Mathews Correlation Research Articles

An explainable stacking-based approach for accelerating the prediction of antidiabetic peptides

Diabetes is a chronic disease that is characterized by high blood sugar levels and can have several harmful outcomes. Hyperglycemia, which is defined by persistently elevated blood sugar, is one of the primary concerns. People can improve their overall well-being and get optimal health outcomes by prioritizing diabetes control. Although the use of experimental approaches in diabetes treatment is cost-effective, it necessitates the development of many strategies for evaluating the efficacy of therapies. Researchers can quickly create new strategies for managing diabetes and get vital insights by enabling virtual screening with computational tools and procedures. In this study, we suggest a predictor named STADIP (STacking-based predictor for AntiDiabetic Peptides), a new method to predict antidiabetic peptides (ADPs) utilizing a stacked-based ensemble approach. It uses 12 different feature encodings and seven machine-learning techniques to construct 84 baseline models. The impacts of various baseline models on ADP prediction were then thoroughly examined. A two-step feature selection method, eXtreme Gradient Boosting with Sequential Forward Selection (XGB-SFS), was employed to determine the optimal number, out of 84 PFs to enhance predictive performance. Subsequently, utilizing the meta-predictor approach, 45 selected PFs were integrated into an XGB classifier to formulate the final hybrid model. The proposed method demonstrated superior predictive capabilities compared to constituent baseline models, as evidenced by evaluations on both cross-validation and independent tests. During extensive independent testing, STADIP achieved promising performance with accuracy and mathew's correlation coefficient of 0.954 and 0.877, respectively. It is anticipated that it will be useful tool in helping the scientific community to identify new antidiabetic proteins.

Harnessing machine learning to predict cytochrome P450 inhibition through molecular properties.

Cytochrome P450 enzymes are a superfamily of enzymes responsible for the metabolism of a variety of medicines and xenobiotics. Among the Cytochrome P450 family, five isozymes that include 1A2, 2C9, 2C19, 2D6, and 3A4 are most important for the metabolism of xenobiotics. Inhibition of any of these five CYP isozymes causes drug-drug interactions with high pharmacological and toxicological effects. So, the inhibition or non-inhibition prediction of these isozymes is of great importance. Many techniques based on machine learning and deep learning algorithms are currently being used to predict whether these isozymes will be inhibited or not. In this study, three different molecular or substructural properties that include Morgan, MACCS and Morgan (combined) and RDKit of the various molecules are used to train a distinct SVM model against each isozyme (1A2, 2C9, 2C19, 2D6, and 3A4). On the independent dataset, Morgan fingerprints provided the best results, while MACCS and Morgan (combined) achieved comparable results in terms of balanced accuracy (BA), sensitivity (Sn), and Mathews correlation coefficient (MCC). For the Morgan fingerprints, balanced accuracies (BA), Mathews correlation coefficients (MCC), and sensitivities (Sn) against each CYPs isozyme, 1A2, 2C9, 2C19, 2D6, and 3A4 on an independent dataset ranged between 0.81 and 0.85, 0.61 and 0.70, 0.72 and 0.83, respectively. Similarly, on the independent dataset, MACCS and Morgan (combined) fingerprints achieved competitive results in terms of balanced accuracies (BA), Mathews correlation coefficients (MCC), and sensitivities (Sn) against each CYPs isozyme, 1A2, 2C9, 2C19, 2D6, and 3A4, which ranged between 0.79 and 0.85, 0.59 and 0.69, 0.69 and 0.82, respectively.

An attention-based CNN-BiLSTM model for depression detection on social media text

Depression has long been described as a common mental health disorder and a disease with a set of diagnostic criteria that influences the affected individuals' feelings and behavior. The prevalence of Internet use has augmented people’s openness to share their experiences and struggles, including mental health disorders on social media thus researchers have tried developing classification models for depression detection using various machine learning and deep learning techniques. In this research, we propose a deep learning architecture with an attention mechanism on CNN-BiLSTM (CBA) and provide a comparative analysis to benchmark well-known deep learning models using the public dataset namely CLEF2017. We found that along with F1 score, precision and recall it is also vital to consider the Area under the curve - Receiver operating characteristic curve (AUC-ROC) and Mathews Correlation Coefficient (MCC) metrics for evaluating depression classification models since the MCC considers all the four values of a confusion matrix. Based on our experiments, the CBA model outperforms the existing state of the art model with an overall accuracy of 96.71% and scores of 0.85 and 0.77 for AUC-ROC and MCC, respectively.

