SASAN: ground truth for the effective segmentation and classification of skin cancer using biopsy images.

OBJECTIVES: Early skin cancer diagnosis can save lives; however, traditional methods rely on expert knowledge and can be time-consuming. This calls for automated systems using machine learning and deep learning. However, existing datasets often focus on flat skin surfaces, neglecting more complex cases on organs or with nearby lesions. METHODS: This work addresses this gap by proposing a skin cancer diagnosis methodology using a dataset named ASAN that covers diverse skin cancer cases but suffers from noisy features. To overcome the noisy feature problem, a segmentation dataset named SASAN is introduced, focusing on Region of Interest (ROI) extraction-based classification. This allows models to concentrate on critical areas within the images while ignoring learning the noisy features. RESULTS: Various deep learning segmentation models such as UNet, LinkNet, PSPNet, and FPN were trained on the SASAN dataset to perform segmentation-based ROI extraction. Classification was then performed using the dataset with and without ROI extraction. The results demonstrate that ROI extraction significantly improves the performance of these models in classification. This implies that SASAN is effective in evaluating performance metrics for complex skin cancer cases. CONCLUSIONS: This study highlights the importance of expanding datasets to include challenging scenarios and developing better segmentation methods to enhance automated skin cancer diagnosis. The SASAN dataset serves as a valuable tool for researchers aiming to improve such systems and ultimately contribute to better diagnostic outcomes.

Parkinson's disease detection based on features refinement through L1 regularized SVM and deep neural network.

In previous studies, replicated and multiple types of speech data have been used for Parkinson's disease (PD) detection. However, two main problems in these studies are lower PD detection accuracy and inappropriate validation methodologies leading to unreliable results. This study discusses the effects of inappropriate validation methodologies used in previous studies and highlights the use of appropriate alternative validation methods that would ensure generalization. To enhance PD detection accuracy, we propose a two-stage diagnostic system that refines the extracted set of features through [Formula: see text] regularized linear support vector machine and classifies the refined subset of features through a deep neural network. To rigorously evaluate the effectiveness of the proposed diagnostic system, experiments are performed on two different voice recording-based benchmark datasets. For both datasets, the proposed diagnostic system achieves 100% accuracy under leave-one-subject-out (LOSO) cross-validation (CV) and 97.5% accuracy under k-fold CV. The results show that the proposed system outperforms the existing methods regarding PD detection accuracy. The results suggest that the proposed diagnostic system is essential to improving non-invasive diagnostic decision support in PD.

The evolution of renewable energy environments utilizing artificial intelligence to enhance energy efficiency and finance.

The development of a country is inseparable from the material guarantee mainly based on energy, but energy is limited, which may restrict the sustainable development of the country. It is very necessary to accelerate the adoption of programs aimed at switching non-renewable energy sources to ones that are, and giving priority to improving renewable energy consumption and storage capabilities. From the experience of the G7 economies, the development of renewable energy (RE) is inevitable and urgent. The China Banking Regulatory Commission has recently issued a number of directives, such as the "Directives for Green Credit" and "Instructions for Granting Credit to Support Energy Conservation and Emission Reduction," to help businesses that use "renewable energy expand". This article firstly discussed the definition of the "green institutional environment" (GIE) and the construction of the index system. Then, on the basis of clarifying the relationship between the GIE, and RE investment theory, a semi-parametric regression model was constructed to empirically analyze the mode and effect of the GIE. Considering the balance between improving model accuracy and reducing computational complexity, the number of hidden nodes opted in this study is 300 so as to lower the time needed to predict the model. Finally, from the perspective of enterprise scale, the level of GIE played a significant role in promoting RE investment in small and medium-sized enterprises, with a coefficient of 1.8276, while the impact on RE investment in large enterprises had not passed the significance test. Based on the conclusions, the government should focus on building a GIE dominated by green regulatory systems, supplemented by green disclosure and supervision systems, and green accounting systems, and should make reasonable plans for releasing various policy directives. At the same time, while offering full play to the guiding role of the policy, its rationality should also be paid attention to, and the excessive implementation of the policy should be avoided, so that an orderly, and good GIE can be created.

