved when the spatial criterion was relaxed. These results suggest that detecting lightning in mid-latitude regions, including the Korean Peninsula, is possible by using GK2A/AMI data. However, reducing the variability in detection performance and the high FAR associated with anvil clouds and addressing the parallax problem of thunderstorms in mid-latitude regions are necessary to improve the detection performance. Full article
(This article belongs to the Section Atmospheric Remote Sensing)
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Graphical abstract

Graphical abstract
Full article ">Figure 1
<p>Analyzed area in this study (light blue area) and distribution of LINET sensors operated by the KMA (red dots).</p>
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<p>Flow chart of this study. "#" refers to a channel of GK2A/AMI.</p>
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<p>The method for temporal (<b>a</b>) and spatial (<b>b</b>) collocations of LINET data and GK2A/AMI data. In (<b>b</b>), the red pixel represents the nearest satellite pixel to the lightning occurrence point, and the green pixel indicates the pixel with the lowest BT10.5 within the 15 × 15 area surrounding the red pixel.</p>
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<p>Contingency table for evaluation of lightning events. “#” represents the number of pixels.</p>
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<p>Box plots of lightning detection evaluation levels for the 25 Exps ((<b>a</b>) training and (<b>b</b>) validation cases). The red dots represent the average evaluation indices of the cases for each experiment. The red dashed lines divide the Exps based on the number of IVs. Red boxes show Exp 18, which had the best result among the 25 experiments.</p>
Full article ">Figure 5 Cont.
<p>Box plots of lightning detection evaluation levels for the 25 Exps ((<b>a</b>) training and (<b>b</b>) validation cases). The red dots represent the average evaluation indices of the cases for each experiment. The red dashed lines divide the Exps based on the number of IVs. Red boxes show Exp 18, which had the best result among the 25 experiments.</p>
Full article ">Figure 6
<p>Sample images of (<b>a</b>,<b>c</b>) BT10.5 distribution with lightning occurrence points (yellow cross markers) and (<b>b</b>,<b>d</b>) lightning detection results from Exp 18. (<b>a</b>,<b>b</b>) There were fewer lightning occurrences at 03:20 UTC on 6 July 2020. (<b>c</b>,<b>d</b>) Intense lightning occurrences at 05:30 UTC on 11 August 2020.</p>
Full article ">Figure 7
<p>Distribution of the <math display="inline"><semantics> <mrow> <mi>R</mi> <mi>a</mi> <mi>t</mi> <mi>i</mi> <mi>o</mi> </mrow> </semantics></math> applied in statistical post-processing for Exp 18 (<math display="inline"><semantics> <mrow> <mi>R</mi> <mi>a</mi> <mi>t</mi> <mi>i</mi> <mi>o</mi> </mrow> </semantics></math>: the ratio of Hits to False Alarms, with the pink area representing regions where the Hit count = 0 and False Alarm count ≠ 0). The red line represents Test 9, and the green and orange lines represent Tests 7 and 10, respectively.</p>
Full article ">Figure 8
<p>Results of sensitivity test for statistical post-processing of Exp 18 ((<b>a</b>,<b>b</b>): training cases; (<b>c</b>,<b>d</b>): validation cases). Test # refers to the tests based on the area below the line removed in <a href="#remotesensing-16-04243-f007" class="html-fig">Figure 7</a>. The red box indicates the test with the best results from the sensitivity tests.</p>
Full article ">Figure 8 Cont.
<p>Results of sensitivity test for statistical post-processing of Exp 18 ((<b>a</b>,<b>b</b>): training cases; (<b>c</b>,<b>d</b>): validation cases). Test # refers to the tests based on the area below the line removed in <a href="#remotesensing-16-04243-f007" class="html-fig">Figure 7</a>. The red box indicates the test with the best results from the sensitivity tests.</p>
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<p>Sample images of lightning detection results before (<b>a</b>,<b>c</b>) and after (<b>b</b>,<b>d</b>) applying statistical post-processing.</p>
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<p>Results of the RG post-processing sensitivity test for the (<b>a</b>) training cases and (<b>b</b>) validation cases. The red box indicates that the Skill score for the threshold pixel (Ref_pixel) was 90, representing the final applied threshold value.</p>
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<p>Sample images of lightning detection (<b>a</b>,<b>c</b>) before and (<b>b</b>,<b>d</b>) after applying RG post-processing with Ref_pixel = 90.</p>
Full article ">Figure 11 Cont.
<p>Sample images of lightning detection (<b>a</b>,<b>c</b>) before and (<b>b</b>,<b>d</b>) after applying RG post-processing with Ref_pixel = 90.</p>
Full article ">Figure 12
<p>Monthly distribution of cloud-to-cloud (CC)/intracloud (IC) and cloud-to-ground (CG) lightning occurrences in the Korean Peninsula from May to September 2020–2021, as detected by LINET.</p>
Full article ">
33 pages, 62847 KiB  
Article
A Novel Monoclonal Antibody Against a Modified Vaccinia Ankara (MVA) Envelope Protein as a Tool for MVA Virus Titration by Flow Cytometry
by Simeon Cua, Brenda A. Tello, Mafalda A. Farelo, Esther Rodriguez, Gabriela M. Escalante, Lorraine Z. Mutsvunguma, Javier Gordon Ogembo and Ivana G. Reidel
Viruses 2024, 16(10), 1628; https://doi.org/10.3390/v16101628 - 17 Oct 2024
Viewed by 1261
Abstract
Modified vaccinia Ankara (MVA) virus is a widely used vaccine platform, making accurate titration essential for vaccination studies. However, the current plaque forming unit (PFU) assay, the standard for MVA titration, is prone to observer bias and other limitations that affect accuracy and [...] Read more.
Modified vaccinia Ankara (MVA) virus is a widely used vaccine platform, making accurate titration essential for vaccination studies. However, the current plaque forming unit (PFU) assay, the standard for MVA titration, is prone to observer bias and other limitations that affect accuracy and precision. To address these challenges, we developed a new flow cytometry-based quantification method using a highly specific monoclonal antibody (mAb) for the detection of MVA-infected cells, as a more accurate titration assay. Through previous work, we serendipitously identified three MVA-specific hybridoma antibody clones, which we characterized through ELISA, immunoblot, and flow cytometry, confirming their specificity for MVA. Sequencing confirmed that each antibody was monoclonal, and mass spectrometry results revealed that all mAbs target the MVA cell surface binding protein (CSBP, MVA105L). We next optimized the titration protocol using the most effective mAb, 33C7 by refining culture conditions and staining protocols to enhance sensitivity and minimize background. Our optimized method demonstrated superior sensitivity, reliability, and reduced processing time when compared with the traditional PFU assay, establishing it as a more accurate and efficient approach for MVA titration. Full article
(This article belongs to the Section Viral Immunology, Vaccines, and Antivirals)
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Figure 1

Figure 1
<p>Generation and characterization of antibodies against modified vaccinia Ankara (MVA) virus. (<b>A</b>) Schematic diagram of the BALB/c mouse (<span class="html-italic">n</span> = 1) immunization schedule used to generate MVA/human herpesvirus protein (HHVp)-specific murine antibodies. Mouse was bled or immunized with either MVA expressing His-tagged MVA-HHVp (V) or purified His-tagged HHVp produced from cells infected with this virus (P) on the indicated days. Harvested spleen at the end of the study period was used to generate hybridomas via the myeloma cell fusion method. Created in BioRender. Cua, S. (2023) BioRender.com/o30l999 (<b>B</b>) Confirmatory ELISA screen of hybridoma supernatants to detect anti-HHVp antibodies. Culture supernatants from hybridomas generated in (<b>A</b>) were subjected to an initial HHVp-specific antibody ELISA screen. After expansion of the resulting ELISA-positive hybridoma clones, culture supernatants were further screened by a confirmatory ELISA (shown), using soluble semi-purified His-tagged HHVp produced in an MVA system as the target antigen. Each bar represents the mean OD<sub>405nm</sub> of three replicates + the standard deviation; samples with a mean OD<sub>405nm</sub> &gt; 0.1 (dotted line) were considered positive. (<b>C</b>) Immunoblot assessment of hybridoma supernatants to detect anti-HHVp antibodies. Culture supernatants from hybridoma clones that were ELISA-positive in (<b>B</b>) were used as primary antibodies in immunoblot assay against lysates of MVA-eGFP-infected BHK-21 cells (MVA-eGFP) or semi-purified His-tagged HHVp (s-p HHVp) produced in an MVA system. Shown are the blots of hybridoma clones (3/9) that detected a protein band of the same size in both MVA-eGFP and s-p HHVp samples (indicated with red arrow), suspected to be an MVA-specific protein. Remaining blots (6/9), which did not detect this protein band, are shown in <a href="#viruses-16-01628-f0A1" class="html-fig">Figure A1</a>B. (<b>D</b>) SDS-PAGE analysis of purified hybridoma supernatant antibodies. Antibodies from hybridoma supernatants shown in (<b>C</b>) were purified via protein A (9E8 and 33C7) or G (38D11) affinity chromatography and subjected to SDS-PAGE followed by Coomassie blue staining to assess antibody purity. Heavy and light chains are indicated with red arrows. See also <a href="#viruses-16-01628-f0A1" class="html-fig">Figure A1</a>.</p>
Full article ">Figure 2
