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1.
BMC Genomics ; 25(1): 756, 2024 Aug 02.
Article in English | MEDLINE | ID: mdl-39095710

ABSTRACT

BACKGROUND: Long non-coding RNAs (lncRNAs) are RNA transcripts of more than 200 nucleotides that do not encode canonical proteins. Their biological structure is similar to messenger RNAs (mRNAs). To distinguish between lncRNA and mRNA transcripts quickly and accurately, we upgraded the PLEK alignment-free tool to its next version, PLEKv2, and constructed models tailored for both animals and plants. RESULTS: PLEKv2 can achieve 98.7% prediction accuracy for human datasets. Compared with classical tools and deep learning-based models, this is 8.1%, 3.7%, 16.6%, 1.4%, 4.9%, and 48.9% higher than CPC2, CNCI, Wen et al.'s CNN, LncADeep, PLEK, and NcResNet, respectively. The accuracy of PLEKv2 was > 90% for cross-species prediction. PLEKv2 is more effective and robust than CPC2, CNCI, LncADeep, PLEK, and NcResNet for primate datasets (including chimpanzees, macaques, and gorillas). Moreover, PLEKv2 is not only suitable for non-human primates that are closely related to humans, but can also predict the coding ability of RNA sequences in plants such as Arabidopsis. CONCLUSIONS: The experimental results illustrate that the model constructed by PLEKv2 can distinguish lncRNAs and mRNAs better than PLEK. The PLEKv2 software is freely available at https://sourceforge.net/projects/plek2/ .


Subject(s)
RNA, Long Noncoding , RNA, Messenger , RNA, Long Noncoding/genetics , RNA, Messenger/genetics , Humans , Animals , Software , Computational Biology/methods
2.
PLoS One ; 19(8): e0304768, 2024.
Article in English | MEDLINE | ID: mdl-39088457

ABSTRACT

Breast cancer is a major health concern for women everywhere and a major killer of women. Malignant tumors may be distinguished from benign ones, allowing for early diagnosis of this disease. Therefore, doctors need an accurate method of diagnosing tumors as either malignant or benign. Even if therapy begins immediately after diagnosis, some cancer cells may persist in the body, increasing the risk of a recurrence. Metastasis and recurrence are the leading causes of death from breast cancer. Therefore, detecting a return of breast cancer early has become a pressing medical issue. Evaluating and contrasting various Machine Learning (ML) techniques for breast cancer and recurrence prediction is crucial to choosing the best successful method. Inaccurate forecasts are common when using datasets with a large number of attributes. This study addresses the need for effective feature selection and optimization methods by introducing Recursive Feature Elimination (RFE) and Grey Wolf Optimizer (GWO), in response to the limitations observed in existing approaches. In this research, the performance evaluation of methods is enhanced by employing the RFE and GWO, considering the Wisconsin Diagnostic Breast Cancer (WDBC) and Wisconsin Prognostic Breast Cancer (WPBC) datasets taken from the UCI-ML repository. Various preprocessing techniques are applied to raw data, including imputation, scaling, and others. In the second step, relevant feature correlations are used with RFE to narrow down candidate discriminative features. The GWO chooses the best possible combination of attributes for the most accurate result in the next step. We use seven ML classifiers in both datasets to make a binary decision. On the WDBC and WPBC datasets, several experiments have shown accuracies of 98.25% and 93.27%, precisions of 98.13% and 95.56%, sensitivities of 99.06% and 96.63%, specificities of 96.92% and 73.33%, F1-scores of 98.59% and 96.09% and AUCs of 0.982 and 0.936, respectively. The hybrid approach's superior feature selection improved the accuracy of breast cancer performance indicators and recurrence classification.