Abstract 1070: Overcoming deficiencies in the early detection of high grade serous ovarian cancer: Evaluating exosomal proteins as novel biomarkers of disease

Abstract Introduction: High-grade serous ovarian cancer (HGSOC) accounts for over 75% of all epithelial ovarian cancer and has a high mortality rate due to a lack of early detection methods. Many biomarkers have been proposed; however, none have been shown to improve detection at an early stage in this patient population. The purpose of this study is to assess whether there are unique extracellular vesicle (EV) protein signatures of early-stage HGSOC that could serve as early detection biomarkers. Methods: 250 serum samples were obtained from a multi-institutional retrospective cohort of patients with all stages of HGSOC and healthy controls. LC-MS/MS and PEA of serum samples from patients with early-stage HGSOC identified differentially expressed EVs proteins in HGSOC versus controls. Tob candidate proteins are validated by ELISA. Results: We have identified the top 10 EVs candidate proteins based on their fold change and statistical significance. When comparing early-stage HGSOC and controls using ELISA, CFH, PCP, and CCNE1 exhibited the highest Area Under the Curve (AUC) values of 0.94, 0.91, and 0.83, respectively. In contrast, MUC16 (also known as CA-125) exhibited an AUC of only 0.42 in whole serum. Furthermore, MUC16 distinguished between controls and both early and advanced-stage HGSOC in EVs, while in whole serum, it was only differentially expressed between controls and advanced-stage disease. Our results demonstrate that the predictive performance of the combined biomarkers surpasses that of any individual biomarker. Further, we integrated the ten aforementioned biomarkers, deriving the optimal combination biomarker by maximizing the corresponding Sum of Harmonic Means (SHUM) function by utilizing data from all 70 patients, results showed the optimal coefficients of the biomarkers, which maximize the diagnostic accuracy for early-stage HGSOC. The overall true positive rate (TPR) of 0.943, false positive rate (FPR) of 0.000, and Mathew's correlation coefficient (MCC) were presented for both the combined biomarker approach and individual biomarkers. The results demonstrated that the predictive performance of the combined biomarkers surpassed that of any individual biomarker. Conclusion: Expression of EV-based protein biomarkers is significantly different in early-stage HGSOC compared to both control and late-stage HGSOC. This work can be readily translated to clinical use and potentially improve the early detection of HGSOC substantially. Citation Format: Michelle Lightfoot, Kalpana Deepa Priya Dorayappan, Lianbo Yu, Colin Hisey, Takahiko Sakaue, Muralidharan Anbalagan, Casey M. Cosgrove, Larry G. Maxwell, Premal Thaker, Beth Y. Karlan, David O’Malley, Raphael E. Pollock, David E. Cohn, Rajan Gogna, Selvendiran Karuppaiyah. Overcoming deficiencies in the early detection of high grade serous ovarian cancer: Evaluating exosomal proteins as novel biomarkers of disease [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2024; Part 1 (Regular Abstracts); 2024 Apr 5-10; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2024;84(6_Suppl):Abstract nr 1070.