<p>Characterization of 9E8, 33C7, and 38D11 purified antibodies against modified vaccinia Ankara (MVA) virus. (<b>A</b>) Immunoblot assessment of purified 9E8, 33C7, and 38D11 antibodies against MVA-infected cells. Purified hybridoma supernatant antibodies 9E8, 33C7, and 38D11 were used as primary antibodies in immunoblot assay against lysates of MVA-eGFP-infected BHK-21 or CEF cells. Uninfected BHK-21 and CEF cell lysates were used as negative controls. As a loading control, all samples were additionally stained with β-actin primary antibody. Expected protein sizes are indicated with red arrows. (<b>B</b>) Flow cytometry assessment of purified 9E8, 33C7, and 38D11 antibodies against MVA-infected cells. Purified hybridoma supernatant antibodies 9E8, 33C7, and 38D11 were used as primary antibodies in flow cytometry assay against BHK-21 or CEF cells infected with MVA-eGFP, using Alexa Fluor 647-conjugated anti-mouse IgG secondary antibody. Uninfected BHK-21 and CEF cells were used as negative controls. For each antibody and condition (infected versus uninfected), shown is the mean percentage (%) + standard deviation of cells from quadruplicate measurements that were positive for the antibody signal but negative for eGFP (Ab+ GFP−), negative for the antibody signal but positive for eGFP (Ab− GFP+), or positive for both the antibody signal and eGFP (Ab+ eGFP+). See also <a href="#viruses-16-01628-f0A2" class="html-fig">Figure A2</a>.</p>
Full article ">Figure 3
<p>Identification of 9E8, 33C7, and 38D11 antibody targets. (<b>A</b>) Immunoblot assessment of purified antibodies 9E8, 33C7, and 38D11 against HEK-293T cells expressing modified vaccinia Ankara (MVA) proteins. Purified hybridoma supernatant antibodies 9E8, 33C7, and 38D11 were used as primary antibodies in immunoblot assay against lysates of HEK-293T cells transfected with expression plasmids coding for His-tagged cell surface-binding protein (CSBP-His) and His-tagged IMV heparin binding surface protein (IMV HBP-His), MVA proteins identified as possible antibody targets in <a href="#viruses-16-01628-t002" class="html-table">Table 2</a>. Un-transfected cells were used as negative controls. As a positive antibody control, samples were also processed with anti-His primary antibody. As a loading control, all samples were additionally stained with β-actin primary antibody. Expected protein sizes are indicated with red arrows. (<b>B</b>) Flow cytometry assessment of purified antibodies 9E8, 33C7, and 38D11 against HEK-293T cells expressing MVA proteins. Purified hybridoma supernatant antibodies 9E8, 33C7, and 38D11 were used as primary antibodies in flow cytometry assay against HEK-293T cells transfected with CSBP-His and IMV HBP-His expression plasmids. Un-transfected cells were used as a negative control. To control for secondary antibody background, all samples were also processed in the absence of primary antibody (2° Ab only). For each antibody and condition, shown is the mean percentage (%) + standard deviation of cells from quadruplicate measurements that were positive for the antibody signal.</p>
Full article ">Figure 4
<p>Optimization of experimental conditions for monoclonal antibody (mAb)-based flow cytometry modified vaccinia ankara (MVA) detection in MVA-eGFP-infected cells. (<b>A</b>) Comparison of 33C7-based flow cytometry assessment in non-permeabilized versus permeabilized cells infected with MVA-eGFP in the absence or presence of nocodazole. Purified 33C7 was used as primary antibody in flow cytometry assay against BHK-21 cells that were infected with MVA-eGFP under different conditions. Infected cells were either cultured in the absence or presence of nocodazole to inhibit viral morphogenesis. Following harvest, cells were processed for 33C7 staining, either without permeabilization (extracellular staining), or following permeabilization (extra- and intracellular staining). Uninfected cells were used as a negative control. To control for secondary antibody background, all samples were also processed in the absence of primary antibody (2° Ab only). Shown are representative flow cytometry plots of triplicate infections for each condition, with the <span class="html-italic">Y</span>-axis representing the eGFP signal and the <span class="html-italic">X</span>-axis representing the secondary antibody AF-555 signal. For each plot, the percentage of cells that were either positive or negative for each fluorescent signal are shown in each corresponding quadrant. (<b>B</b>) Comparison of 9E8, 33C7, and 38D11 as primary antibodies in flow cytometry-based detection of MVA in MVA-eGFP-infected cells. Purified hybridoma supernatant antibodies 9E8, 33C7, and 38D11 were used in flow cytometry assay as primary antibodies against permeabilized BHK-21 cells that were infected with MVA-eGFP in the presence of nocodazole. Uninfected cells were used as negative controls. For each antibody and condition (infected versus uninfected), shown is the mean percentage (%) + standard deviation of cells from triplicate infections that were positive for the antibody signal but negative for eGFP (mAb+ GFP−), negative for the antibody signal but positive for eGFP (mAb− GFP+), or positive for both the antibody signal and eGFP (mAb+ eGFP+). (<b>C</b>) Titration of 33C7 as primary antibody for flow cytometry detection of MVA in MVA-eGFP-infected cells. MVA-eGFP-infected BHK-21 cells cultured in nocodazole were permeabilized and processed for flow cytometry with varying concentrations of primary antibody 33C7 to identify an optimal 33C7 concentration. Unstained cells were used as a negative control. Shown are two resulting antibody titration curves, one corresponding to the population of cells that were mAb+ GFP+ and the other corresponding to the cells that mAb+ GFP−, with each dot representing the mean percentage (%) ± standard deviation of cells from triplicate infections that were positive for the antibody signal at each corresponding 33C7 concentration. The green line depicts the mean % eGFP+ cells in the unstained control set of cells. 3 µg/mL was chosen as the optimal 33C7 primary antibody concentration for staining. See also <a href="#viruses-16-01628-f0A4" class="html-fig">Figure A4</a>.</p>
Full article ">Figure 5
<p>Validation of 33C7 binding to cells exposed to live versus inactivated modified vaccinia Ankara (MVA). (<b>A</b>) Microscopy analysis of BHK-21 cells infected with live or inactivated MVA-eGFP. BHK-21 cells were incubated with either MVA-eGFP (live) or UV-treated MVA-eGFP (UV MVA-eGFP; inactivated). Shown are representative phase (transmitted light) and GFP (green fluorescence) channel micrographs of cells 18 h after infection. (<b>B</b>) Confirmation of 33C7 binding specificity to live-MVA-infected cells via flow cytometry. Purified 33C7 was used in flow cytometry assay as a primary antibody against permeabilized BHK-21 cells that were incubated with either MVA-eGFP or UV MVA-eGFP in the presence of nocodazole. For each condition (MVA−eGFP− versus UV MVA-eGFP-infected), shown is the mean percentage (%) + standard deviation of cells from triplicate infections that were positive for the antibody signal but negative for eGFP (mAb+ GFP−), negative for the antibody signal but positive for eGFP (mAb− GFP+), or positive for both the antibody signal and eGFP (mAb+ eGFP+).</p>
Full article ">Figure 6
<p>Validation of 33C7 and r33C7 as primary antibodies in flow cytometry modified vaccinia Ankara (MVA) titrations. (<b>A</b>) Comparison of eGFP- versus 33C7-based flow cytometry MVA-eGFP titer quantification in non-permeabilized versus permeabilized MVA-eGFP-infected cells. Purified 33C7 was used as primary antibody in flow cytometry assay against BHK-21 cells that were infected with varying dilutions of MVA-eGFP and cultured in the presence of nocodazole, to calculate viral titer. Following harvest, cells were processed for 33C7 staining, either without permeabilization (extracellular staining), or following permeabilization (extra- and intracellular staining). On the top row, shown are infection curves for each condition (extracellular versus extra- and intracellular staining), with each dot representing the mean percentage (%) ± standard deviation of cells from triplicate infections that were positive for eGFP or secondary antibody AF-555 signals at each corresponding virus dilution. On the bottom row, shown is a table comparing the infectious units per volume (IU/mL) calculated from each infection curve using eGFP versus AF-555 signals for each condition; each value represents the calculated mean infectious units per volume (IU/mL) ± standard deviation for each condition and signal, and the <span class="html-italic">p</span>-value after one-tailed Mann-Whitney test comparison of IU/mL for each signal within each condition is shown; * = significant, NS = non-significant. Permeabilization was chosen as the optimal staining condition. (<b>B</b>) Comparison of eGFP- versus 33C7- and r33C7-based flow cytometry MVA titer quantification in MVA-eGFP-infected cells under optimized experimental conditions. Purified 33C7 and r33C7 were used as primary antibody in flow cytometry assay against permeabilized MVA-eGFP-infected BHK-21 cells as in (<b>A</b>) to calculate infectious titer. On the top, shown are the resulting infection curves for each condition, where each dot represents the mean % ± standard deviation of cells from quadruplicate infections that were positive for the fluorescent signal at each corresponding virus dilution. On the bottom, a table is shown with the resulting virus titers (infectious units per mL, IU/mL) as calculated under each condition. See also <a href="#viruses-16-01628-f0A5" class="html-fig">Figure A5</a>.</p>
Full article ">Figure 7
<p>Validation of 33C7 and r33C7 as primary antibodies in plaque-forming unit (PFU) modified vaccinia Ankara (MVA) titrations. Purified 33C7 and r33C7 were used as primary antibody for PFU assay immunostaining to titrate MVA in MVA-eGFP-infected BHK-21 cells as described in <a href="#viruses-16-01628-f0A6" class="html-fig">Figure A6</a>. As positive control, commercial rabbit polyclonal anti-MVA antibody was used as primary antibody in an additional set of infected cells. As an additional control, eGFP signal was also used to identify viral plaques for IU/mL calculations. On the top, shown are representative GFP (eGFP signal) and phase (transmitted light, antibodies) channel micrographs for select virus dilutions under each condition after immunostaining; uninfected cells were used as a mock control. On the bottom, a table is shown with the resulting virus titers (infectious units per mL, IU/mL) as calculated under each condition. See also <a href="#viruses-16-01628-f0A6" class="html-fig">Figure A6</a>.</p>
