arXiv subjects

Roohallah Alizadehsani

Publications and source records attributed to Roohallah Alizadehsani.

At least 37 records · Page 2Linked to original sources

arXiv2025

Enhancing Monte Carlo Dropout Performance for Uncertainty Quantification

Knowing the uncertainty associated with the output of a deep neural network is of paramount importance in making trustworthy decisions, particularly in high-stakes fields like medical diagnosis and autonomous systems. Monte Carlo Dropout (MCD) is a widely used method for uncertainty quantification, as it can be easily integrated into various deep architectures. However, conventional MCD often struggles with providing well-calibrated uncertainty estimates. To address this, we introduce innovative frameworks that enhances MCD by integrating different search solutions namely Grey Wolf Optimizer (GWO), Bayesian Optimization (BO), and Particle Swarm Optimization (PSO) as well as an uncertainty-aware loss function, thereby improving the reliability of uncertainty quantification. We conduct comprehensive experiments using different backbones, namely DenseNet121, ResNet50, and VGG16, on various datasets, including Cats vs. Dogs, Myocarditis, Wisconsin, and a synthetic dataset (Circles). Our proposed algorithm outperforms the MCD baseline by 2-3% on average in terms of both conventional accuracy and uncertainty accuracy while achieving significantly better calibration. These results highlight the potential of our approach to enhance the trustworthiness of deep learning models in safety-critical applications.

cs.CV↗

arXiv2025

A machine learning approach for Premature Coronary Artery Disease Diagnosis according to Different Ethnicities in Iran

Premature coronary artery disease (PCAD) refers to the early onset of the disease, usually before the age of 55 for men and 65 for women. Coronary Artery Disease (CAD) develops when coronary arteries, the major blood vessels supplying the heart with blood, oxygen, and nutrients, become clogged or diseased. This is often due to many risk factors, including lifestyle and cardiometabolic ones, but few studies were done on ethnicity as one of these risk factors, especially in PCAD. In this study, we tested the rank of ethnicity among the major risk factors of PCAD, including age, gender, body mass index (BMI), visceral obesity presented as waist circumference (WC), diabetes mellitus (DM), high blood pressure (HBP), high low-density lipoprotein cholesterol (LDL-C), and smoking in a large national sample of patients with PCAD from different ethnicities. All patients who met the age criteria underwent coronary angiography to confirm CAD diagnosis. The weight of ethnicity was compared to the other eight features using feature weighting algorithms in PCAD diagnosis. In addition, we conducted an experiment where we ran predictive models (classification algorithms) to predict PCAD. We compared the performance of these models under two conditions: we trained the classification algorithms, including or excluding ethnicity. This study analyzed various factors to determine their predictive power influencing PCAD prediction. Among these factors, gender and age were the most significant predictors, with ethnicity being the third most important. The results also showed that if ethnicity is used as one of the input risk factors for classification algorithms, it can improve their efficiency. Our results show that ethnicity ranks as an influential factor in predicting PCAD. Therefore, it needs to be addressed in the PCAD diagnostic and preventive measures.

cs.LG↗

arXiv2024

Brain Ageing Prediction using Isolation Forest Technique and Residual Neural Network (ResNet)

Brain aging is a complex and dynamic process, leading to functional and structural changes in the brain. These changes could lead to the increased risk of neurodegenerative diseases and cognitive decline. Accurate brain-age estimation utilizing neuroimaging data has become necessary for detecting initial signs of neurodegeneration. Here, we propose a novel deep learning approach using the Residual Neural Network 101 Version 2 (ResNet101V2) model to predict brain age from MRI scans. To train, validate and test our proposed model, we used a large dataset of 2102 images which were selected randomly from the International Consortium for Brain Mapping (ICBM). Next, we applied data preprocessing techniques, including normalizing the images and using outlier detection via Isolation Forest method. Then, we evaluated various pre-trained approaches (namely: MobileNetV2, ResNet50V2, ResNet101V2, Xception). The results demonstrated that the ResNet101V2 model has higher performance compared with the other models, attaining MAEs of 0.9136 and 0.8242 years for before and after using Isolation Forest process. Our method achieved a high accuracy in brain age estimation in ICBM dataset and it provides a reliable brain age prediction.

eess.IV↗

arXiv2024

Fatigue Monitoring Using Wearables and AI: Trends, Challenges, and Future Opportunities