ADSBAN: Anomaly detection system for body area networks utilizing IoT and machine learning

SummaryBody area networks (BANs) play a pivotal role in modern healthcare, enabling real‐time data collection and monitoring of vital patient parameters, thereby empowering healthcare providers to respond swiftly to any serious health conditions. These networks depend on strategically placed sensors on the patient's body to collect important health data. The integrity of this data is really important, as problems with a component can cause doctors to make mistakes that could be life‐threatening. Consequently, developing and evaluating robust anomaly detection methods for BANs is paramount. To address this concern, an anomaly detection system for body area networks (ADSBAN) has been proposed in this article. Different machine learning methods have been tested and implemented to improve the proposed system's performance. These include decision tree, K‐nearest neighbor, logistic regression (LR), random forest, AdaBoost (Adaptive Boosting), and XGBoost (Extreme Gradient Boosting). Further, this framework has been tested with emulated and standard datasets and compared with existing methodologies. The research employs an IoT Flock emulator to replicate BAN conditions and simulate two distinct attack scenarios. Wireshark aids in thoroughly analyzing network traffic, while Python, in conjunction with tools like Keras and Pandas, is instrumental in implementing the ML models. Further, a CIC flowmeter has been utilized to convert the .pcap file format into .CSV file format. Comprehensive evaluation metrics such as precision, recall, accuracy, F1 score, and the Mathew correlation coefficient (MCC) demonstrate the consistent superiority of LR on emulated (i.e., traffic generated through a simulator IoT Flock) and standard datasets (BoT‐IoT). LR shows the highest accuracy of 99.92% on emulated and standard datasets, while XGBoost has the highest average accuracy of 99.92% on standard dataset. This research significantly bolsters the reliability of healthcare data, instilling confidence among healthcare professionals in their decision‐making processes. By safeguarding the integrity of vital health data in BANs, it advances the quality of patient care. It underscores the indispensable role of ML techniques in fortifying the resilience of healthcare systems.

An assessment of heterogenous ensemble classifiers for analyzing change‐proneness in open‐source software systems

AbstractSoftware managers constantly look out for methods that ensure cost effective development of good quality software products. An important means of accomplishing this is by allocating more resources to weak classes of a software product, which are prone to changes. Therefore, correct prediction of these change‐prone classes is critical. Though various researchers have investigated the performance of several algorithms for identifying them, the search for an optimum classifier still persists. To this end, this study critically investigates the use of six Heterogenous Ensemble Classifiers (HEC) for Software Change Prediction (SCP) by empirically validating datasets obtained from 12 open‐source software systems. The results of the study are statistically assessed using three robust performance indicators (AUC, F‐measure and Mathew Correlation Coefficient) in two different validation scenarios (within project and cross‐project). They indicate the superiority of Average Probability Voting Ensemble, a heterogenous classifier for determining change‐proneness in the investigated systems. The average AUC values of software change prediction models developed using this ensemble classifier exhibited an improvement of 3%‐9% and 3%‐11% respectively when compared with its base learners and homogeneous counter parts. Similar observations were inferred using other investigated performance measures. Furthermore, the evidence obtained from the results suggests that the change in number of base learners or type of meta‐learner does not exhibit significant change in the performance of corresponding heterogenous ensemble classifiers.

A stroke prediction framework using explainable ensemble learning

The death of brain cells occurs when blood flow to a particular area of the brain is abruptly cut off, resulting in a stroke. Early recognition of stroke symptoms is essential to prevent strokes and promote a healthy lifestyle. FAST tests (looking for abnormalities in the face, arms, and speech) have limitations in reliability and accuracy for diagnosing strokes. This research employs machine learning (ML) techniques to develop and assess multiple ML models to establish a robust stroke risk prediction framework. This research uses a stacking-based ensemble method to select the best three machine learning (ML) models and combine their collective intelligence. An empirical evaluation of a publicly available stroke prediction dataset demonstrates the superior performance of the proposed stacking-based ensemble model, with only one misclassification. The experimental results reveal that the proposed stacking model surpasses other state-of-the-art research, achieving accuracy, precision, F1-score of 99.99%, recall of 100%, receiver operating characteristics (ROC), Mathews correlation coefficient (MCC), and Kappa scores 1.0. Furthermore, Shapley’s Additive Explanations (SHAP) are employed to analyze the predictions of the black-box machine learning (ML) models. The findings highlight that age, BMI, and glucose level are the most significant risk factors for stroke prediction. These findings contribute to the development of more efficient techniques for stroke prediction, potentially saving many lives.