Subject(s)
Breast Neoplasms , Machine Learning , Neoplasm Recurrence, Local , Humans , Breast Neoplasms/diagnosis , Breast Neoplasms/pathology , Female , Prognosis , Algorithms
3.
BMC Oral Health ; 24(1): 715, 2024 Jun 21.
Article in English | MEDLINE | ID: mdl-38907185

ABSTRACT

BACKGROUND: Dental pathogens play a crucial role in oral health issues, including tooth decay, gum disease, and oral infections, and recent research suggests a link between these pathogens and oral cancer initiation and progression. Innovative therapeutic approaches are needed due to antibiotic resistance concerns and treatment limitations. METHODS: We synthesized and analyzed piperine-coated zinc oxide nanoparticles (ZnO-PIP NPs) using UV spectroscopy, SEM, XRD, FTIR, and EDAX. Antioxidant and antimicrobial effectiveness were evaluated through DPPH, ABTS, and MIC assays, while the anticancer properties were assessed on KB oral squamous carcinoma cells. RESULTS: ZnO-PIP NPs exhibited significant antioxidant activity and a MIC of 50 µg/mL against dental pathogens, indicating strong antimicrobial properties. Interaction analysis revealed high binding affinity with dental pathogens. ZnO-PIP NPs showed dose-dependent anticancer activity on KB cells, upregulating apoptotic genes BCL2, BAX, and P53. CONCLUSIONS: This approach offers a multifaceted solution to combatting both oral infections and cancer, showcasing their potential for significant advancement in oral healthcare. It is essential to acknowledge potential limitations and challenges associated with the use of ZnO NPs in clinical applications. These may include concerns regarding nanoparticle toxicity, biocompatibility, and long-term safety. Further research and rigorous testing are warranted to address these issues and ensure the safe and effective translation of ZnO-PIP NPs into clinical practice.


Subject(s)
Alkaloids , Apoptosis , Benzodioxoles , Biofilms , Mouth Neoplasms , Piperidines , Polyunsaturated Alkamides , Zinc Oxide , bcl-2-Associated X Protein , Humans , Alkaloids/pharmacology , Antineoplastic Agents/pharmacology , Antioxidants/pharmacology , Apoptosis/drug effects , bcl-2-Associated X Protein/metabolism , bcl-2-Associated X Protein/drug effects , Benzodioxoles/pharmacology , Biofilms/drug effects , Cell Line, Tumor , KB Cells , Metal Nanoparticles/therapeutic use , Microbial Sensitivity Tests , Microscopy, Electron, Scanning , Mouth Neoplasms/drug therapy , Mouth Neoplasms/pathology , Nanoparticles , Piperidines/pharmacology , Polyunsaturated Alkamides/pharmacology , Proto-Oncogene Proteins c-bcl-2/metabolism , Tumor Suppressor Protein p53/metabolism , Tumor Suppressor Protein p53/drug effects , X-Ray Diffraction , Zinc Oxide/pharmacology
4.
BMC Med Imaging ; 24(1): 156, 2024 Jun 24.
Article in English | MEDLINE | ID: mdl-38910241

ABSTRACT

Parkinson's disease (PD) is challenging for clinicians to accurately diagnose in the early stages. Quantitative measures of brain health can be obtained safely and non-invasively using medical imaging techniques like magnetic resonance imaging (MRI) and single photon emission computed tomography (SPECT). For accurate diagnosis of PD, powerful machine learning and deep learning models as well as the effectiveness of medical imaging tools for assessing neurological health are required. This study proposes four deep learning models with a hybrid model for the early detection of PD. For the simulation study, two standard datasets are chosen. Further to improve the performance of the models, grey wolf optimization (GWO) is used to automatically fine-tune the hyperparameters of the models. The GWO-VGG16, GWO-DenseNet, GWO-DenseNet + LSTM, GWO-InceptionV3 and GWO-VGG16 + InceptionV3 are applied to the T1,T2-weighted and SPECT DaTscan datasets. All the models performed well and obtained near or above 99% accuracy. The highest accuracy of 99.94% and AUC of 99.99% is achieved by the hybrid model (GWO-VGG16 + InceptionV3) for T1,T2-weighted dataset and 100% accuracy and 99.92% AUC is recorded for GWO-VGG16 + InceptionV3 models using SPECT DaTscan dataset.