Full article ">Figure A1
<p>Modified vaccinia Ankara (MVA) infection of BHK-21 cells for lysate generation and human herpesvirus 4 protein (HHVp) production, and HHVp-specific antibody immunoblot assessment. (<b>A</b>) Microscopy analysis of BHK-21 cells infected with MVA-eGFP or MVA expressing His-tagged HHVp. BHK-21 cells were infected with MVA-eGFP or MVA expressing His-tagged HHVp (MVA-HHVp). Shown are representative phase (transmitted light) and GFP (green fluorescence) channel micrographs for each virus 16 h after infection; uninfected cells were used as a mock control. For generation of reagents for antibody generation and characterization, infected cells were incubated until achieving 90–100% infection based on eGFP expression as assessed by microscopy, and were harvested and processed for either lysing (MVA-eGFP-infected cells) or for protein purification (MVA-HHVp-infected cells). (<b>B</b>) Immunoblot assessment of hybridoma supernatants to detect anti-HHVp antibodies. As described in <a href="#viruses-16-01628-f001" class="html-fig">Figure 1</a>C, culture supernatants from hybridoma clones that were ELISA-positive in <a href="#viruses-16-01628-f001" class="html-fig">Figure 1</a>B were used as primary antibodies in immunoblot assay against lysates of MVA-eGFP-infected BHK-21 cells or semi-purified His-tagged HHVp (s-p HHVp). Shown are the blots of hybridoma clones (6/9) that did not detect a suspected MVA-specific protein band. Remaining blots (3/9), positive for suspected MVA protein, are shown in <a href="#viruses-16-01628-f001" class="html-fig">Figure 1</a>C.</p>
Full article ">Figure A2
<p>Modified vaccinia Ankara (MVA) infection of BHK-21 and CEF cells for lysate and flow cytometry sample generation. BHK-21 or CEF cells were infected with eGFP-expressing wildtype MVA (MVA-eGFP). Shown are representative phase (transmitted light) and GFP (green fluorescence) channel micrographs for each cell type 22 h after infection. For generation of reagents for antibody characterization, infected cells were incubated until achieving 90–100% infection based on eGFP expression as assessed by microscopy, and were harvested and processed for either lysing or for flow cytometry.</p>
Full article ">Figure A3
<p>Characterization of recombinant 9E8, 33C7, and 38D11 antibodies. (<b>A</b>) SDS-PAGE analysis of purified recombinant 9E8, 33C7, and 38D11 antibodies. After 9E8, 33C7, and 38D11 hybridoma sequencing (<a href="#viruses-16-01628-t001" class="html-table">Table 1</a>), the CDR1, CDR2, and CDR3 sequences of each antibody were cloned into antibody expression plasmids, which were used to produce recombinant 9E8, 33C7, and 38D11 (r9E8, r33C7, and r38D11) in ExpiCHO-S cells. Recombinant antibodies were purified from the supernatants of transfected ExpiCHO-S cells via protein A (r9E8 and r33C7) or G (r38D11) affinity chromatography and subjected to SDS-PAGE followed by Coomassie Brilliant Blue staining to assess antibody purity. Heavy and light chains are indicated with red arrows. (<b>B</b>) Immunoblot assessment of purified r9E8, r33C7, and r38D11 antibodies against MVA-infected cells. Purified r9E8, r33C7, and r38D11 were used as primary antibodies in immunoblot assay against lysates of MVA-eGFP-infected BHK-21 or CEF cells. Uninfected and BHK-21 and CEF cell lysates were used as negative controls. As a loading control, all samples were additionally stained with β-actin primary antibody. Expected protein sizes are indicated with red arrows.</p>
Full article ">Figure A4
<p>Titration of nocodazole as a viral morphogenesis inhibitor in MVA-eGFP-infected BHK-21 cells. (<b>A</b>) Flow cytometry assessment of MVA-eGFP-infected BHK-21 cells cultured in varying concentrations of nocodazole. BHK-21 cells were infected with MVA-eGFP and subsequently cultured with varying concentrations of nocodazole to inhibit viral morphogenesis and secondary infection, followed by harvesting and processing for eGFP-based flow cytometry assay. Shown is the resulting infection curve, with each dot representing the mean percentage (%) ± standard deviation of cells from triplicate infections that were positive for eGFP signal at each corresponding nocodazole culture condition. A range of 0.2–0.5 µg/mL nocodazole concentration was chosen as the optimal culture condition for modified vaccinia Ankara-infected cells for subsequent flow cytometry viral titrations. (<b>B</b>) Microscopy analysis of MVA-eGFP-infected BHK-21 cells cultured in varying concentrations of nocodazole. Shown are representative phase (transmitted light) and GFP (green fluorescence) channel micrographs of cells from (<b>A</b>) 18–20 h after infection for 0, 0.2, and 2 µg/mL nocodazole culture conditions, before harvesting; uninfected cells were used as a mock control.</p>
Full article ">Figure A5
<p>Gating strategy for 33C7-based flow cytometry modified vaccinia Ankara (MVA) titrations. Shown is the gating strategy used for 33C7-based flow cytometry for viral titration of MVA in MVA-eGFP-infected BHK-21 cells, using uninfected cells as a negative control. On the top row, representative flow cytometry plots are shown illustrating the gating of BHK-21 cells, followed by gating of single cells and live cells via a viability dye. On the middle and bottom rows, shown are the subsequent gating of infected cells based on the detected eGFP (green arrow) and secondary antibody AF-555 (red arrow) signals, respectively. For eGFP and AF-555 gates, the percentage (%) of cells that were positive for each corresponding signal is shown within each gate.</p>
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<p>Schematic diagrams of plaque-forming unit (PFU) and median tissue culture infectious dose (TCID<sub>50</sub>) assays for modified vaccinia Ankara (MVA) viral titration. (<b>A</b>) Schematic diagrams of MVA titration PFU and TCID<sub>50</sub> assay experimental setups. On Day-1, cells are seeded in either 6-well plates (×4) or a 96-well plate (×1) for PFU and TCID<sub>50</sub> assays, respectively. On Day 0, the viral stock to be tested is serially diluted 10-fold from 10<sup>1</sup> to 10<sup>11</sup> and then added to the seeded cells in duplicate for PFU assay, or to each column (8 wells) of the 96-well plate for TCID<sub>50</sub> assay, leaving one set of duplicates and one column uninfected, respectively, as controls. Cells are incubated for 1 h under standard cell culture conditions, then the virus is removed, and the cells are further incubated for an additional 24 h. On Day 1, the cells are fixed, and staining and data acquisition can proceed immediately or at a later time. Created in BioRender. Reidel, I. (2024) BioRender.com/h70v781 (<b>B</b>) Schematic diagram of MVA titration PFU assay data acquisition and calculation. To calculate viral titer via PFU assay, the stained plates are analyzed by microscopy. Viral plaques, which appear as dark cell clumps (brown if using DAB substrate), are counted in duplicate wells at the dilution that yields 10-100 plaques. These counts are then used in the shown formula to calculate the viral stock IU/mL. A calculation example is provided for a theoretical scenario in which 1 mL of 10<sup>7</sup>-diluted virus yielded 35 and 42 viral plaques in each duplicate well, respectively. Created in BioRender. Reidel, I. (2024) BioRender.com/v20y722 (<b>C</b>) Schematic diagram of MVA titration TCID<sub>50</sub> assay data acquisition and calculation. To calculate viral titer via TCID<sub>50</sub> assay, the fixed and stained plate is analyzed by microscopy. The last dilution that resulted in all 8 wells displaying viral plaques (i.e., 100% infectivity) and the number of wells that displayed viral plaques in all subsequent dilutions, are recorded, and then used in the shown formula to calculate the viral stock infectious units per mL (IU/mL). A calculation example is provided for a theoretical scenario in which using an infection volume of 0.1 mL, the last dilution with 100% infectivity in 8 wells was 10<sup>6</sup>, and the number of infected wells for the subsequent dilutions (10<sup>7</sup>, 10<sup>8</sup>, 10<sup>9</sup>, 10<sup>10</sup>, 10<sup>11</sup>) were 4, 1, 0, 0, and 0, respectively. Created in BioRender. Reidel, I. (2024) BioRender.com/j18g391.</p>
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<p>Comparison of plaque-forming unit (PFU) modified vaccinia Ankara (MVA) titration outcomes after 24 h versus 48 h virus incubations. Commercial polyclonal anti-MVA antibody was used as primary antibody for PFU assay immunostaining to titrate MVA in MVA-eGFP-infected BHK-21 cells, after either a 24 h or 48 h incubation following infection. On the top, shown are representative GFP (eGFP signal) and phase (transmitted light, antibodies) channel micrographs for selected virus dilutions under each condition after immunostaining; uninfected cells were used as a mock control. On the bottom, a table is shown with the resulting virus titers (infectious units per mL, IU/mL) as calculated under each condition.</p>
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25 pages, 5085 KiB  
Article
Enhancing Underwater Images through Multi-Frequency Detail Optimization and Adaptive Color Correction
by Xiujing Gao, Junjie Jin, Fanchao Lin, Hongwu Huang, Jiawei Yang, Yongfeng Xie and Biwen Zhang
J. Mar. Sci. Eng. 2024, 12(10), 1790; https://doi.org/10.3390/jmse12101790 - 8 Oct 2024
Cited by 1 | Viewed by 2661
Abstract
This paper presents a novel underwater image enhancement method addressing the challenges of low contrast, color distortion, and detail loss prevalent in underwater photography. Unlike existing methods that may introduce color bias or blur during enhancement, our approach leverages a two-pronged strategy. First, [...] Read more.