DRBpred: A sequence-based machine learning method to effectively predict DNA- and RNA-binding residues

DNA-binding and RNA-binding proteins are essential to an organism's normal life cycle. These proteins have diverse functions in various biological processes. DNA-binding proteins are crucial for DNA replication, transcription, repair, packaging, and gene expression. Likewise, RNA-binding proteins are essential for the post-transcriptional control of RNAs and RNA metabolism. Identifying DNA- and RNA-binding residue is essential for biological research and understanding the pathogenesis of many diseases. However, most DNA-binding and RNA-binding proteins still need to be discovered. This research explored various properties of the protein sequences, such as amino acid composition type, Position-Specific Scoring Matrix (PSSM) values of amino acids, Hidden Markov model (HMM) profiles, physiochemical properties, structural properties, torsion angles, and disorder regions. We utilized a sliding window technique to extract more information from a target residue's neighbors. We proposed an optimized Light Gradient Boosting Machine (LightGBM) method, named DRBpred, to predict DNA-binding and RNA-binding residues from the protein sequence. DRBpred shows an improvement of 112.00 %, 33.33 %, and 6.49 % for the DNA-binding test set compared to the state-of-the-art method. It shows an improvement of 112.50 %, 16.67 %, and 7.46 % for the RNA-binding test set regarding Sensitivity, Mathews Correlation Coefficient (MCC), and AUC metric.

Data-driven models for the prediction of coronary atherosclerotic plaque progression/regression

Coronary artery disease is defined by the existence of atherosclerotic plaque on the arterial wall, which can cause blood flow impairment, or plaque rupture, and ultimately lead to myocardial ischemia. Intravascular ultrasound (IVUS) imaging can provide a detailed characterization of lumen and vessel features, and so plaque burden, in coronary vessels. Prediction of the regions in a vascular segment where plaque burden can either increase (progression) or decrease (regression) following a certain therapy, has remained an elusive major milestone in cardiology. Studies like IBIS-4 showed an association between plaque burden regression and high-intensity rosuvastatin therapy over 13 months. Nevertheless, it has not been possible to predict if a patient would respond in a favorable/adverse fashion to such a treatment. This work aims to (i) Develop a framework that processes lumen and vessel cross-sectional contours and extracts geometric descriptors from baseline and follow-up IVUS pullbacks; and to (ii) Develop, train, and validate a machine learning model based on baseline/follow-up IVUS datasets that predicts future percent of atheroma volume changes in coronary vascular segments using only baseline information, i.e. geometric features and clinical data. This is a post hoc analysis, revisiting the IBIS-4 study. We employed 140 arteries, from 81 patients, for which expert delineation of lumen and vessel contours were available at baseline and 13-month follow-up. Contour data from baseline and follow-up pullbacks were co-registered and then processed to extract several frame-wise features, e.g. areas, plaque burden, eccentricity, etc. Each pullback was divided into regions of interest (ROIs), following different criteria. Frame-wise features were condensed into region-wise markers using tools from statistics, signal processing, and information theory. Finally, a stratified 5-fold cross-validation strategy (20 repetitions) was used to train/validate an XGBoost regression models. A feature selection method before the model training was also applied. When the models were trained/validated on ROI defined by the difference between follow-up and baseline plaque burden, the average accuracy and Mathews correlation coefficient were 0.70 and 0.41 respectively. Using a ROI partition criterion based only on the baseline’s plaque burden resulted in averages of 0.60 accuracy and 0.23 Mathews correlation coefficient. An XGBoost model was capable of predicting plaque progression/regression changes in coronary vascular segments of patients treated with rosuvastatin therapy in 13 months. The proposed method, first of its kind, successfully managed to address the problem of stratification of patients at risk of coronary plaque progression, using IVUS images and standard patient clinical data.