Subject(s)
Algorithms , Deep Learning , Magnetic Resonance Imaging , Parkinson Disease , Tomography, Emission-Computed, Single-Photon , Humans , Parkinson Disease/diagnostic imaging , Tomography, Emission-Computed, Single-Photon/methods , Magnetic Resonance Imaging/methods , Male , Female
5.
Sci Rep ; 14(1): 14517, 2024 Jun 24.
Article in English | MEDLINE | ID: mdl-38914654

ABSTRACT

Technology offers a lot of potential that is being used to improve the integrity and efficiency of infrastructures. Crack is one of the major concerns that can affect the integrity or usability of any structure. Oftentimes, the use of manual inspection methods leads to delays which can worsen the situation. Automated crack detection has become very necessary for efficient management and inspection of critical infrastructures. Previous research in crack detection employed classification and localization-based models using Deep Convolutional Neural Networks (DCNNs). This study suggests and compares the effectiveness of transfer learned DCNNs for crack detection as a classification model and as a feature extractor to overcome this restriction. The main objective of this paper is to present various methods of crack detection on surfaces and compare their performance over 3 different datasets. Experiments conducted in this work are threefold: initially, the effectiveness of 12 transfer learned DCNN models for crack detection is analyzed on three publicly available datasets: SDNET, CCIC and BSD. With an accuracy of 53.40%, ResNet101 outperformed other models on the SDNET dataset. EfficientNetB0 was the most accurate (98.8%) model on the BSD dataset, and ResNet50 performed better with an accuracy of 99.8% on the CCIC dataset. Secondly, two image enhancement methods are employed to enhance the images and are transferred learned on the 12 DCNNs in pursuance of improving the performance of the SDNET dataset. The results from the experiments show that the enhanced images improved the accuracy of transfer-learned crack detection models significantly. Furthermore, deep features extracted from the last fully connected layer of the DCNNs are used to train the Support Vector Machine (SVM). The integration of deep features with SVM enhanced the detection accuracy across all the DCNN-dataset combinations, according to analysis in terms of accuracy, precision, recall, and F1-score.

6.
BMC Med Imaging ; 24(1): 120, 2024 May 24.
Article in English | MEDLINE | ID: mdl-38789925

ABSTRACT

BACKGROUND: Lung cancer is the second most common cancer worldwide, with over two million new cases per year. Early identification would allow healthcare practitioners to handle it more effectively. The advancement of computer-aided detection systems significantly impacted clinical analysis and decision-making on human disease. Towards this, machine learning and deep learning techniques are successfully being applied. Due to several advantages, transfer learning has become popular for disease detection based on image data. METHODS: In this work, we build a novel transfer learning model (VER-Net) by stacking three different transfer learning models to detect lung cancer using lung CT scan images. The model is trained to map the CT scan images with four lung cancer classes. Various measures, such as image preprocessing, data augmentation, and hyperparameter tuning, are taken to improve the efficacy of VER-Net. All the models are trained and evaluated using multiclass classifications chest CT images. RESULTS: The experimental results confirm that VER-Net outperformed the other eight transfer learning models compared with. VER-Net scored 91%, 92%, 91%, and 91.3% when tested for accuracy, precision, recall, and F1-score, respectively. Compared to the state-of-the-art, VER-Net has better accuracy. CONCLUSION: VER-Net is not only effectively used for lung cancer detection but may also be useful for other diseases for which CT scan images are available.