This paper presents a novel underwater image enhancement method addressing the challenges of low contrast, color distortion, and detail loss prevalent in underwater photography. Unlike existing methods that may introduce color bias or blur during enhancement, our approach leverages a two-pronged strategy. First, an Efficient Fusion Edge Detection (EFED) module preserves crucial edge information, ensuring detail clarity even in challenging turbidity and illumination conditions. Second, a Multi-scale Color Parallel Frequency-division Attention (MCPFA) module integrates multi-color space data with edge information. This module dynamically weights features based on their frequency domain positions, prioritizing high-frequency details and areas affected by light attenuation. Our method further incorporates a dual multi-color space structural loss function, optimizing the performance of the network across RGB, Lab, and HSV color spaces. This approach enhances structural alignment and minimizes color distortion, edge artifacts, and detail loss often observed in existing techniques. Comprehensive quantitative and qualitative evaluations using both full-reference and no-reference image quality metrics demonstrate that our proposed method effectively suppresses scattering noise, corrects color deviations, and significantly enhances image details. In terms of objective evaluation metrics, our method achieves the best performance in the test dataset of EUVP with a PSNR of 23.45, SSIM of 0.821, and UIQM of 3.211, indicating that it outperforms state-of-the-art methods in improving image quality. Full article
(This article belongs to the Section Ocean Engineering)
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<p>Raw underwater images. Underwater images commonly suffer from (<b>a</b>) color casts, (<b>b</b>) artifacts, and (<b>c</b>) blurred details.</p>
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<p>The overview of our framework. First, the EFED module detects edge information in the image using an efficient network architecture. Subsequently, the original image and the extracted edge map are fed into the MCPFA module. The MCPFA module leverages an attention mechanism to fuse information from different color spaces and scales, enhancing the image and ultimately producing the enhanced result.</p>
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<p>Pixel difference convolution flowchart [<a href="#B36-jmse-12-01790" class="html-bibr">36</a>]. * for point multiplication. First, calculating the difference between a target pixel and its neighboring pixels, then multiplying these differences by the corresponding weights in the convolution kernel and summing the results, and finally, outputting the sum as the feature value of the target pixel.</p>
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<p>Edge detection structure diagram. First, the original image undergoes multiple downsampling layers within the backbone network, extracting multi-scale edge features. Subsequently, these features are fed into four parallel auxiliary networks. The auxiliary networks utilize dilated convolutions to enlarge the receptive field, sampling global information and fusing features from different scales. This process enables refined edge processing. Finally, the auxiliary networks output a high-quality edge map.</p>
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<p>MCSF module. Integrates information from HSV, Lab, and RGB color spaces, along with edge information, to provide comprehensive features for subsequent image enhancement steps.</p>
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<p>CF-MHA architecture. First, the input feature map is divided into frequency bands based on scale channels. Then, each band undergoes multi-head attention computation independently. Color-aware weights are learned based on the attenuation levels of different colors at different locations. Finally, the multi-head attention outputs, adjusted by the color-aware weights, are fused to produce the final enhanced feature, effectively mitigating the color attenuation issue in underwater images.</p>
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<p>Visual comparison of the full-reference data on the test dataset of EUVP. From left to right; (<b>a</b>) original underwater image, (<b>b</b>) UDCP [<a href="#B10-jmse-12-01790" class="html-bibr">10</a>], (<b>c</b>) HE [<a href="#B47-jmse-12-01790" class="html-bibr">47</a>], (<b>d</b>) CLAHE [<a href="#B11-jmse-12-01790" class="html-bibr">11</a>], (<b>e</b>) LRS [<a href="#B48-jmse-12-01790" class="html-bibr">48</a>], (<b>f</b>) FUnIE-GAN [<a href="#B3-jmse-12-01790" class="html-bibr">3</a>], (<b>g</b>) U-shape [<a href="#B41-jmse-12-01790" class="html-bibr">41</a>], (<b>h</b>) Semi-UIR [<a href="#B49-jmse-12-01790" class="html-bibr">49</a>], (<b>i</b>) our method and (<b>j</b>) reference image (recognized as ground-truthing (GT)).</p>
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<p>Visual comparison of non-reference data from RUIE on the UCCS, UTTS, and UIQS datasets. From left to right: for (1) bluish-biased image, (2) bluish-green biased image, and (3) greenish-biased image data in the UCCS dataset with different color biases, and (4) underwater image quality data in the UIQS dataset that contains underwater images of various qualities for specific underwater mission, and (5) underwater target mission data in the image dataset UTTS for a specific underwater mission. From left to right: (<b>a</b>) original underwater image, (<b>b</b>) UDCP [<a href="#B10-jmse-12-01790" class="html-bibr">10</a>], (<b>c</b>) HE [<a href="#B47-jmse-12-01790" class="html-bibr">47</a>], (<b>d</b>) CLAHE [<a href="#B11-jmse-12-01790" class="html-bibr">11</a>], (<b>e</b>) LRS [<a href="#B48-jmse-12-01790" class="html-bibr">48</a>], (<b>f</b>) FUnIE-GAN [<a href="#B3-jmse-12-01790" class="html-bibr">3</a>], (<b>g</b>) U-shape [<a href="#B41-jmse-12-01790" class="html-bibr">41</a>], (<b>h</b>) Semi-UIR [<a href="#B49-jmse-12-01790" class="html-bibr">49</a>] and (<b>i</b>) our method.</p>
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<p>Visual comparison of reference data on the test dataset of EUVP. From left to right: (<b>a</b>) the original image, (<b>b</b>) Sobel [<a href="#B19-jmse-12-01790" class="html-bibr">19</a>], (<b>c</b>) Canny [<a href="#B22-jmse-12-01790" class="html-bibr">22</a>], (<b>d</b>) Laplace [<a href="#B21-jmse-12-01790" class="html-bibr">21</a>], (<b>e</b>) RCF [<a href="#B53-jmse-12-01790" class="html-bibr">53</a>], (<b>f</b>) ours and (<b>g</b>) ours on ground truth.</p>
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<p>Results of color space selection evaluation. Tests are performed on the test dataset of EUVP to obtain PSNR and SSIM results for each color space model test.</p>
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<p>Results of ablation experiments on different components. From left to right: (<b>a</b>) Input, (<b>b</b>) U-net, (<b>c</b>) U + EFED, (<b>d</b>) U + MCSF, (<b>e</b>) U + CF-MHA, (<b>f</b>) U + EFED + MCSF, (<b>g</b>) U + MCSF + CF-MHA, (<b>h</b>) U + CF-MHA + EFED, (<b>i</b>) MCPFA, (<b>j</b>) GT. And zoomed-in local details.</p>
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<p>The results of underwater target recognition. From left to right: (<b>a</b>) original underwater image, (<b>b</b>) UDCP [<a href="#B10-jmse-12-01790" class="html-bibr">10</a>], (<b>c</b>) HE [<a href="#B47-jmse-12-01790" class="html-bibr">47</a>], (<b>d</b>) CLAHE [<a href="#B11-jmse-12-01790" class="html-bibr">11</a>], (<b>e</b>) LRS [<a href="#B48-jmse-12-01790" class="html-bibr">48</a>], (<b>f</b>) FUnIE-GAN [<a href="#B3-jmse-12-01790" class="html-bibr">3</a>], (<b>g</b>) U-shape [<a href="#B41-jmse-12-01790" class="html-bibr">41</a>], (<b>h</b>) Semi-UIR [<a href="#B49-jmse-12-01790" class="html-bibr">49</a>] and (<b>i</b>) our method.</p>
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<p>The results of the Segment Anything Model. From left to right: (<b>a</b>) original underwater image, (<b>b</b>) UDCP [<a href="#B10-jmse-12-01790" class="html-bibr">10</a>], (<b>c</b>) HE [<a href="#B47-jmse-12-01790" class="html-bibr">47</a>], (<b>d</b>) CLAHE [<a href="#B11-jmse-12-01790" class="html-bibr">11</a>], (<b>e</b>) LRS [<a href="#B48-jmse-12-01790" class="html-bibr">48</a>], (<b>f</b>) FUnIE-GAN [<a href="#B3-jmse-12-01790" class="html-bibr">3</a>], (<b>g</b>) U-shape [<a href="#B41-jmse-12-01790" class="html-bibr">41</a>], (<b>h</b>) Semi-UIR [<a href="#B49-jmse-12-01790" class="html-bibr">49</a>] and (<b>i</b>) our method.</p>
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<p>Enhancement results of a real underwater cage environment. From left to right: (<b>a</b>) original underwater image, (<b>b</b>) UDCP [<a href="#B10-jmse-12-01790" class="html-bibr">10</a>], (<b>c</b>) HE [<a href="#B47-jmse-12-01790" class="html-bibr">47</a>], (<b>d</b>) CLAHE [<a href="#B11-jmse-12-01790" class="html-bibr">11</a>], (<b>e</b>) LRS [<a href="#B48-jmse-12-01790" class="html-bibr">48</a>], (<b>f</b>) FUnIE-GAN [<a href="#B3-jmse-12-01790" class="html-bibr">3</a>], (<b>g</b>) U-shape [<a href="#B41-jmse-12-01790" class="html-bibr">41</a>], (<b>h</b>) Semi-UIR [<a href="#B49-jmse-12-01790" class="html-bibr">49</a>] and (<b>i</b>) our method.</p>
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12 pages, 2389 KiB  
Article
Scan-Rate-Dependent Ion Current Rectification in Bipolar Interfacial Nanopores
by Xiaoling Zhang, Yunjiao Wang, Jiahui Zheng, Chen Yang and Deqiang Wang
Micromachines 2024, 15(9), 1176; https://doi.org/10.3390/mi15091176 - 23 Sep 2024
Viewed by 902
Abstract
This study presents a theoretical investigation into the voltammetric behavior of bipolar interfacial nanopores due to the effect of potential scan rate (1–1000 V/s). Finite element method (FEM) is utilized to explore the current–voltage (I–V) properties of bipolar interfacial nanopores at different bulk [...] Read more.
This study presents a theoretical investigation into the voltammetric behavior of bipolar interfacial nanopores due to the effect of potential scan rate (1–1000 V/s). Finite element method (FEM) is utilized to explore the current–voltage (I–V) properties of bipolar interfacial nanopores at different bulk salt concentrations. The results demonstrate a strong impact of the scan rate on the I–V response of bipolar interfacial nanopores, particularly at relatively low concentrations. Hysteresis loops are observed in bipolar interfacial nanopores under specific scan rates and potential ranges and divided by a cross-point potential that remains unaffected by the scan rate employed. This indicates that the current in bipolar interfacial nanopores is not just reliant on the bias potential that is imposed but also on the previous conditions within the nanopore, exhibiting history-dependent or memory effects. This scan-rate-dependent current–voltage response is found to be significantly influenced by the length of the nanopore (membrane thickness). Thicker membranes exhibit a more pronounced scan-rate-dependent phenomenon, as the mass transfer of ionic species is slower relative to the potential scan rate. Additionally, unlike conventional bipolar nanopores, the ion current passing through bipolar interfacial nanopores is minimally affected by the membrane thickness, making it easier to detect. Full article
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<p>Illustration of the bipolar interfacial nanopore: (<b>a</b>) The structure of the interfacial nanopore. Two nanochannels with length <span class="html-italic">L</span><sub>n</sub>, width <span class="html-italic">W</span><sub>n</sub>, and height <span class="html-italic">H</span><sub>n</sub> form an interfacial nanopore. (<b>b</b>) Simulation domain. The gray parts represent the two reservoirs, the blue part represents the lower half of the bipolar interfacial nanopore, and the green part represents the upper half of the bipolar interfacial nanopore.</p>
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<p>I–V responses as the scan rates change from 1 V/s to 1000 V/s when <span class="html-italic">C</span><sub>KCl</sub> = 0.5 mM. The forward (backward) direction of the potential scan is shown by the black (red) arrows. The current is indicated by the cyan arrows with an increasing scan rate.</p>
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<p>Ionic conductivity distributions, <span class="html-italic">σ</span>, along the <span class="html-italic">z</span>-axis of the bipolar interfacial nanopore at scan rates of 1 V/s (<b>a</b>) and 1000 V/s (<b>b</b>) at potential bias values Δ<span class="html-italic">ϕ</span> of forward −0.3 V (solid lines), forward 0.3 V (dashed lines), backward 0.3 V (dotted lines), and backward −0.3 V (dash-dotted lines). The cyan part represents the negatively charged nanochannel, and the green part represents the positively charged nanochannel. “F” and “B” represent forward and backward.</p>
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<p>I–V response through the interfacial nanopores at a scan rate of 1000 V/s when half of the membrane thickness (height of the nanochannel) is varied from 50 nm to 800 nm. <span class="html-italic">C</span><sub>KCl</sub> = 0.5 mM.</p>
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<p>I–V responses at a high scan rate (1000 V/s) and different salt concentrations: (<b>a</b>) 0.005 mM (solid black line), 0.05 mM (dashed pink line), and 0.5 mM (dotted purple line) and (<b>b</b>) 5 mM (solid brown line) and 50 mM (dashed green line).</p>
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<p>I–V response through the bipolar square nanopores when half of the membrane thickness is varied from 50 nm to 800 nm. The bipolar square nanopore and the interface of the interfacial nanopore have the same cross-sectional area. <span class="html-italic">C</span><sub>KCl</sub> = 0.5 mM.</p>
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14 pages, 2995 KiB  
Article
Comparison of Multiple Carbapenemase Tests Based on an Unbiased Colony-Selection Method
by Hsin-Yao Wang, Yi-Ju Tseng, Wan-Ying Lin, Yu-Chiang Wang, Ting-Wei Lin, Jen-Fu Hsu, Marie Yung-Chen Wu, Chiu-Hsiang Wu, Sriram Kalpana and Jang-Jih Lu
Biomedicines 2024, 12(9), 2134; https://doi.org/10.3390/biomedicines12092134 - 20 Sep 2024
Viewed by 1049
Abstract
Carbapenemase-producing organisms (CPOs) present a major threat to public health, demanding precise diagnostic techniques for their detection. Discrepancies among the CPO tests have raised concerns, partly due to limitations in detecting bacterial diversity within host specimens. We explored the impact of an unbiased [...] Read more.