Nonlinear dimensionality reduction based visualization of single-cell RNA sequencing data

Single-cell multi-omics technology has catalyzed a transformative shift in contemporary cell biology, illuminating the nuanced relationship between genotype and phenotype. This paradigm shift hinges on the understanding that while genomic structures remain uniform across cells within an organism, the expression patterns dictate physiological traits. Leveraging high throughput sequencing, single-cell RNA sequencing (scRNA-seq) has emerged as a powerful tool, enabling comprehensive transcriptomic analysis at unprecedented resolution. This paper navigates through a landscape of dimensionality reduction techniques essential for distilling meaningful insights from the scRNA-seq datasets. Notably, while foundational, Principal Component Analysis may fall short of capturing the intricacies of diverse cell types. In response, nonlinear techniques have garnered traction, offering a more nuanced portrayal of cellular relationships. Among these, Pairwise Controlled Manifold Approximation Projection (PaCMAP) stands out for its capacity to preserve local and global structures. We present an augmented iteration, Compactness Preservation Pairwise Controlled Manifold Approximation Projection (CP-PaCMAP), a novel advancement for scRNA-seq data visualization. Employing benchmark datasets from critical human organs, we demonstrate the superior efficacy of CP-PaCMAP in preserving compactness, offering a pivotal breakthrough for enhanced classification and clustering in scRNA-seq analysis. A comprehensive suite of metrics, including Trustworthiness, Continuity, Mathew Correlation Coefficient, and Mantel test, collectively validate the fidelity and utility of proposed and existing techniques. These metrics provide a multi-dimensional evaluation, elucidating the performance of CP-PaCMAP compared to other dimensionality reduction techniques.

ECG arrhythmia detection in an inter-patient setting using Fourier decomposition and machine learning

ECG beat classification or arrhythmia detection through artificial intelligence (AI) is an active topic of research. It is vital to recognize and detect the type of arrhythmia for monitoring cardiac abnormalities. The AI-based ECG beat classification algorithms proposed in the literature suffer from two main drawbacks. Firstly, some of the works have not considered any unseen test data to validate the performance of their algorithms. Secondly, the accuracy of detecting superventricular ectopic beats (SVEB) needs to be improved. In this work, we address these issues by considering an inter-patient paradigm where the test dataset is collected from a different set of subjects than the training data. Also, the proposed methodology detects SVEB with an F1 score of 89.35%, which is better than existing algorithms. We have used the Fourier decomposition method (FDM) for multi-scale analysis of ECG signals and extracted time-domain and statistical features from the narrow-band signal components obtained using FDM. Feature selection techniques, including the Kruskal-Wallis test and minimum redundancy maximum relevance (mRMR) have been used to select only the relevant features and rank these features to remove any redundancy. Since the dataset used is highly imbalanced, Mathew's correlation coefficient (MCC) has also been used to analyze the performance of the proposed method. Support vector machine classifier with linear kernel achieves an overall 98.03% accuracy and 91.84% MCC for the MIT-BIH arrhythmia dataset.

Discovery of dual rho-associated protein kinase 1 (ROCK1)/apoptosis signal–regulating kinase 1 (ASK1) inhibitors as a novel approach for non-alcoholic steatohepatitis (NASH) treatment

In the current study we suggest a novel approach to curb non-alcoholic steatohepatitis (NASH) progression, and we suggest privileged scaffolds for the design of novel compounds for this aim. NASH is an advanced form of non-alcoholic fatty liver disease that can further progress into fibrosis, cirrhosis, and hepatocellular carcinoma. It is a widely emerging disease affecting 25% of the global population and has no current approved treatments. Protein kinases are key regulators of cellular pathways, of which, Rho-associated protein kinase 1 (ROCK1) and apoptosis signal–regulating kinase 1 (ASK1) play an important role in the progression of NASH and they stand out as promising targets for NASH therapy. Interestingly, their kinase domains are found to be similar in sequence and topology; therefore, dual inhibition of ROCK1 and ASK1 is expected to be amenable and could achieve a more favourable outcome. To reach this goal, a training set of ROCK1 and ASK1 protein structures co-crystalized with type 1 (ATP-competitive) inhibitors was constructed to manually generate receptor-based pharmacophore models representing ROCK1 and ASK1 inhibitors’ common pharmacophoric features. The models produced were assessed using a test set of both ROCK1 and ASK1 actives and decoys, and their performance was evaluated using different assessment metrics. The best pharmacophore model obtained, showing a Mathew’s correlation coefficient (MCC) of 0.71, was then used to screen the ZINC purchasable database retrieving 6178 hits that were filtered accordingly using several medicinal chemistry and pharmacokinetics filters returning 407 promising compounds. To confirm that these compounds are capable of binding to the target kinases, they were subjected to molecular docking simulations at both protein structures. The results were then assessed individually and filtered, setting the spotlight on various privileged scaffolds that could be exploited as the nucleus for designing novel ROCK1/ASK1 dual inhibitors.