Subject(s)
Lung Neoplasms , Tomography, X-Ray Computed , Humans , Lung Neoplasms/diagnostic imaging , Tomography, X-Ray Computed/methods , Machine Learning , Deep Learning , Radiographic Image Interpretation, Computer-Assisted/methods
7.
Sci Rep ; 14(1): 10532, 2024 May 08.
Article in English | MEDLINE | ID: mdl-38720092

ABSTRACT

The article introduces a revolutionary Nanorouter structure, which is a crucial component in the Nano communication regime. To complete the connection, many key properties of Nanorouters are investigated and merged. QCA circuits with better speed and reduced power dissipation aid in meeting internet standards. Cryptography based on QCA design methodologies is a novel concept in digital circuit design. Data security in nano-communication is crucial in data transmission and reception; hence, cryptographic approaches are necessary. The data entering the input line is encrypted by an encoder, and then sent to the designated output line, where it is decoded and transferred. The Nanorouter is offered as a data path selector, and the proposed study analyses the cell count of QCA and the circuit delay. In this manuscript, novel designs of (4:1)) Mux and (1:4) Demux designs are utilized to implement the proposed nanorouter design. The proposed (4:1) Mux design requires 3-5% fewer cell counts and 20-25% fewer area, and the propsoed (1:4) Demux designs require 75-80% fewer cell counts and 90-95% fewer area compared to their latest counterparts. The QCAPro utility is used to analyse the power consumption of several components that make up the router. QCADesigner 2.0.3 is used to validate the simulation results and output validity.

9.
Heliyon ; 10(9): e30241, 2024 May 15.
Article in English | MEDLINE | ID: mdl-38720763

ABSTRACT

Parkinson's disease (PD) is an age-related neurodegenerative disorder characterized by motor deficits, including tremor, rigidity, bradykinesia, and postural instability. According to the World Health Organization, about 1 % of the global population has been diagnosed with PD, and this figure is expected to double by 2040. Early and accurate diagnosis of PD is critical to slowing down the progression of the disease and reducing long-term disability. Due to the complexity of the disease, it is difficult to accurately diagnose it using traditional clinical tests. Therefore, it has become necessary to develop intelligent diagnostic models that can accurately detect PD. This article introduces a novel hybrid approach for accurate prediction of PD using an ANFIS with two optimizers, namely Adam and PSO. ANFIS is a type of fuzzy logic system used for nonlinear function approximation and classification, while Adam optimizer has the ability to adaptively adjust the learning rate of each individual parameter in an ANFIS at each training step, which helps the model find a better solution more quickly. PSO is a metaheuristic approach inspired by the behavior of social animals such as birds. Combining these two methods has potential to provide improved accuracy and robustness in PD diagnosis compared to existing methods. The proposed method utilized the advantages of both optimization techniques and applied them on the developed ANFIS model to maximize its prediction accuracy. This system was developed by using an open access clinical and demographic data. The chosen parameters for the ANFIS were selected through a comparative experimental analysis to optimize the model considering the number of fuzzy membership functions, number of epochs of ANFIS, and number of particles of PSO. The performance of the two ANFIS models: ANFIS (Adam) and ANFIS (PSO) focusing at ANFIS parameters and various evaluation metrics are further analyzed in detail and presented, The experimental results showed that the proposed ANFIS (PSO) shows better results in terms of loss and precision, whereas, the ANFIS (Adam) showed the better results in terms of accuracy, f1-score and recall. Thus, this adaptive neural-fuzzy algorithm provides a promising strategy for the diagnosis of PD, and show that the proposed models show their suitability for many other practical applications.

10.
RSC Adv ; 14(17): 11694-11705, 2024 Apr 10.
Article in English | MEDLINE | ID: mdl-38605900

ABSTRACT

Several studies have been performed on the immunomodulatory effects of yeast ß-(1,3) glucan, but there is no proper evaluation of the thermal and immunomodulating properties of zymosan (ZM). Thermogravimetry analysis indicated a 54% weight loss of ZM at 270 °C. Circular dichroism showed absorption peaks in the region of 250 to 400 nm, suggesting a helical coil ß-sheet configuration. XRD showed a broad peak at 2θ of 20.38°, indicating the crystalline nature, and the size was found to be 23 nm. ZM is biocompatible and showed no toxicity against L929 and RAW 264.7 cell lines (cell viability > 90%). Immunomodulatory studies with PCR showed upregulation of M1 genes in human differentiated THP-1 macrophage cell lines, which were responsible for antitumor properties. The uptake of ZM particles inside the differentiated THP-1 macrophages and Raw 264.7 cells was confirmed (Video clip). ZM particle uptake via Dectin-1 was identified by competitive receptor blocking. Seaweed derived carrageenan/ZM/agarose hydrogel was successfully prepared (@5 : 5 wt%) and was seen to support the growth of L929 cells (1 × 105 cells per mL) and have a higher swelling (≈250-280%). This study indicates that ZM-based hydrogel could be a potential drug carrier (Rifampicin and Levofloxacin) for targeting tumour-associated macrophages (M2).