Monitoring fatigue is essential for improving safety, particularly for people who work long shifts or in high-demand workplaces. The development of wearable technologies, such as fitness trackers and smartwatches, has made it possible to continuously analyze physiological signals in real-time to determine a person level of exhaustion. This has allowed for timely insights into preventing hazards associated with fatigue. This review focuses on wearable technology and artificial intelligence (AI) integration for tiredness detection, adhering to the PRISMA principles. Studies that used signal processing methods to extract pertinent aspects from physiological data, such as ECG, EMG, and EEG, among others, were analyzed as part of the systematic review process. Then, to find patterns of weariness and indicators of impending fatigue, these features were examined using machine learning and deep learning models. It was demonstrated that wearable technology and cutting-edge AI methods could accurately identify weariness through multi-modal data analysis. By merging data from several sources, information fusion techniques enhanced the precision and dependability of fatigue evaluation. Significant developments in AI-driven signal analysis were noted in the assessment, which should improve real-time fatigue monitoring while requiring less interference. Wearable solutions powered by AI and multi-source data fusion present a strong option for real-time tiredness monitoring in the workplace and other crucial environments. These developments open the door for more improvements in this field and offer useful tools for enhancing safety and reducing fatigue-related hazards.

cs.HC↗

arXiv2024

Enhancing Multiagent Genetic Network Programming Performance Using Search Space Reduction

Genetic Network Programming (GNP) is an evolutionary algorithm that extends Genetic Programming (GP). It is typically used in agent control problems. In contrast to GP, which employs a tree structure, GNP utilizes a directed graph structure. During the evolutionary process, the connections between nodes change to discover the optimal strategy. Due to the large number of node connections, GNP has a large search space, making it challenging to identify an appropriate graph structure. One way to reduce this search space is by utilizing simplified operators that restrict the changeable node connections to those participating in the fitness function. However, this method has not been applied to GNP structures that use separate graphs for each agent, such as situation-based GNP (SBGNP). This paper proposes a method to apply simplified operators to SBGNP. To evaluate the performance of this method, we tested it on the Tileworld benchmark, where the algorithm demonstrated improvements in average fitness.

cs.MA↗

arXiv2024

Complex Emotion Recognition System using basic emotions via Facial Expression, EEG, and ECG Signals: a review

The Complex Emotion Recognition System (CERS) deciphers complex emotional states by examining combinations of basic emotions expressed, their interconnections, and the dynamic variations. Through the utilization of advanced algorithms, CERS provides profound insights into emotional dynamics, facilitating a nuanced understanding and customized responses. The attainment of such a level of emotional recognition in machines necessitates the knowledge distillation and the comprehension of novel concepts akin to human cognition. The development of AI systems for discerning complex emotions poses a substantial challenge with significant implications for affective computing. Furthermore, obtaining a sizable dataset for CERS proves to be a daunting task due to the intricacies involved in capturing subtle emotions, necessitating specialized methods for data collection and processing. Incorporating physiological signals such as Electrocardiogram (ECG) and Electroencephalogram (EEG) can notably enhance CERS by furnishing valuable insights into the user's emotional state, enhancing the quality of datasets, and fortifying system dependability. A comprehensive literature review was conducted in this study to assess the efficacy of machine learning, deep learning, and meta-learning approaches in both basic and complex emotion recognition utilizing EEG, ECG signals, and facial expression datasets. The chosen research papers offer perspectives on potential applications, clinical implications, and results of CERSs, with the objective of promoting their acceptance and integration into clinical decision-making processes. This study highlights research gaps and challenges in understanding CERSs, encouraging further investigation by relevant studies and organizations. Lastly, the significance of meta-learning approaches in improving CERS performance and guiding future research endeavors is underscored.

eess.SP↗

arXiv2024

Artificial Intelligence in Assessing Cardiovascular Diseases and Risk Factors via Retinal Fundus Images: A Review of the Last Decade

Background: Cardiovascular diseases (CVDs) are the leading cause of death globally. The use of artificial intelligence (AI) methods - in particular, deep learning (DL) - has been on the rise lately for the analysis of different CVD-related topics. The use of fundus images and optical coherence tomography angiography (OCTA) in the diagnosis of retinal diseases has also been extensively studied. To better understand heart function and anticipate changes based on microvascular characteristics and function, researchers are currently exploring the integration of AI with non-invasive retinal scanning. There is great potential to reduce the number of cardiovascular events and the financial strain on healthcare systems by utilizing AI-assisted early detection and prediction of cardiovascular diseases on a large scale. Method: A comprehensive search was conducted across various databases, including PubMed, Medline, Google Scholar, Scopus, Web of Sciences, IEEE Xplore, and ACM Digital Library, using specific keywords related to cardiovascular diseases and artificial intelligence. Results: The study included 87 English-language publications selected for relevance, and additional references were considered. This paper provides an overview of the recent developments and difficulties in using artificial intelligence and retinal imaging to diagnose cardiovascular diseases. It provides insights for further exploration in this field. Conclusion: Researchers are trying to develop precise disease prognosis patterns in response to the aging population and the growing global burden of CVD. AI and deep learning are revolutionizing healthcare by potentially diagnosing multiple CVDs from a single retinal image. However, swifter adoption of these technologies in healthcare systems is required.