Breaking barriers: a statistical and machine learning-based hybrid system for predicting dementia.

Introduction: Dementia is a condition (a collection of related signs and symptoms) that causes a continuing deterioration in cognitive function, and millions of people are impacted by dementia every year as the world population continues to rise. Conventional approaches for determining dementia rely primarily on clinical examinations, analyzing medical records, and administering cognitive and neuropsychological testing. However, these methods are time-consuming and costly in terms of treatment. Therefore, this study aims to present a noninvasive method for the early prediction of dementia so that preventive steps should be taken to avoid dementia. Methods: We developed a hybrid diagnostic system based on statistical and machine learning (ML) methods that used patient electronic health records to predict dementia. The dataset used for this study was obtained from the Swedish National Study on Aging and Care (SNAC), with a sample size of 43040 and 75 features. The newly constructed diagnostic extracts a subset of useful features from the dataset through a statistical method (F-score). For the classification, we developed an ensemble voting classifier based on five different ML models: decision tree (DT), naive Bayes (NB), logistic regression (LR), support vector machines (SVM), and random forest (RF). To address the problem of ML model overfitting, we used a cross-validation approach to evaluate the performance of the proposed diagnostic system. Various assessment measures, such as accuracy, sensitivity, specificity, receiver operating characteristic (ROC) curve, and Matthew's correlation coefficient (MCC), were used to thoroughly validate the devised diagnostic system's efficiency. Results: According to the experimental results, the proposed diagnostic method achieved the best accuracy of 98.25%, as well as sensitivity of 97.44%, specificity of 95.744%, and MCC of 0.7535. Discussion: The effectiveness of the proposed diagnostic approach is compared to various cutting-edge feature selection techniques and baseline ML models. From experimental results, it is evident that the proposed diagnostic system outperformed the prior feature selection strategies and baseline ML models regarding accuracy.

A Rule-Based Inference Framework to Explore and Explain the Biological Related Mechanisms of Potential Drug-Drug Interactions.

As more drugs are developed and the incidence of polypharmacy increases, it is becoming critically important to anticipate potential DDIs before they occur in the clinic, along with those for which effects might go unobserved. However, traditional methods for DDI identification are unable to coalesce interaction mechanisms out of vast lists of potential or known DDIs, much less study them accurately. Computational methods have great promise but have realized only limited clinical utility. This work develops a rule-based inference framework to predict DDI mechanisms and support determination of their clinical relevance. Given a drug pair, our framework interrogates and describes DDI mechanisms based on a knowledge graph that integrates extensive available biomedical resources through semantic web technologies and backward chaining inference, effectively identifying facts within the graph that prove and explain the mechanisms of the drugs' interaction. The framework was evaluated through a case study combining a chemotherapy agent, irinotecan, and a widely used antibiotic, levofloxacin. The mutual interactions identified indicate that our framework can effectively explore and explain the mechanisms of potential DDIs. This approach has the potential to improve drug discovery and design and to support rapid and cost-effective identification of DDIs along with their putative mechanisms, a key step in determining clinical relevance and supporting clinical decision-making.

Anti-DDI Resource: A Dataset for Potential Negative Reported Interaction Combinations to Improve Medical Research and Decision-Making.