Enhancement of Multiclass Dermoscopic Image Classification with a Fusion Model and Fine-Tuned Deep Neural Networks

Since malignancy of the skin is a frequent and sometimes fatal illness, prompt and precise detection is essential to successful treatment. Dermoscopic imaging is now emerging as a helpful tool for dermatologists in aiding with the identification of various types of skin lesions and offering timely treatments. Due to varied image conditions, data unbalancing, and fine-grained pattern classification task are is challenging in skin cancer detection. Dermoscopic images vary greatly in quality, illumination, and orientation, making it challenging for models to efficiently generalize across varied image conditions. To obtain accurate and reliable skin cancer detection, such challenges require the utilization of sophisticated deep learning techniques and rigorous model development. In multiple classes skin malignancy classification, convolutional neural networks outperform dermatology professionals, according to recent research. In the proposed system, firstly a preprocessing technique has been developed that includes hair and noise removal, data augmentation, and image resizing with model parameters. Then training has been performed using transfer learning on the fusion of DenseNet121 and ResNet50V2 model on the HAM10000 dataset. The proposed technique's performance is assessed using measures such as sensitivity, f-1 score, specificity, and accuracy. For multi-class skin lesion classification, the suggested technique achieves a precision of 97.88%, F-Score of 98%, sensitivity of 99%, accuracy of 97.08%, and Mathew's correlation coefficient (MCC) of 96.4%, it executes superior to cutting-edge techniques.

Ense-i6mA: Identification of DNA N6-methyl-adenine Sites Using XGB-RFE Feature Se-lection and Ensemble Machine Learning.

DNA N6-methyladenine (6mA) is an important epigenetic modification that plays a vital role in various cellular processes. Accurate identification of the 6mA sites is fundamental to elucidate the biological functions and mechanisms of modification. However, experimental methods for detecting 6mA sites are high-priced and time-consuming. In this study, we propose a novel computational method, called Ense-i6mA, to predict 6mA sites. Firstly, five encoding schemes, i.e., one-hot encoding, gcContent, Z-Curve, K-mer nucleotide frequency, and K-mer nucleotide frequency with gap, are employed to extract DNA sequence features. Secondly, to our knowledge, it is the first time that eXtreme gradient boosting coupled with recursive feature elimination is applied to 6mA sites prediction domain to remove noisy features for avoiding over-fitting, reducing computing time and complexity. Then, the best subset of features is fed into base-classifiers composed of Extra Trees, eXtreme Gradient Boosting, Light Gradient Boosting Machine, and Support Vector Machine. Finally, to minimize generalization errors, the prediction probabilities of the base-classifiers are aggregated by averaging for inferring the final 6mA sites results. We conduct experiments on two species, i.e., Arabidopsis thaliana and Drosophila melanogaster, to compare the performance of Ense-i6mA against the recent 6mA sites prediction methods. The experimental results demonstrate that the proposed Ense-i6mA achieves area under the receiver operating characteristic curve values of 0.967 and 0.968, accuracies of 91.4% and 92.0%, and Mathew's correlation coefficient values of 0.829 and 0.842 on two benchmark datasets, respectively, and outperforms several existing state-of-the-art methods.