Carbapenemase-producing organisms (CPOs) present a major threat to public health, demanding precise diagnostic techniques for their detection. Discrepancies among the CPO tests have raised concerns, partly due to limitations in detecting bacterial diversity within host specimens. We explored the impact of an unbiased colony selection on carbapenemase testing and assessed its relevance to various tests. Using the FirstAll method for unbiased colony selection to reduce bias, we compared the results from different methods, namely the modified carbapenem inactivation method/EDTA-modified carbapenem inactivation method (mCIM/eCIM), the Carba5, the CPO panel, and the multiplex PCR (MPCR). We compared the FirstAll method to the conventional colony selection for MPCR with seven CPO species. In addition, we evaluated the test performance on seven CPO species using MPCR as a reference and the FirstAll method as the colony-selection method. The results revealed that the selections from the FirstAll method have improved rates of carbapenemase detection, in comparison to approximately 11.2% of the CPO isolates that were noted to be false negatives in the conventional colony-selection methods. Both the Carba5 test and the CPO panel showed suboptimal performance (sensitivity/specificity: Carba5 74.6%/89.5%, CPO panel 77.2%/74.4%) in comparison to the FirstAll method. The Carba5 test provided specific carbapenemase class assignments, but the CPO panel failed in 18.7% of the cases. The Carba5 test and the CPO panel results correlated well with ceftazidime–avibactam minimal inhibitory concentrations (MICs). The concordance for Class A/D with MICs was 94.7% for Carba5 and 92.7% for the CPO panel; whereas for Class B, it was 86.5% for Carba5 and 75.9% for the CPO panel. In conclusion, FirstAll, as the unbiased colony-selection method, was shown to impact carbapenemase testing. With FirstAll, the diagnostic performance of both the Carba5 and the CPO panel was found to be lower. Furthermore, the utilization of ceftazidime–avibactam guided by either the CPO panel or Carba5 was appropriate. Full article
(This article belongs to the Section Microbiology in Human Health and Disease)
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<p>(<b>A</b>) <b>Schematic illustration of FirstAll method for unbiased colony selection.</b> We propose the FirstAll method to increase bacterial diversity and avoid selection bias prior to analyses. In the FirstAll method, we scratch on the agar with a direction vertical to the streaking of the first streak area. By contrast, only several single colonies are picked up for the conventional method. (<b>B</b>) <b>Illustrative figure of the study.</b> There are three stages in the study: (1) comparison between FirstAll and single colony-collection method by using MPCR; (2) comparisons between different carbapenemase tests based on FirstAll; (3) association between carbapenemase tests and MICs of ceftazidime–avibactam.</p>
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<p>(<b>A</b>) <b>Schematic illustration of FirstAll method for unbiased colony selection.</b> We propose the FirstAll method to increase bacterial diversity and avoid selection bias prior to analyses. In the FirstAll method, we scratch on the agar with a direction vertical to the streaking of the first streak area. By contrast, only several single colonies are picked up for the conventional method. (<b>B</b>) <b>Illustrative figure of the study.</b> There are three stages in the study: (1) comparison between FirstAll and single colony-collection method by using MPCR; (2) comparisons between different carbapenemase tests based on FirstAll; (3) association between carbapenemase tests and MICs of ceftazidime–avibactam.</p>
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<p><b>Comparison between FirstAll and conventional colony-selection methods.</b> Most of the CPO isolates show concordant MPCR results with both the FirstAll and conventional colony-selection methods. Of note, 53 out of 475 isolates reveal MPCR as positive for the FirstAll method but negative for the conventional method, indicating FirstAll would be an unbiased colony-selection method.</p>
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<p><b>Comparison between CPO panel and mCIM/eCIM.</b> General categorical agreements between the CPO panel and mCIM/eCIM can be found along the diagonal lines except in K. pneumoniae. The CPO panel can detect the existence of carbapenemase in K. pneumoniae, but the class cannot be determined. Specifically, around half of K. pneumoniae isolates (42/87) with mCIM(+)/eCIM(−) (i.e., regarded as Class A/D carbapenemase) are categorized as “Class Unknown”; 27 out of 57 K. pneumoniae isolates with mCIM(+)/eCIM(+) (i.e., regarded as Class B carbapenemase) are categorized as “Class Unknown”.</p>
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<p>(<b>A</b>) <b>Comparison between CPO panel and MPCR.</b> The CPO panel and MPCR results are generally in agreement except for the “Class Unknown” of the CPO panel. The “Class Unknown” accounts for 18.7% [89/475] of all the isolates. The overall sensitivity and specificity are 77.2% [234/303] and 74.4% [128/172], respectively. (<b>B</b>) <b>Comparison between Carba5 and MPCR.</b> The agreement in results between Carba5 and MPCR is high for all the categories. The overall sensitivity and specificity are 74.6% [226/303] and 89.5% [154/172], respectively.</p>
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<p>(<b>A</b>) <b>Comparison between CPO panel and Carba5.</b> The agreement between the two methods is generally congruent for the “Class A or D” and “Negative” categories, but the agreement is lower for the “Class B” category. Moreover, for the isolates that were read as positive by the CPO panel, 34.25% (100/292) of those are positive for carbapenemase but class unknown. (<b>B</b>) <b>Comparison between CPO panel and Carba5 on the MPCR-positive strains</b>.</p>
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<p>(<b>A</b>) MICs of ceftazidime–avibactam in different classes of the CPO panel. (<b>B</b>) MICs of ceftazidime–avibactam in different classes of the Carba5.</p>
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<p>(<b>A</b>) MICs of ceftazidime–avibactam in different classes of the CPO panel. (<b>B</b>) MICs of ceftazidime–avibactam in different classes of the Carba5.</p>
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26 pages, 8282 KiB  
Article
Advanced Fault Detection in Power Transformers Using Improved Wavelet Analysis and LSTM Networks Considering Current Transformer Saturation and Uncertainties
by Qusay Alhamd, Mohsen Saniei, Seyyed Ghodratollah Seifossadat and Elaheh Mashhour
Algorithms 2024, 17(9), 397; https://doi.org/10.3390/a17090397 - 6 Sep 2024
Viewed by 905
Abstract
Power transformers are vital and costly components in power systems, essential for ensuring a reliable and uninterrupted supply of electrical energy. Their protection is crucial for improving reliability, maintaining network stability, and minimizing operational costs. Previous studies have introduced differential protection schemes with [...] Read more.
Power transformers are vital and costly components in power systems, essential for ensuring a reliable and uninterrupted supply of electrical energy. Their protection is crucial for improving reliability, maintaining network stability, and minimizing operational costs. Previous studies have introduced differential protection schemes with harmonic restraint to detect internal transformer faults. However, these schemes often struggle with computational inaccuracies in fault detection due to neglecting current transformer (CT) saturation and associated uncertainties. CT saturation during internal faults can produce even harmonics, disrupting relay operations. Additionally, CT saturation during transformer energization can introduce a DC component, leading to incorrect relay activation. This paper introduces a novel feature extracted through advanced wavelet transform analysis of differential current. This feature, combined with differential current amplitude and bias current, is used to train a deep learning system based on long short-term memory (LSTM) networks. By accounting for existing uncertainties, this system accurately identifies internal transformer faults under various CT saturation and measurement uncertainty conditions. Test and validation results demonstrate the proposed method’s effectiveness and superiority in detecting internal faults in power transformers, even in the presence of CT saturation, outperforming other recent modern techniques. Full article
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<p>Conceptual Model of Proposed Scheme for Real-time internal fault detection of power transformer.</p>
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<p>Schematic of differential current measurement in a power transformer.</p>
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<p>Procedure stage of three decomposition levels of DWT.</p>
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<p>General Structure for Training a Deep Neural Network (RNN).</p>
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<p>An illustration of a basic RNN unit schematic.</p>
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<p>Schematic diagram of the power system with the transformer under study.</p>
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<p>Differential current signal of the power transformer during inrush current under CT saturation condition.</p>
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<p>Differential current signal of the power transformer during an internal fault without CT saturation effect.</p>
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<p>Differential current signal of the power transformer during an internal fault under CT saturation condition.</p>
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<p>Differential current signal of the power transformer during an external fault under CT saturation condition.</p>
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<p>Various levels of detail coefficients for the differential current signal of a power transformer during inrush current under CT saturation condition.</p>
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<p>Various levels of detail coefficients for the differential current signal of a power transformer during an internal fault without CT saturation condition.</p>
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<p>Various levels of detail coefficients for the differential current signal of a power transformer during an internal fault under CT saturation condition.</p>
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<p>Various levels of detail coefficients for the differential current signal of a power transformer during an external fault under CT saturation condition.</p>
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<p>(<b>a</b>,<b>b</b>): RMSE and loss function of the predicted values along with the proportion of predictions at each training iteration of the LSTM network.</p>
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<p>RMSE analysis of a noisy signal test on a power transformer during inrush current under CT saturation condition.</p>
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<p>RMSE analysis of a noisy signal test on a power transformer during an external fault under CT saturation condition.</p>
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<p>RMSE analysis of a noisy signal test on a power transformer during an internal fault without CT saturation effect.</p>
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<p>RMSE analysis of a noisy signal test on a power transformer during an internal fault under CT saturation condition.</p>
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14 pages, 1148 KiB  
Article
Reliability and Validity of the Turkish Version of the Gross Motor Function Measurement (GMFM-88&66) in Children with Cerebral Palsy
by Tuğçe Ataç, Cemil Özal and Mintaze Kerem Günel
Children 2024, 11(9), 1076; https://doi.org/10.3390/children11091076 - 2 Sep 2024
Viewed by 1103
Abstract
Background: The gross motor function measurement is considered as the gold standard for the motor assessment of children with cerebral palsy. The aim was to carry out the cross-cultural adaptation and investigate psychometric properties. Methods: A total of 150 children with cerebral palsy [...] Read more.