Potential drug-drug interactions (DDIs) are a core concern across medical decision support systems. Among healthcare practitioners, the common practice for screening these interactions is via computer software. However, as real-world negative reporting is missing, counterexamples that serve as contradictory evidence may exist. In this study, we have developed an anti-DDI resource, a set of drug combinations having negative reported interactions. This resource was created from a set of the top 200 most-used drugs, resulting in 14365 prospective negative reported DDI pairs. During analysis and filtering, 2110 DDIs (14.69%) were found in publicly free DDI resources, another 11130 (77.48%) were filtered by a rule-based inference engine incorporating ten mechanisms of interaction, and 208 were identified through commercial resources. Additionally, 90 pairs were removed due to recent FDA approvals or being unapplicable in clinical use. The final set of 827 drug pairs represents combinations potentially having negative reported interactions. The anti-DDI resource is intended to provide a distinctly different direction from the state of the art and establish a ground focus more centered on the evaluation and utilization of existing knowledge for performing thorough assessments. Our negative reported DDIs resource shall provide healthcare practitioners with a level of certainty on DDIs that is worth investigating.

COVID-19 Identification System Using Transfer Learning Technique With Mobile-NetV2 and Chest X-Ray Images.

Diagnosis is a crucial precautionary step in research studies of the coronavirus disease, which shows indications similar to those of various pneumonia types. The COVID-19 pandemic has caused a significant outbreak in more than 150 nations and has significantly affected the wellness and lives of many individuals globally. Particularly, discovering the patients infected with COVID-19 early and providing them with treatment is an important way of fighting the pandemic. Radiography and radiology could be the fastest techniques for recognizing infected individuals. Artificial intelligence strategies have the potential to overcome this difficulty. Particularly, transfer learning MobileNetV2 is a convolutional neural network architecture that can perform well on mobile devices. In this study, we used MobileNetV2 with transfer learning and augmentation data techniques as a classifier to recognize the coronavirus disease. Two datasets were used: the first consisted of 309 chest X-ray images (102 with COVID-19 and 207 were normal), and the second consisted of 516 chest X-ray images (102 with COVID-19 and 414 were normal). We assessed the model based on its sensitivity rate, specificity rate, confusion matrix, and F1-measure. Additionally, we present a receiver operating characteristic curve. The numerical simulation reveals that the model accuracy is 95.8% and 100% at dropouts of 0.3 and 0.4, respectively. The model was implemented using Keras and Python programming.

A Data-Driven Medical Decision Framework for Associating Adverse Drug Events with Drug-Drug Interaction Mechanisms.

Adverse drug events (ADEs) occur when multiple drugs interact within an individual, thus causing effects that were not initially predicted. Such toxic interactions lead to morbidity and mortality. Contemporary research surrounding ADEs has tended to focus on the detection of potential ADEs without great concern for elucidating the associations of drug-drug interaction (DDI) mechanisms that can predict potential adverse drug reactions (ADRs). Such associations are of great practical importance for everyday pharmacovigilance efforts. This study presents a data-driven framework for conducting knowledge-driven data analysis that combines a semantic inference system and enrichment analysis in order to identify potential ADE mechanisms. The framework was used to rank mechanisms according to their relevance for DDIs and also to categorize ADEs based on the number of DDI mechanism associations identified through enrichment analysis. Its validity is demonstrated through using both commercial and publicly available DDI resources. The results of this study solidly prove the framework's effectiveness and highlight potential for future research by way of incorporating additional and broader data to deepen and expand its capabilities.

Improving bioinformatics software quality through incorporation of software engineering practices.

BACKGROUND: Bioinformatics software is developed for collecting, analyzing, integrating, and interpreting life science datasets that are often enormous. Bioinformatics engineers often lack the software engineering skills necessary for developing robust, maintainable, reusable software. This study presents review and discussion of the findings and efforts made to improve the quality of bioinformatics software. METHODOLOGY: A systematic review was conducted of related literature that identifies core software engineering concepts for improving bioinformatics software development: requirements gathering, documentation, testing, and integration. The findings are presented with the aim of illuminating trends within the research that could lead to viable solutions to the struggles faced by bioinformatics engineers when developing scientific software. RESULTS: The findings suggest that bioinformatics engineers could significantly benefit from the incorporation of software engineering principles into their development efforts. This leads to suggestion of both cultural changes within bioinformatics research communities as well as adoption of software engineering disciplines into the formal education of bioinformatics engineers. Open management of scientific bioinformatics development projects can result in improved software quality through collaboration amongst both bioinformatics engineers and software engineers. CONCLUSIONS: While strides have been made both in identification and solution of issues of particular import to bioinformatics software development, there is still room for improvement in terms of shifts in both the formal education of bioinformatics engineers as well as the culture and approaches of managing scientific bioinformatics research and development efforts.