11.
Sci Rep ; 14(1): 8586, 2024 Apr 13.
Article in English | MEDLINE | ID: mdl-38615129

ABSTRACT

Extensive research is now being conducted on the design and construction of logic circuits utilizing quantum-dot cellular automata (QCA) technology. This area of study is of great interest due to the inherent advantages it offers, such as its compact size, high speed, low power dissipation, and enhanced switching frequency in the nanoscale domain. This work presents a design of a highly efficient RAM cell in QCA, utilizing a combination of a 3-input and 5-input Majority Voter (MV) gate, together with a 2 × 1 Multiplexer (MUX). The proposed design is also investigated for various faults such as single cell deletion, single cell addition and single cell displacement or misalignment defects. The circuit under consideration has a high degree of fault tolerance. The functionality of the suggested design is showcased and verified through the utilization of the QCADesigner tool. Based on the observed performance correlation, it is evident that the proposed design demonstrates effectiveness in terms of cell count, area, and latency. Furthermore, it achieves a notable improvement of up to 76.72% compared to the present configuration in terms of quantum cost. The analysis of energy dissipation, conducted using the QCAPro tool, is also shown for various scenarios. It is seen that this design exhibits the lowest energy dispersion, hence enabling the development of ultra-low power designs for diverse microprocessors and microcontrollers.

12.
Front Artif Intell ; 7: 1357121, 2024.
Article in English | MEDLINE | ID: mdl-38665371

ABSTRACT

Diabetes is an enduring metabolic condition identified by heightened blood sugar levels stemming from insufficient production of insulin or ineffective utilization of insulin within the body. India is commonly labeled as the "diabetes capital of the world" owing to the widespread prevalence of this condition. To the best of the authors' last knowledge updated on September 2021, approximately 77 million adults in India were reported to be affected by diabetes, reported by the International Diabetes Federation. Owing to the concealed early symptoms, numerous diabetic patients go undiagnosed, leading to delayed treatment. While Computational Intelligence approaches have been utilized to improve the prediction rate, a significant portion of these methods lacks interpretability, primarily due to their inherent black box nature. Rule extraction is frequently utilized to elucidate the opaque nature inherent in machine learning algorithms. Moreover, to resolve the black box nature, a method for extracting strong rules based on Weighted Bayesian Association Rule Mining is used so that the extracted rules to diagnose any disease such as diabetes can be very transparent and easily analyzed by the clinical experts, enhancing the interpretability. The WBBN model is constructed utilizing the UCI machine learning repository, demonstrating a performance accuracy of 95.8%.

13.
Front Physiol ; 15: 1349111, 2024.
Article in English | MEDLINE | ID: mdl-38665597

ABSTRACT

Deep learning is a very important technique in clinical diagnosis and therapy in the present world. Convolutional Neural Network (CNN) is a recent development in deep learning that is used in computer vision. Our medical investigation focuses on the identification of brain tumour. To improve the brain tumour classification performance a Balanced binary Tree CNN (BT-CNN) which is framed in a binary tree-like structure is proposed. It has a two distinct modules-the convolution and the depthwise separable convolution group. The usage of convolution group achieves lower time and higher memory, while the opposite is true for the depthwise separable convolution group. This balanced binarty tree inspired CNN balances both the groups to achieve maximum performance in terms of time and space. The proposed model along with state-of-the-art models like CNN-KNN and models proposed by Musallam et al., Saikat et al., and Amin et al. are experimented on public datasets. Before we feed the data into model the images are pre-processed using CLAHE, denoising, cropping, and scaling. The pre-processed dataset is partitioned into training and testing datasets as per 5 fold cross validation. The proposed model is trained and compared its perforarmance with state-of-the-art models like CNN-KNN and models proposed by Musallam et al., Saikat et al., and Amin et al. The proposed model reported average training accuracy of 99.61% compared to other models. The proposed model achieved 96.06% test accuracy where as other models achieved 68.86%, 85.8%, 86.88%, and 90.41% respectively. Further, the proposed model obtained lowest standard deviation on training and test accuracies across all folds, making it invariable to dataset.