Background: The gross motor function measurement is considered as the gold standard for the motor assessment of children with cerebral palsy. The aim was to carry out the cross-cultural adaptation and investigate psychometric properties. Methods: A total of 150 children with cerebral palsy aged 2–16 (mean 8.82 ± 3.78 years; 54.7% male) included. The Gross Motor Function Measurement was adapted into Turkish. Two physiotherapies independently administered the gross motor function measurement. Internal consistency and intra/inter-rater reliability were assessed using Cronbach’s alpha, intraclass-correlation-coefficient. Standard-error-of-measurement, minimal-detectible-change calculated. The Bland–Altman method was applied to estimate the measurement bias in reliability analysis. Construct validity assessed with Spearman’s correlation coefficient between the gross motor function measurement and the gross motor function classification system, pediatric-evaluation-of-disability-inventory—mobility; confirmatory-factor-analysis was carried. Results: Internal-consistency (α: 0.997–1.00); reliability indices were excellent for total scale (intraclass-correlation-coefficient for intra-rater reliability 0.994–0.999, inter-rater reliability 0.997–0.999) and for each sub-dimension and total score. Standard-error-of-measurement was ranging 1.044–1.677, minimal-detectible-change was 2.435–5.520. Construct validity was supported by strong to excellent negative significant correlations (p < 0.05). Full article
(This article belongs to the Section Pediatric Neurology & Neurodevelopmental Disorders)
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<p>Bland–Altman Graphic for measurement bias to reliability analysis. Legand: ____: The mean value of the difference between two measurements; ------: 95% confidence interval upper bound; – - – - – -: 95% confidence interval lower bound.</p>
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<p>Path diagram of factor analysis.</p>
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20 pages, 31921 KiB  
Article
High-Precision Mango Orchard Mapping Using a Deep Learning Pipeline Leveraging Object Detection and Segmentation
by Muhammad Munir Afsar, Asim Dilawar Bakhshi, Muhammad Shahid Iqbal, Ejaz Hussain and Javed Iqbal
Remote Sens. 2024, 16(17), 3207; https://doi.org/10.3390/rs16173207 - 30 Aug 2024
Viewed by 1390
Abstract
Precision agriculture-based orchard management relies heavily on the accurate delineation of tree canopies, especially for high-value crops like mangoes. Traditional GIS and remote sensing methods, such as Object-Based Imagery Analysis (OBIA), often face challenges due to overlapping canopies, complex tree structures, and varied [...] Read more.
Precision agriculture-based orchard management relies heavily on the accurate delineation of tree canopies, especially for high-value crops like mangoes. Traditional GIS and remote sensing methods, such as Object-Based Imagery Analysis (OBIA), often face challenges due to overlapping canopies, complex tree structures, and varied light conditions. This study aims to enhance the accuracy of mango orchard mapping by developing a novel deep-learning approach that combines fine-tuned object detection and segmentation techniques. UAV imagery was collected over a 65-acre mango orchard in Multan, Pakistan, and processed into an RGB orthomosaic with a 3 cm ground sampling distance. The You Only Look Once (YOLOv7) framework was trained on an annotated dataset to detect individual mango trees. The resultant bounding boxes were used as prompts for the segment anything model (SAM) for precise delineation of canopy boundaries. Validation against ground truth data of 175 manually digitized trees showed a strong correlation (R2 = 0.97), indicating high accuracy and minimal bias. The proposed method achieved a mean absolute percentage error (MAPE) of 4.94% and root mean square error (RMSE) of 80.23 sq ft against manually digitized tree canopies with an average size of 1290.14 sq ft. The proposed approach effectively addresses common issues such as inaccurate bounding boxes and over- or under-segmentation of tree canopies. The enhanced accuracy can substantially assist in various downstream tasks such as tree location mapping, canopy volume estimation, health monitoring, and crop yield estimation. Full article
(This article belongs to the Special Issue Application of Satellite and UAV Data in Precision Agriculture)
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<p>Workflow of the proposed methodology, including geospatial data collection, preprocessing, and deep learning for canopy detection and segmentation, followed by operational optimization and georeferencing.</p>
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<p>Geographical location and detailed view of the chosen orchard site near Multan, Pakistan; (<b>Left</b>): regional context, with the orchard’s location marked in red boxes, (<b>Right</b>): high-resolution satellite image of Orchard 1 outlined by a green boundary.</p>
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<p>(<b>Left</b>): Flight path of DJI Mavic 3M. Every red dot presents where the UAV took an image. (<b>Right</b>): Perspective view during initial bundle adjustment and point cloud generation in Pix4D 2.0. Blue dots present the position where the UAV took an image, while green lines indicate the projected view of each photo on the ground.</p>
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<p>Composite image annotation aimed to enclose each of the 1871 mango tree canopies in a bounding box.</p>
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<p>Overview of the YOLOv7 model training process for mango tree canopy detection. (<b>a</b>) Training and validation loss trends, showing the convergence and generalization capabilities, (<b>b</b>) precision, recall, and F1 score trends over the training cycle to reflect, (<b>c</b>) Mean Average Precision (mAP) at IoU thresholds of 0.5 and 0.5:0.95, indicating the model’s detection performance across varying overlap levels, and (<b>d</b>) accuracy trend, calculated as the average of precision and recall, demonstrating the overall performance improvement of the model during training.</p>
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<p>Segmentation output of SAM; each segmented tree is shown with a different-colored segmentation mask.</p>
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<p>Green areas are manually digitized canopies and red dots are the center points of the canopy mass; a patch is zoomed in on to show how the manually traced edges are validated against the output of pre-trained SAM.</p>
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<p>A comprehensive validation of tree canopy detection and segmentation results using the proposed automated pipeline. (<b>a</b>) Regression Analysis: Scatter plot depicting the relationship between manually digitized canopy areas (<math display="inline"><semantics> <msub> <mi>A</mi> <mi>manual</mi> </msub> </semantics></math>) and automatically delineated canopy areas (<math display="inline"><semantics> <msub> <mi>A</mi> <mi>auto</mi> </msub> </semantics></math>). (<b>b</b>) Bland Altman Plot: Scatter plot showing the mean of <math display="inline"><semantics> <msub> <mi>A</mi> <mi>manual</mi> </msub> </semantics></math> and <math display="inline"><semantics> <msub> <mi>A</mi> <mi>auto</mi> </msub> </semantics></math> on the x-axis and the difference (<math display="inline"><semantics> <mrow> <msub> <mi>A</mi> <mi>manual</mi> </msub> <mo>−</mo> <msub> <mi>A</mi> <mi>auto</mi> </msub> </mrow> </semantics></math>) on the y-axis. (<b>c</b>) Histogram of Differences: Histogram illustrating the distribution of differences between <math display="inline"><semantics> <msub> <mi>A</mi> <mi>manual</mi> </msub> </semantics></math> and <math display="inline"><semantics> <msub> <mi>A</mi> <mi>auto</mi> </msub> </semantics></math>. (<b>d</b>) Error Distribution (Box Plot): Box plot summarizing the errors between <math display="inline"><semantics> <msub> <mi>A</mi> <mi>manual</mi> </msub> </semantics></math> and <math display="inline"><semantics> <msub> <mi>A</mi> <mi>auto</mi> </msub> </semantics></math>.</p>
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<p>Canopy height and volume derived from DSM based on photogrammetric 3D point cloud and accurate canopy delineation through the proposed framework. (<b>a</b>) Height of canopies (green to red). (<b>b</b>) Height of canopy (in meters). (<b>c</b>) The highest point of the canopy. (<b>d</b>) Canopy volume using DSM (red to green).</p>
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<p>Canopy height and volume derived from DSM based on photogrammetric 3D point cloud and accurate canopy delineation through the proposed framework. (<b>a</b>) Height of canopies (green to red). (<b>b</b>) Height of canopy (in meters). (<b>c</b>) The highest point of the canopy. (<b>d</b>) Canopy volume using DSM (red to green).</p>
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<p>Mango tree health estimation based on vegetation indices derived from multispectral UAV imagery and accurate canopy delineation through the proposed framework. (<b>a</b>) Mean NDVI (brown to green). (<b>b</b>) Mean NDRE (brown to green).</p>
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18 pages, 1709 KiB  
Article
Quantifying Lumbar Foraminal Volumetric Dimensions: Normative Data and Implications for Stenosis—Part 2 of a Comprehensive Series
by Renat Nurmukhametov, Manuel De Jesus Encarnacion Ramirez, Medet Dosanov, Abakirov Medetbek, Stepan Kudryakov, Laith Wisam Alsaed, Gennady Chmutin, Gervith Reyes Soto, Jeff Ntalaja Mukengeshay, Tshiunza Mpoyi Chérubin, Vladimir Nikolenko, Artem Gushcha, Sabino Luzzi, Andreina Rosario Rosario, Carlos Salvador Ovalle, Katherine Valenzuela Mateo, Jesus Lafuente Baraza, Juan Carlos Roa Montes de Oca, Carlos Castillo Rangel and Salman Sharif
Med. Sci. 2024, 12(3), 34; https://doi.org/10.3390/medsci12030034 - 22 Jul 2024
Cited by 2 | Viewed by 1470
Abstract
Introduction: Lumbar foraminal stenosis (LFS) occurs primarily due to degenerative changes in older adults, affecting the spinal foramina and leading to nerve compression. Characterized by pain, numbness, and muscle weakness, LFS arises from structural changes in discs, joints, and ligaments, further complicated by [...] Read more.