COVID-19 related treatment and outcomes among COVID-19 ICU patients: A retrospective cohort study.

BACKGROUND: The COVID-19 pandemic remains an immediate and present concern, yet as of now there is still no approved therapeutic available for the treatment of COVID-19.This study aimed to investigate and report evidence concerning demographic characteristics and currently-used medications that contribute to the ultimate outcomes of COVID-19 ICU patients. METHODS: A retrospective cohort study was conducted among all COVID-19 patients in the Intensive Care Unit (ICU) of Asir Central Hospital in Saudi Arabia between the 1st and 30th of June 2020. Data extracted from patients' medical records included their demographics, home medications, medications used to treat COVID-19, treatment durations, ICU stay, hospital stay, and ultimate outcome (recovery or death).Descriptive statistics and regression modelling were used to analyze and compare the results. The study was approved by the Institutional Ethics Committees at both Asir Central Hospital and King Khalid University. RESULTS: A total of 118 patients with median age of 57 years having definite clinical and disease outcomes were included in the study. Male patients accounted for 87% of the study population, and more than 65% experienced at least one comorbidity. The mean hospital and ICU stay was 11.4 and 9.8 days, respectively. The most common drugs used were tocilizumab (31.4%), triple combination therapy (45.8%), favipiravir (56.8%), dexamethasone (86.7%), and enoxaparin (83%). Treatment with enoxaparin significantly reduced the length of ICU stay (p = 0.04) and was found to be associated with mortality reduction in patients aged 50-75 (p = 0.03), whereas the triple regimen therapy and tocilizumab significantly increased the length of ICU stay in all patients (p = 0.01, p = 0.02 respectively). CONCLUSION: COVID-19 tends to affect males more significantly than females. The use of enoxaparin is an important part of COVID-19 treatment, especially for those above 50 years of age, while the use of triple combination therapy and tocilizumab in COVID-19 protocols should be reevaluated and restricted to patients who have high likelihood of benefit.

Analysis of the Stochastic Population Model with Random Parameters.

The population models allow for a better understanding of the dynamical interactions with the environment and hence can provide a way for understanding the population changes. They are helpful in studying the biological invasions, environmental conservation and many other applications. These models become more complicated when accounting for the stochastic and/or random variations due to different sources. In the current work, a spectral technique is suggested to analyze the stochastic population model with random parameters. The model contains mixed sources of uncertainties, noise and uncertain parameters. The suggested algorithm uses the spectral decompositions for both types of randomness. The spectral techniques have the advantages of high rates of convergence. A deterministic system is derived using the statistical properties of the random bases. The classical analytical and/or numerical techniques can be used to analyze the deterministic system and obtain the solution statistics. The technique presented in the current work is applicable to many complex systems with both stochastic and random parameters. It has the advantage of separating the contributions due to different sources of uncertainty. Hence, the sensitivity index of any uncertain parameter can be evaluated. This is a clear advantage compared with other techniques used in the literature.

A computational approach to predict multi-pathway drug-drug interactions: A case study of irinotecan, a colon cancer medication.

Drug-drug interactions (DDIs) are a potentially distressing corollary of drug interventions, and may result in discomfort, debilitating illness, or even death. Existing research predominantly considers only a single level of interaction; however, serious health complications may result from multi-pathway DDIs, and so new methods are needed to enable predicting and preventing complex DDIs. This article introduces a novel method for the prediction of DDIs at two pharmacological levels (metabolic and transporter interactions) by means of a rule-based model implemented with Semantic Web technologies. The chemotherapy agent irinotecan is used as a case study for demonstrating the validity of this approach. Mechanistic and interaction data were mined from available sources and then used to predict interactors of irinotecan, including potential DDIs mediated by previously unidentified mechanisms. The findings also draw attention to the profound variation between DDI resources, indicating that clinical practice would see significant value from the development of an evidence-based resource to support DDI identification.