14.
Mol Syst Biol ; 20(5): 549-572, 2024 May.
Article in English | MEDLINE | ID: mdl-38499674

ABSTRACT

Biological systems can gain complexity over time. While some of these transitions are likely driven by natural selection, the extent to which they occur without providing an adaptive benefit is unknown. At the molecular level, one example is heteromeric complexes replacing homomeric ones following gene duplication. Here, we build a biophysical model and simulate the evolution of homodimers and heterodimers following gene duplication using distributions of mutational effects inferred from available protein structures. We keep the specific activity of each dimer identical, so their concentrations drift neutrally without new functions. We show that for more than 60% of tested dimer structures, the relative concentration of the heteromer increases over time due to mutational biases that favor the heterodimer. However, allowing mutational effects on synthesis rates and differences in the specific activity of homo- and heterodimers can limit or reverse the observed bias toward heterodimers. Our results show that the accumulation of more complex protein quaternary structures is likely under neutral evolution, and that natural selection would be needed to reverse this tendency.


Subject(s)
Evolution, Molecular , Gene Duplication , Mutation , Protein Interaction Maps , Selection, Genetic , Protein Interaction Maps/genetics , Protein Multimerization , Models, Genetic , Proteins/genetics , Proteins/metabolism , Proteins/chemistry , Computer Simulation
15.
Sci Rep ; 14(1): 5287, 2024 03 04.
Article in English | MEDLINE | ID: mdl-38438528

ABSTRACT

In this paper, NeuralProphet (NP), an explainable hybrid modular framework, enhances the forecasting performance of pandemics by adding two neural network modules; auto-regressor (AR) and lagged-regressor (LR). An advanced deep auto-regressor neural network (Deep-AR-Net) model is employed to implement these two modules. The enhanced NP is optimized via AdamW and Huber loss function to perform multivariate multi-step forecasting contrast to Prophet. The models are validated with COVID-19 time-series datasets. The NP's efficiency is studied component-wise for a long-term forecast for India and an overall reduction of 60.36% and individually 34.7% by AR-module, 53.4% by LR-module in MASE compared to Prophet. The Deep-AR-Net model reduces the forecasting error of NP for all five countries, on average, by 49.21% and 46.07% for short-and-long-term, respectively. The visualizations confirm that forecasting curves are closer to the actual cases but significantly different from Prophet. Hence, it can develop a real-time decision-making system for highly infectious diseases.


Subject(s)
COVID-19 , Pandemics , Humans , COVID-19/epidemiology , Computer Systems , Health Facilities , India/epidemiology
16.
3 Biotech ; 14(2): 57, 2024 Feb.
Article in English | MEDLINE | ID: mdl-38298556