Unsupervised logic mining with a binary clonal selection algorithm in multi-unit discrete Hopfield neural networks via weighted systematic 2 satisfiability

<p>Evaluating behavioral patterns through logic mining within a given dataset has become a primary focus in current research. Unfortunately, there are several weaknesses in the research regarding the logic mining models, including an uncertainty of the attribute selected in the model, random distribution of negative literals in a logical structure, non-optimal computation of the best logic, and the generation of overfitting solutions. Motivated by these limitations, a novel logic mining model incorporating the mechanism to control the negative literal in the systematic Satisfiability, namely Weighted Systematic 2 Satisfiability in Discrete Hopfield Neural Network, is proposed as a logical structure to represent the behavior of the dataset. For the proposed logic mining models, we used ratio of <italic>r</italic> to control the distribution of the negative literals in the logical structures to prevent overfitting solutions and optimize synaptic weight values. A new computational approach of the best logic by considering both true and false classification values of the learning system was applied in this work to preserve the significant behavior of the dataset. Additionally, unsupervised learning techniques such as Topological Data Analysis were proposed to ensure the reliability of the selected attributes in the model. The comparative experiments of the logic mining models by utilizing 20 repository real-life datasets were conducted from repositories to assess their efficiency. Following the results, the proposed logic mining model dominated in all the metrics for the average rank. The average ranks for each metric were Accuracy (7.95), Sensitivity (7.55), Specificity (7.93), Negative Predictive Value (7.50), and Mathews Correlation Coefficient (7.85). Numerical results and in-depth analysis demonstrated that the proposed logic mining model consistently produced optimal induced logic that best represented the real-life dataset for all the performance metrics used in this study.</p>

A novel approach for protein secondary structure prediction using encoder-decoder with attention mechanism model.

Computational biology faces many challenges like protein secondary structure prediction (PSS), prediction of solvent accessibility, etc. In this work, we addressed PSS prediction. PSS is based on sequence-structure mapping and interaction among amino acid residues. We proposed an encoder-decoder with an attention mechanism model, which considers the mapping of sequence structure and interaction among residues. The attention mechanism is used to select prominent features from amino acid residues. The proposed model is trained on CB513 and CullPDB open datasets using the Nvidia DGX system. We have tested our proposed method for Q 3 and Q 8 accuracy, segment of overlap, and Mathew correlation coefficient. We achieved 70.63 and 78.93% Q 3 and Q 8 accuracy, respectively, on the CullPDB dataset whereas 79.8 and 77.13% Q 3 and Q 8 accuracy on the CB513 dataset. We observed improvement in SOV up to 80.29 and 91.3% on CullPDB and CB513 datasets. We achieved the results using our proposed model in very few epochs, which is better than the state-of-the-art methods.

Supervised learning-based multi-site lean blowout prediction for dry low emission gas turbine

Current dry low emission (DLE) gas turbines have extremely low nitrogen oxides (NOx) emissions, allowing them to comply with stringent environmental regulations. The ultra-low temperatures required to achieve such low emissions also increase the risk of a lean blowout (LBO). DLE gas turbines are particularly vulnerable to LBO, which can lead to system instability, higher carbon oxides (CO) emissions, damaged components, substantial financial losses and environmental damages. In this regard, this current study proposes a novel supervised learning-based prediction technique with efficient performance on out-of-distribution data from multiple DLE gas turbine plants (multi-site). The proposed prediction approach exploits the competitive advantages of both adaptive boosting (AdaBoost) and Linear support vector machine (LSVM) to improve the generalization capability as well as prediction accuracy. The proposed algorithm was trained and tested using a real-world DLE gas turbine dataset from six different sites. The result indicates that the proposed model consistently achieving LBO prediction accuracy rates above 99.9% and Mathew’s correlation coefficient (MCC) score above 0.9 across all datasets. All lean-premixed gas turbines could benefit from the developed Ada-LSVM, as it is an accurate model with a high generalization performance that can be used across multiple sites.