A Feature-Driven Decision Support System for Heart Failure Prediction Based on χ 2 Statistical Model and Gaussian Naive Bayes.

Heart failure (HF) is considered a deadliest disease worldwide. Therefore, different intelligent medical decision support systems have been widely proposed for detection of HF in literature. However, low rate of accuracies achieved on the HF data is a major problem in these decision support systems. To improve the prediction accuracy, we have developed a feature-driven decision support system consisting of two main stages. In the first stage, χ 2 statistical model is used to rank the commonly used 13 HF features. Based on the χ 2 test score, an optimal subset of features is searched using forward best-first search strategy. In the second stage, Gaussian Naive Bayes (GNB) classifier is used as a predictive model. The performance of the newly proposed method (χ 2-GNB) is evaluated by using an online heart disease database of 297 subjects. Experimental results show that our proposed method could achieve a prediction accuracy of 93.33%. The developed method (i.e., χ 2-GNB) improves the HF prediction performance of GNB model by 3.33%. Moreover, the newly proposed method also shows better performance than the available methods in literature that achieved accuracies in the range of 57.85-92.22%.

Ontology-based prediction of cancer driver genes.

Identifying and distinguishing cancer driver genes among thousands of candidate mutations remains a major challenge. Accurate identification of driver genes and driver mutations is critical for advancing cancer research and personalizing treatment based on accurate stratification of patients. Due to inter-tumor genetic heterogeneity many driver mutations within a gene occur at low frequencies, which make it challenging to distinguish them from non-driver mutations. We have developed a novel method for identifying cancer driver genes. Our approach utilizes multiple complementary types of information, specifically cellular phenotypes, cellular locations, functions, and whole body physiological phenotypes as features. We demonstrate that our method can accurately identify known cancer driver genes and distinguish between their role in different types of cancer. In addition to confirming known driver genes, we identify several novel candidate driver genes. We demonstrate the utility of our method by validating its predictions in nasopharyngeal cancer and colorectal cancer using whole exome and whole genome sequencing.

Drug-drug interaction discovery and demystification using Semantic Web technologies.

OBJECTIVE: To develop a novel pharmacovigilance inferential framework to infer mechanistic explanations for asserted drug-drug interactions (DDIs) and deduce potential DDIs. MATERIALS AND METHODS: A mechanism-based DDI knowledge base was constructed by integrating knowledge from several existing sources at the pharmacokinetic, pharmacodynamic, pharmacogenetic, and multipathway interaction levels. A query-based framework was then created to utilize this integrated knowledge base in conjunction with 9 inference rules to infer mechanistic explanations for asserted DDIs and deduce potential DDIs. RESULTS: The drug-drug interactions discovery and demystification (D3) system achieved an overall 85% recall rate in terms of inferring mechanistic explanations for the DDIs integrated into its knowledge base, while demonstrating a 61% precision rate in terms of the inference or lack of inference of mechanistic explanations for a balanced, randomly selected collection of interacting and noninteracting drug pairs. DISCUSSION: The successful demonstration of the D3 system's ability to confirm interactions involving well-studied drugs enhances confidence in its ability to deduce interactions involving less-studied drugs. In its demonstration, the D3 system infers putative explanations for most of its integrated DDIs. Further enhancements to this work in the future might include ranking interaction mechanisms based on likelihood of applicability, determining the likelihood of deduced DDIs, and making the framework publicly available. CONCLUSION: The D3 system provides an early-warning framework for augmenting knowledge of known DDIs and deducing unknown DDIs. It shows promise in suggesting interaction pathways of research and evaluation interest and aiding clinicians in evaluating and adjusting courses of drug therapy.