ABSTRACT

Since Doxil's first clinical approval in 1995, lipid nanoparticles have garnered great interest and shown exceptional therapeutic efficacy. It is clear from the licensure of two RNA treatments and the mRNA-COVID-19 vaccination that lipid nanoparticles have immense potential for delivering nucleic acids. The review begins with a list of lipid nanoparticle types, such as liposomes and solid lipid nanoparticles. Then it moves on to the earliest lipid nanoparticle forms, outlining how lipid is used in a variety of industries and how it is used as a versatile nanocarrier platform. Lipid nanoparticles must then be functionally modified. Various approaches have been proposed for the synthesis of lipid nanoparticles, such as High-Pressure Homogenization (HPH), microemulsion methods, solvent-based emulsification techniques, solvent injection, phase reversal, and membrane contractors. High-pressure homogenization is the most commonly used method. All of the methods listed above follow four basic steps, as depicted in the flowchart below. Out of these four steps, the process of dispersing lipids in an aqueous medium to produce liposomes is the most unpredictable step. A short outline of the characterization of lipid nanoparticles follows discussions of applications for the trapping and transporting of various small molecules. It highlights the use of rapamycin-coated lipid nanoparticles in glioblastoma and how lipid nanoparticles function as a conjugator in the delivery of anticancer-targeting nucleic acids. High biocompatibility, ease of production, scalability, non-toxicity, and tailored distribution are just a meager of the enticing allowances of using lipid nanoparticles as drug delivery vehicles. Due to the present constraints in drug delivery, more research is required to utterly realize the potential of lipid nanoparticles for possible clinical and therapeutic purposes.

17.
BMC Bioinformatics ; 24(1): 458, 2023 Dec 06.
Article in English | MEDLINE | ID: mdl-38053030

ABSTRACT

Intense sun exposure is a major risk factor for the development of melanoma, an abnormal proliferation of skin cells. Yet, this more prevalent type of skin cancer can also develop in less-exposed areas, such as those that are shaded. Melanoma is the sixth most common type of skin cancer. In recent years, computer-based methods for imaging and analyzing biological systems have made considerable strides. This work investigates the use of advanced machine learning methods, specifically ensemble models with Auto Correlogram Methods, Binary Pyramid Pattern Filter, and Color Layout Filter, to enhance the detection accuracy of Melanoma skin cancer. These results suggest that the Color Layout Filter model of the Attribute Selection Classifier provides the best overall performance. Statistics for ROC, PRC, Kappa, F-Measure, and Matthews Correlation Coefficient were as follows: 90.96% accuracy, 0.91 precision, 0.91 recall, 0.95 ROC, 0.87 PRC, 0.87 Kappa, 0.91 F-Measure, and 0.82 Matthews Correlation Coefficient. In addition, its margins of error are the smallest. The research found that the Attribute Selection Classifier performed well when used in conjunction with the Color Layout Filter to improve image quality.


Subject(s)
Melanoma , Skin Neoplasms , Humans , Algorithms , Skin Neoplasms/diagnostic imaging , Melanoma/diagnostic imaging , Machine Learning , Melanoma, Cutaneous Malignant
18.
PLoS One ; 18(12): e0295234, 2023.
Article in English | MEDLINE | ID: mdl-38039306

ABSTRACT

Chronic kidney disease (CKD) has become a major global health crisis, causing millions of yearly deaths. Predicting the possibility of a person being affected by the disease will allow timely diagnosis and precautionary measures leading to preventive strategies for health. Machine learning techniques have been popularly applied in various disease diagnoses and predictions. Ensemble learning approaches have become useful for predicting many complex diseases. In this paper, we utilise the boosting method, one of the popular ensemble learnings, to achieve a higher prediction accuracy for CKD. Five boosting algorithms are employed: XGBoost, CatBoost, LightGBM, AdaBoost, and gradient boosting. We experimented with the CKD data set from the UCI machine learning repository. Various preprocessing steps are employed to achieve better prediction performance, along with suitable hyperparameter tuning and feature selection. We assessed the degree of importance of each feature in the dataset leading to CKD. The performance of each model was evaluated with accuracy, precision, recall, F1-score, Area under the curve-receiving operator characteristic (AUC-ROC), and runtime. AdaBoost was found to have the overall best performance among the five algorithms, scoring the highest in almost all the performance measures. It attained 100% and 98.47% accuracy for training and testing sets. This model also exhibited better precision, recall, and AUC-ROC curve performance.