PERFORMANCE EVALUATION OF 7TH GRADE STUDENTS FOR SOCIAL SCIENCE EDUCATION (IPS) UTILISING SUPPORT VECTOR MACHINE (SVM) METHOD

In this study, a Support Vector Machine (SVM) method was utilized to predict the 7th grade performance of social science education (IPS) within the following advanced levels and to delineated an evaluation of ongoing teaching plans for 7th grade teachers. The model dataset was built for 192 students, consisting of cognitive and psychomotor formative The dataset refers to three classification categories (Adequate, Qualified, and Skilled) employed in computational algorithms for processing using linear and non-linear (polynomial and gaussian). The SVM model performance evaluation results obtained a performance accuracy (ACC) of 84% (linear), 75% for polynomials, and gaussians (90%), respectively. The Mathew Correlation Coefficient (MCC) evaluation described a validated performance of 47% for linear, 40% and 20% for polynomial and gaussians, respectively. In conclusion, student performances can follow the learning optimally at the next level, while teachers can replicate the learning process for 7th grade in future classrooms.

Explainable Soft Attentive EfficientNet for breast cancer classification in histopathological images

Breast Cancer (BC) is believed to be the cancer that occurs most frequently in women worldwide, taking the lives of it’s the victims. In early diagnosis aids the patients to survive under greater probability. Several existing studies utilize diagnostic mechanisms via histopathology image for early identification of breast tumors. However, it increases the medical costs and consumes the time. Thus, in order to accurately classify the breast tumor, this study suggests a novel explainable DL technique. Using this technique, better accuracy is achieved while performing classifications. Improved accuracy may greatly help the medical practitioners for classifying breast cancer effectively. Initially, adaptive unsharp mask filtering (AUMF) technique is proposed to remove the noise and enhance the quality of the image. Finally, Explainable Soft Attentive EfficientNet (ESAE-Net) technique is introduced to classify the breast tumor (BT). Four explainable algorithms are investigated for improved visualizations over the BTs: Gradient-Weighted Class Activation Mapping (Grad-CAM) Shapley additive explanations (SHAP), Contextual Importance and Utility (CIU), and Local Interpretable Model-Agnostic Explanations (LIME). The suggested approach uses two publicly accessible images of breast histopathology and is carried out on a Python platform. Performance metrics such as time complexity, False Discovery Rate (FDR), accuracy, and Mathew’s correlation coefficient (MCC) are examined and contrasted with traditional research. In the experimental section, the proposed obtains an accuracy of 97.85% for dataset 1 and accuracy of 98.05% for dataset 2. In comparison with other existing methods, the proposed method is more efficient while using ESAE-Net for classifying the Breast cancer.

A novel chaotic weighted EHO-based methodology for retinal vessel segmentation

ABSTRACT Retinal image segmentation process deals withproblems like spurious vascularisation and thin vessel detection. In thispaper, a three-step methodology has been proposed for retinal vesselsegmentation. In first step, RGB to YIQ conversion is performed. In second step, Y component enhancement is performed. A novel Chaotic weighted Elephant HerdingOptimization (CWEHO) has been proposed to optimize the clip limit and blocksize values of Contrast Limited Adaptive Histogram Equalization (CLAHE). CWEHO-based CLAHE along with morphological operations, non-local means filter, and median filter is applied to enhanceretinal images. In third step, thin and thick vessel segmentation is performed.Top hat transformation, otsu thresholding algorithm, and vessel point selectionare applied for thick vessel extraction. The first-order Gaussian derivative in conjunction with the matchfilter is used to extract thin vessels. DRIVE and HRF datasets are used toassess the effectiveness of proposed methodology. The average values ofsegmentation accuracy, specificity, sensitivity, and Mathew CorrelationCoefficient (MCC) are observed to be 0.9650, 0.9895, 0.7007, 0.7650,respectively, for observer1 and 0.9696, 0.9912, 0.7390, 0.7901 for observer2using DRIVE dataset. Similarly, 0.9592, 0.9839, 0.6850, and 0.7116,respectively, metrics for HRF dataset. Compared to state-of-the-art methods, the proposed segmentation methodology providesbetter results .