Introduction: Lumbar foraminal stenosis (LFS) occurs primarily due to degenerative changes in older adults, affecting the spinal foramina and leading to nerve compression. Characterized by pain, numbness, and muscle weakness, LFS arises from structural changes in discs, joints, and ligaments, further complicated by factors like inflammation and spondylolisthesis. Diagnosis combines patient history, physical examination, and imaging, while management ranges from conservative treatment to surgical intervention, underscoring the need for a tailored approach. Materials and Methods: This multicenter study, conducted over six years at a tertiary hospital, analyzed the volumetric dimensions of lumbar foramina and their correlation with nerve structures in 500 patients without lumbar pathology. Utilizing high-resolution MRI with a standardized imaging protocol, eight experienced researchers independently reviewed the images for accurate measurements. The study emphasized quality control through the calibration of measurement tools, double data entry, validation checks, and comprehensive training for researchers. To ensure reliability, interobserver and intraobserver agreements were analyzed, with statistical significance determined by kappa statistics and the Student’s t-test. Efforts to minimize bias included blinding observers to patient information and employing broad inclusion criteria to mitigate referral and selection biases. The methodology and findings aim to enhance the understanding of normal lumbar foramina anatomy and its implications for diagnosing and treating lumbar conditions. Results: The study’s volumetric analysis of lumbar foramina in 500 patients showed a progressive increase in foraminal volume from the L1/L2 to the L5/S1 levels, with significant enlargement at L5/S1 indicating anatomical and biomechanical complexity in the lumbar spine. Lateral asymmetry suggested further exploration. High interobserver and intraobserver agreement levels (ICC values of 0.91 and 0.95, respectively) demonstrated the reliability and reproducibility of measurements. The patient cohort comprised 58% males and 42% females, highlighting a balanced gender distribution. These findings underscore the importance of understanding foraminal volume variations for lumbar spinal health and pathology. Conclusion: Our study significantly advances spinal research by quantifying lumbar foraminal volumes, revealing a clear increase from the L1/L2 to the L5/S1 levels, indicative of the spine’s adaptation to biomechanical stresses. This provides clinicians with a precise tool to differentiate between pathological narrowing and normal variations, enhancing the detection and treatment of lumbar foraminal stenosis. Despite limitations like its cross-sectional design, the strong agreement in measurements underscores the method’s reliability, encouraging future research to further explore these findings’ clinical implications. Full article
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<p>Measurements of magnetic resonance imaging parameters: sagittal view. the measurements lines of major longitudinal and shortest distance perpendicular minor size of formanen.</p>
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<p>Measurements of deep of foramen in axial view magnetic resonance imaging parameters .measure the distance from the anterior boundary (vertebral body or intervertebral disc) to the posterior boundary (ligamentum flavum or facet joint) of the foramen.</p>
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<p>Lateral anatomical view of lumbar foraminal space. A; anterior limit of foramen, B: posterior limit of foramen, C: area total of foramen including the superior and inferior limits.</p>
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<p>Axial view of lumbar foraminal space. A: anterior limit of foramen, B: posterior limit of foramen, C: Intraforaminal, D: foraminal, E: extraforaminal.</p>
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10 pages, 1063 KiB  
Systematic Review
Saliva-Based Biomarkers in Oral Squamous Cell Carcinoma Using OMICS Technologies: A Systematic Review
by Fariba Esperouz, Domenico Ciavarella, Andrea Santarelli, Mauro Lorusso, Lorenzo Lo Muzio, Luigi Laino and Lucio Lo Russo
Oral 2024, 4(3), 293-302; https://doi.org/10.3390/oral4030024 - 2 Jul 2024
Viewed by 1386
Abstract
(1) Background: Head and neck cancer (HNC) is a major public health challenge worldwide, with oral squamous cell carcinoma (OSCC) being the predominant form. Despite advances in treatment, OSCC remains a major cause of morbidity and mortality due to delayed diagnosis and limited [...] Read more.
(1) Background: Head and neck cancer (HNC) is a major public health challenge worldwide, with oral squamous cell carcinoma (OSCC) being the predominant form. Despite advances in treatment, OSCC remains a major cause of morbidity and mortality due to delayed diagnosis and limited therapeutic efficacy. This study reviews omics technologies to assess new salivary biomarkers for the early detection of OSCC. (2) Methods: A comprehensive literature search in the last 20 years identified four relevant studies focusing on salivary biomarkers in OSCC. (3) Results: Proteomic and genomic analyses revealed significant changes in salivary composition between OSCC patients and healthy controls, suggesting promising diagnostic and prognostic biomarkers. However, studies showed varying degrees of bias, indicating the need for further research and improved standardization. (4) Conclusions: Saliva, with its advantages of ease of collection, minimal invasiveness, and potential for large-scale screening, is an emerging promising substrate for non-invasive biomarker research. Nonetheless, there is a need for improved biomarker sensitivity and specificity; currently, histological examination remains the golden standard. Full article
(This article belongs to the Special Issue Molecular Pathobiology, Diagnosis and Therapeutics in Oral Cancer)
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<p>Flowchart of study selection process.</p>
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<p>The proportion of the studies of this review with a low, moderate, or high risk of bias across the different considered domains of the SIGN methodology checklist.</p>
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11 pages, 1750 KiB  
Article
Agreement between Vital Signs Measured Using Mat-Type Noncontact Sensors and Those from Conventional Clinical Assessment
by Daiki Shimotori, Eri Otaka, Kenji Sato, Munetaka Takasugi, Nobuyoshi Yamakawa, Atsuya Shimizu, Hitoshi Kagaya and Izumi Kondo
Healthcare 2024, 12(12), 1193; https://doi.org/10.3390/healthcare12121193 - 13 Jun 2024
Viewed by 1052
Abstract
Vital signs are crucial for assessing the condition of a patient and detecting early symptom deterioration. Noncontact sensor technology has been developed to take vital measurements with minimal burden. This study evaluated the accuracy of a mat-type noncontact sensor in measuring respiratory and [...] Read more.
Vital signs are crucial for assessing the condition of a patient and detecting early symptom deterioration. Noncontact sensor technology has been developed to take vital measurements with minimal burden. This study evaluated the accuracy of a mat-type noncontact sensor in measuring respiratory and pulse rates in patients with cardiovascular diseases compared to conventional methods. Forty-eight hospitalized patients were included; a mat-type sensor was used to measure their respiratory and pulse rates during bed rest. Differences between mat-type sensors and conventional methods were assessed using the Bland–Altman analysis. The mean difference in respiratory rate was 1.9 breaths/min (limits of agreement (LOA): −4.5 to 8.3 breaths/min), and proportional bias existed with significance (r = 0.63, p < 0.05). For pulse rate, the mean difference was −2.0 beats/min (LOA: −23.0 to 19.0 beats/min) when compared to blood pressure devices and 0.01 beats/min (LOA: −11.4 to 11.4 beats/min) when compared to 24-h Holter electrocardiography. The proportional bias was significant for both comparisons (r = 0.49, p < 0.05; r = 0.52, p < 0.05). These were considered clinically acceptable because there was no tendency to misjudge abnormal values as normal. The mat-type noncontact sensor demonstrated sufficient accuracy to serve as an alternative to conventional assessments, providing long-term monitoring of vital signs in clinical settings. Full article
(This article belongs to the Special Issue Telehealth and Remote Patient Monitoring)
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<p>Mat-type sensor and placement methods. (<b>a</b>) The mat-type sensor (Techno Horizon Co., Ltd.) used in this study; (<b>b</b>) The mat-type sensor was placed under the mattress at chest level to measure pulse and respiratory rates during sleep.</p>
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<p>Comparison between the mat-type sensor and visual inspection (n = 48, number of datasets = 96). (<b>a</b>) Bland–Altman Plot of differences in respiratory rate measurements (visual inspection minus mat-type sensor). The dotted line indicates the mean difference. Dashed lines indicate the upper and lower limits of agreement (mean ± 1.96 standard deviations). The solid line represents the regression line. (<b>b</b>) Correlation plot of respiratory rate measurements between the mat-type sensor and visual inspection. Orange squares represent participants with arrhythmia, while blue crosses represent those without arrhythmia.</p>
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<p>Pulse rate comparison between the mat-type sensor and the automated BP device (n = 48, number of datasets = 96). (<b>a</b>) Bland–Altman Plot of differences in pulse rate measurements (automatic BP device minus mat-type sensor). The dotted line indicates the mean difference. Dashed lines indicate the upper and lower limits of agreement (mean ± 1.96 standard deviations). The solid line represents the regression line. (<b>b</b>) Correlation plot of pulse rate measurements between the mat-type sensor and the automatic BP device. Orange squares represent participants with arrhythmia, while blue crosses represent those without arrhythmia.</p>
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<p>Pulse rate comparison between the mat-type sensor and 24 h Holter ECG (n = 29, number of datasets = 365). (<b>a</b>) Bland–Altman Plot of differences in pulse rate measurements (24 h Holter ECG minus mat-type Sensor). The dotted line indicates the mean difference. Dashed lines indicate the upper and lower limits of agreement (mean ± 1.96 standard deviations). The solid line represents the regression line. (<b>b</b>) Correlation plot of pulse rate measurements between the mat-type sensor and 24 h Holter ECG. Orange squares represent participants with arrhythmia, while blue crosses represent those without arrhythmia.</p>
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25 pages, 752 KiB  
Article
A Machine Learning-Based Framework with Enhanced Feature Selection and Resampling for Improved Intrusion Detection
by Fazila Malik, Qazi Waqas Khan, Atif Rizwan, Rana Alnashwan and Ghada Atteia
Mathematics 2024, 12(12), 1799; https://doi.org/10.3390/math12121799 - 9 Jun 2024
Cited by 1 | Viewed by 1230
Abstract
Intrusion Detection Systems (IDSs) play a crucial role in safeguarding network infrastructures from cyber threats and ensuring the integrity of highly sensitive data. Conventional IDS technologies, although successful in achieving high levels of accuracy, frequently encounter substantial model bias. This bias is primarily [...] Read more.