Subject(s)
Algorithms , Renal Insufficiency, Chronic , Humans , Area Under Curve , Machine Learning , Mental Recall , Renal Insufficiency, Chronic/diagnosis
19.
BMC Bioinformatics ; 24(1): 479, 2023 Dec 15.
Article in English | MEDLINE | ID: mdl-38102551

ABSTRACT

Cancer prediction in the early stage is a topic of major interest in medicine since it allows accurate and efficient actions for successful medical treatments of cancer. Mostly cancer datasets contain various gene expression levels as features with less samples, so firstly there is a need to eliminate similar features to permit faster convergence rate of classification algorithms. These features (genes) enable us to identify cancer disease, choose the best prescription to prevent cancer and discover deviations amid different techniques. To resolve this problem, we proposed a hybrid novel technique CSSMO-based gene selection for cancer classification. First, we made alteration of the fitness of spider monkey optimization (SMO) with cuckoo search algorithm (CSA) algorithm viz., CSSMO for feature selection, which helps to combine the benefit of both metaheuristic algorithms to discover a subset of genes which helps to predict a cancer disease in early stage. Further, to enhance the accuracy of the CSSMO algorithm, we choose a cleaning process, minimum redundancy maximum relevance (mRMR) to lessen the gene expression of cancer datasets. Next, these subsets of genes are classified using deep learning (DL) to identify different groups or classes related to a particular cancer disease. Eight different benchmark microarray gene expression datasets of cancer have been utilized to analyze the performance of the proposed approach with different evaluation matrix such as recall, precision, F1-score, and confusion matrix. The proposed gene selection method with DL achieves much better classification accuracy than other existing DL and machine learning classification models with all large gene expression dataset of cancer.


Subject(s)
Algorithms , Neoplasms , Humans , Microarray Analysis , Neoplasms/genetics , Genetic Techniques , Machine Learning
20.
Sci Rep ; 13(1): 22555, 2023 12 18.
Article in English | MEDLINE | ID: mdl-38110462

ABSTRACT

Breast cancer is one of the most common cancers in women and the second foremost cause of cancer death in women after lung cancer. Recent technological advances in breast cancer treatment offer hope to millions of women in the world. Segmentation of the breast's Dynamic Contrast-Enhanced Magnetic Resonance Imaging (DCE-MRI) is one of the necessary tasks in the diagnosis and detection of breast cancer. Currently, a popular deep learning model, U-Net is extensively used in biomedical image segmentation. This article aims to advance the state of the art and conduct a more in-depth analysis with a focus on the use of various U-Net models in lesion detection in women's breast DCE-MRI. In this article, we perform an empirical study of the effectiveness and efficiency of U-Net and its derived deep learning models including ResUNet, Dense UNet, DUNet, Attention U-Net, UNet++, MultiResUNet, RAUNet, Inception U-Net and U-Net GAN for lesion detection in breast DCE-MRI. All the models are applied to the benchmarked 100 Sagittal T2-Weighted fat-suppressed DCE-MRI slices of 20 patients and their performance is compared. Also, a comparative study has been conducted with V-Net, W-Net, and DeepLabV3+. Non-parametric statistical test Wilcoxon Signed Rank Test is used to analyze the significance of the quantitative results. Furthermore, Multi-Criteria Decision Analysis (MCDA) is used to evaluate overall performance focused on accuracy, precision, sensitivity, F[Formula: see text]-score, specificity, Geometric-Mean, DSC, and false-positive rate. The RAUNet segmentation model achieved a high accuracy of 99.76%, sensitivity of 85.04%, precision of 90.21%, and Dice Similarity Coefficient (DSC) of 85.04% whereas ResNet achieved 99.62% accuracy, 62.26% sensitivity, 99.56% precision, and 72.86% DSC. ResUNet is found to be the most effective model based on MCDA. On the other hand, U-Net GAN takes the least computational time to perform the segmentation task. Both quantitative and qualitative results demonstrate that the ResNet model performs better than other models in segmenting the images and lesion detection, though computational time in achieving the objectives varies.


Subject(s)
Breast Neoplasms , Deep Learning , Humans , Female , Image Processing, Computer-Assisted/methods , Magnetic Resonance Imaging/methods , Breast/diagnostic imaging , Breast/pathology , Breast Neoplasms/pathology
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