Intrusion Detection Systems (IDSs) play a crucial role in safeguarding network infrastructures from cyber threats and ensuring the integrity of highly sensitive data. Conventional IDS technologies, although successful in achieving high levels of accuracy, frequently encounter substantial model bias. This bias is primarily caused by imbalances in the data and the lack of relevance of certain features. This study aims to tackle these challenges by proposing an advanced machine learning (ML) based IDS that minimizes misclassification errors and corrects model bias. As a result, the predictive accuracy and generalizability of the IDS are significantly improved. The proposed system employs advanced feature selection techniques, such as Recursive Feature Elimination (RFE), sequential feature selection (SFS), and statistical feature selection, to refine the input feature set and minimize the impact of non-predictive attributes. In addition, this work incorporates data resampling methods such as Synthetic Minority Oversampling Technique and Edited Nearest Neighbor (SMOTE_ENN), Adaptive Synthetic Sampling (ADASYN), and Synthetic Minority Oversampling Technique–Tomek Links (SMOTE_Tomek) to address class imbalance and improve the accuracy of the model. The experimental results indicate that our proposed model, especially when utilizing the random forest (RF) algorithm, surpasses existing models regarding accuracy, precision, recall, and F Score across different data resampling methods. Using the ADASYN resampling method, the RF model achieves an accuracy of 99.9985% for botnet attacks and 99.9777% for Man-in-the-Middle (MITM) attacks, demonstrating the effectiveness of our approach in dealing with imbalanced data distributions. This research not only improves the abilities of IDS to identify botnet and MITM attacks but also provides a scalable and efficient solution that can be used in other areas where data imbalance is a recurring problem. This work has implications beyond IDS, offering valuable insights into using ML techniques in complex real-world scenarios. Full article
(This article belongs to the Special Issue Artificial Intelligence and Data Science)
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<p>Architecture diagram of proposed ML-based intrusion detection system.</p>
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<p>Distribution of a WUSTL dataset’s class label.</p>
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<p>Distribution of a UNSW 2018 dataset’s class label.</p>
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<p>Architecture diagram of DAE and PCA feature’s fusion.</p>
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<p>F score performance of ML models by feature selection and resampling methods in botnet attack classification.</p>
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<p>Confusion metrics of RF model using different feature selection method for botnet attack classification. (<b>a</b>) Confusion metrics of RF model using fused features with ADASYN resampling. (<b>b</b>) Confusion metrics of RF model using the RFF feature selection method with SMOTE_ENN resampling. (<b>c</b>) Confusion metrics of RF model using SFS feature selection method with ADASYN resampling. (<b>d</b>) Confusion metrics of RF model using statistical feature selection method with ADASYN resampling.</p>
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<p>F score performance of ML models by feature selection and resampling methods in MITM attack classification.</p>
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<p>Confusion metrics of RF model using different feature selection method for MITM attack classification. (<b>a</b>) Confusion metrics of RF model using fused features. (<b>b</b>) Confusion metrics of RF model using the RFF feature selection method. (<b>c</b>) Confusion metrics of RF model using SFS feature selection method. (<b>d</b>) Confusion metrics of RF model using statistical feature selection method.</p>
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10 pages, 1301 KiB  
Article
Test–Retest Reliability of a Motorized Resistance Device for Measuring Throwing Performance in Volleyball Athletes
by Eleftherios Paraskevopoulos, Anna Christakou, George Plakoutsis, George M. Pamboris and Maria Papandreou
Biomechanics 2024, 4(2), 259-268; https://doi.org/10.3390/biomechanics4020015 - 28 Apr 2024
Cited by 1 | Viewed by 929
Abstract
Throwing performance is a critical aspect of sports, particularly in overhead activities, necessitating reliable assessment methods. This study explores the test–retest reliability of throwing performance metrics measured by the 1080 Sprint, a robotic device integrating linear position technology and an electric motor. Specifically [...] Read more.
Throwing performance is a critical aspect of sports, particularly in overhead activities, necessitating reliable assessment methods. This study explores the test–retest reliability of throwing performance metrics measured by the 1080 Sprint, a robotic device integrating linear position technology and an electric motor. Specifically focusing on professional volleyball athletes with scapular dyskinesis, the study draws data from a previously published investigation on the impact of mirror cross exercise. Thirty-nine athletes were recruited, aged 21.9 ± 3.6 years, height 1.79 ± 0.3 m weight 68.5 ± 19.8 kg, and body mass index 21.3 ± 3.2 kg/m2, meeting stringent inclusion criteria. One-sample t-tests indicated no statistically significant differences between test–retest trials. The study revealed excellent reliability of the 1080 Sprint, with intraclass correlation coefficient (ICC) values exceeding 0.99 for all metrics, including speed, force, and power. The standard error of measurement (SEM) calculation revealed that the Sprint 1080 motorized resistance device demonstrates high precision in measuring throwing performance. Bland and Altman plots indicated minimal systematic bias across all metrics, encompassing speed, force, and power. The provision of the minimum detectable change (MDC) for each variable of the Sprint 1080 motorized resistance device offers coaches a valuable tool to identify performance improvements in volleyball athletes. In conclusion, the present study shows that the 1080 Sprint is valid and reliable for measuring throwing performance in volleyball athletes for monitoring purposes. Full article
(This article belongs to the Section Sports Biomechanics)
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<p>Throwing performance trial.</p>
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<p>Bland–Altman plots of test–retest for speed. <span class="html-italic">Black line</span>: Mean difference between test and retest scores. <span class="html-italic">Red lines</span>: 95% limits of agreement (upper and lower limits).</p>
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<p>Bland–Altman plots of test–retest for force. <span class="html-italic">Black line</span>: Mean difference between test and retest scores. <span class="html-italic">Red lines</span>: 95% limits of agreement (upper and lower limits).</p>
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<p>Bland–Altman plots of test–retest for power. <span class="html-italic">Black line</span>: Mean difference between test and retest scores. <span class="html-italic">Red lines</span>: 95% limits of agreement (upper and lower limits).</p>
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27 pages, 3032 KiB  
Article
Robust Fault Detection in Monitoring Chemical Processes Using Multi-Scale PCA with KD Approach
by K. Ramakrishna Kini, Muddu Madakyaru, Fouzi Harrou, Anoop Kishore Vatti and Ying Sun
ChemEngineering 2024, 8(3), 45; https://doi.org/10.3390/chemengineering8030045 - 25 Apr 2024
Cited by 1 | Viewed by 1631
Abstract
Effective fault detection in chemical processes is of utmost importance to ensure operational safety, minimize environmental impact, and optimize production efficiency. To enhance the monitoring of chemical processes under noisy conditions, an innovative statistical approach has been introduced in this study. The proposed [...] Read more.
Effective fault detection in chemical processes is of utmost importance to ensure operational safety, minimize environmental impact, and optimize production efficiency. To enhance the monitoring of chemical processes under noisy conditions, an innovative statistical approach has been introduced in this study. The proposed approach, called Multiscale Principal Component Analysis (PCA), combines the dimensionality reduction capabilities of PCA with the noise reduction capabilities of wavelet-based filtering. The integrated approach focuses on extracting features from the multiscale representation, balancing the need to retain important process information while minimizing the impact of noise. For fault detection, the Kantorovich distance (KD)-driven monitoring scheme is employed based on features extracted from Multiscale PCA to efficiently detect anomalies in multivariate data. Moreover, a nonparametric decision threshold is employed through kernel density estimation to enhance the flexibility of the proposed approach. The detection performance of the proposed approach is investigated using data collected from distillation columns and continuously stirred tank reactors (CSTRs) under various noisy conditions. Different types of faults, including bias, intermittent, and drift faults, are considered. The results reveal the superior performance of the proposed multiscale PCA-KD based approach compared to conventional PCA and multiscale PCA-based monitoring methods. Full article
(This article belongs to the Special Issue Feature Papers in Chemical Engineering)
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<p>Multiscale decomposition of a heavy-sine signal using Haar wavelet.</p>
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<p>Multiscale PCA-KD based fault detection strategy.</p>
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<p>A schematic overview of the distillation column process, highlighting structural components, RTD sensors, and the entry conditions for a binary mixture of propane and isobutene.</p>
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<p>Correlation matrix heatmap depicting the Pearson correlation among variables in the fault-free distillation column dataset.</p>
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<p>RadViz visualization illustrating the influence of different factors on (<b>a</b>) ‘Propane’ and (<b>b</b>) ‘Isobutene’ concentrations in the distillation column. Each point on the circular plot represents a data point, and the positioning of points along the circumference reflects the values of various factor.</p>
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<p>Calculation of decomposition depth for (<b>a</b>) SNR = 15 and (<b>b</b>) SNR = 5.</p>
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<p>Intermittent fault monitoring in the DC process by PCA based methods under SNR level of 15: (<b>a</b>) PCA-<math display="inline"><semantics> <msup> <mi>T</mi> <mn>2</mn> </msup> </semantics></math>, (<b>b</b>) PCA-<span class="html-italic">Q</span>, (<b>c</b>) PCA-KD (Red line indicates significance threshold).</p>
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<p>Intermittent fault monitoring in the DC process by MSPCA based methods under SNR level of 15: (<b>a</b>) MSPCA-<math display="inline"><semantics> <msup> <mi>T</mi> <mn>2</mn> </msup> </semantics></math>, (<b>b</b>) MSPCA-<span class="html-italic">Q</span>, (<b>c</b>) MSPCA-KD (Red line indicates significance threshold).</p>
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<p>Intermittent fault monitoring in the DC process by PCA based methods under SNR level of 5: (<b>a</b>) PCA-<math display="inline"><semantics> <msup> <mi>T</mi> <mn>2</mn> </msup> </semantics></math>, (<b>b</b>) PCA-<span class="html-italic">Q</span>, (<b>c</b>) PCA-KD (Red line indicates significance threshold).</p>
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<p>Intermittent fault monitoring in the DC process by MSPCA based methods under SNR level of 5: (<b>a</b>) MSPCA-<math display="inline"><semantics> <msup> <mi>T</mi> <mn>2</mn> </msup> </semantics></math>, (<b>b</b>) MSPCA-<span class="html-italic">Q</span>, (<b>c</b>) MSPCA-KD (Red line indicates significance threshold).</p>
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<p>A schematic of distillation column process.</p>
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<p>Correlation matrix of the fault-free CSTR data.</p>
Full article ">Figure 13
<p>Bias fault monitoring by PCA based methods in the CSTR process under SNR level of 15: (<b>a</b>) PCA-<math display="inline"><semantics> <msup> <mi>T</mi> <mn>2</mn> </msup> </semantics></math>, (<b>b</b>) PCA-<span class="html-italic">Q</span>, (<b>c</b>) PCA-KD (Red line indicates significance threshold).</p>
Full article ">Figure 14
<p>Bias fault monitoring by MPCA based methods in the CSTR process under SNR level of 15: (<b>a</b>) MSPCA-<math display="inline"><semantics> <msup> <mi>T</mi> <mn>2</mn> </msup> </semantics></math>, (<b>b</b>) MSPCA-<span class="html-italic">Q</span>, and (<b>c</b>) MSPCA-KD (Red line indicates significance threshold).</p>
Full article ">Figure 15
<p>Bias fault monitoring by PCA based methods in the CSTR process under SNR level of 5: (<b>a</b>) PCA-<math display="inline"><semantics> <msup> <mi>T</mi> <mn>2</mn> </msup> </semantics></math>, (<b>b</b>) PCA-<span class="html-italic">Q</span>, (<b>c</b>) PCA-KD (Red line indicates significance threshold).</p>
Full article ">Figure 16
<p>Bias fault monitoring by MPCA based methods in the CSTR process under SNR level of 5: (<b>a</b>) MSPCA-<math display="inline"><semantics> <msup> <mi>T</mi> <mn>2</mn> </msup> </semantics></math>, (<b>b</b>) MSPCA-<span class="html-italic">Q</span>, and (<b>c</b>) MSPCA-KD. (Red line indicates significance threshold).</p>
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