q-bio.QM↗

arXiv2024

Designing Interpretable ML System to Enhance Trust in Healthcare: A Systematic Review to Proposed Responsible Clinician-AI-Collaboration Framework

This paper explores the significant impact of AI-based medical devices, including wearables, telemedicine, large language models, and digital twins, on clinical decision support systems. It emphasizes the importance of producing outcomes that are not only accurate but also interpretable and understandable to clinicians, addressing the risk that lack of interpretability poses in terms of mistrust and reluctance to adopt these technologies in healthcare. The paper reviews interpretable AI processes, methods, applications, and the challenges of implementation in healthcare, focusing on quality control to facilitate responsible communication between AI systems and clinicians. It breaks down the interpretability process into data pre-processing, model selection, and post-processing, aiming to foster a comprehensive understanding of the crucial role of a robust interpretability approach in healthcare and to guide future research in this area. with insights for creating responsible clinician-AI tools for healthcare, as well as to offer a deeper understanding of the challenges they might face. Our research questions, eligibility criteria and primary goals were identified using Preferred Reporting Items for Systematic reviews and Meta-Analyses guideline and PICO method; PubMed, Scopus and Web of Science databases were systematically searched using sensitive and specific search strings. In the end, 52 publications were selected for data extraction which included 8 existing reviews and 44 related experimental studies. The paper offers general concepts of interpretable AI in healthcare and discuss three-levels interpretability process. Additionally, it provides a comprehensive discussion of evaluating robust interpretability AI in healthcare. Moreover, this survey introduces a step-by-step roadmap for implementing responsible AI in healthcare.

cs.AI↗

arXiv2024

Artificial Intelligence and Diabetes Mellitus: An Inside Look Through the Retina

Diabetes mellitus (DM) predisposes patients to vascular complications. Retinal images and vasculature reflect the body's micro- and macrovascular health. They can be used to diagnose DM complications, including diabetic retinopathy (DR), neuropathy, nephropathy, and atherosclerotic cardiovascular disease, as well as forecast the risk of cardiovascular events. Artificial intelligence (AI)-enabled systems developed for high-throughput detection of DR using digitized retinal images have become clinically adopted. Beyond DR screening, AI integration also holds immense potential to address challenges associated with the holistic care of the patient with DM. In this work, we aim to comprehensively review the literature for studies on AI applications based on retinal images related to DM diagnosis, prognostication, and management. We will describe the findings of holistic AI-assisted diabetes care, including but not limited to DR screening, and discuss barriers to implementing such systems, including issues concerning ethics, data privacy, equitable access, and explainability. With the ability to evaluate the patient's health status vis a vis DM complication as well as risk prognostication of future cardiovascular complications, AI-assisted retinal image analysis has the potential to become a central tool for modern personalized medicine in patients with DM.

eess.IV↗

arXiv2024

Current and future roles of artificial intelligence in retinopathy of prematurity

Retinopathy of prematurity (ROP) is a severe condition affecting premature infants, leading to abnormal retinal blood vessel growth, retinal detachment, and potential blindness. While semi-automated systems have been used in the past to diagnose ROP-related plus disease by quantifying retinal vessel features, traditional machine learning (ML) models face challenges like accuracy and overfitting. Recent advancements in deep learning (DL), especially convolutional neural networks (CNNs), have significantly improved ROP detection and classification. The i-ROP deep learning (i-ROP-DL) system also shows promise in detecting plus disease, offering reliable ROP diagnosis potential. This research comprehensively examines the contemporary progress and challenges associated with using retinal imaging and artificial intelligence (AI) to detect ROP, offering valuable insights that can guide further investigation in this domain. Based on 89 original studies in this field (out of 1487 studies that were comprehensively reviewed), we concluded that traditional methods for ROP diagnosis suffer from subjectivity and manual analysis, leading to inconsistent clinical decisions. AI holds great promise for improving ROP management. This review explores AI's potential in ROP detection, classification, diagnosis, and prognosis.

eess.IV↗

arXiv2024

Automated Detection and Forecasting of COVID-19 using Deep Learning Techniques: A Review

Coronavirus, or COVID-19, is a hazardous disease that has endangered the health of many people around the world by directly affecting the lungs. COVID-19 is a medium-sized, coated virus with a single-stranded RNA, and also has one of the largest RNA genomes and is approximately 120 nm. The X-Ray and computed tomography (CT) imaging modalities are widely used to obtain a fast and accurate medical diagnosis. Identifying COVID-19 from these medical images is extremely challenging as it is time-consuming and prone to human errors. Hence, artificial intelligence (AI) methodologies can be used to obtain consistent high performance. Among the AI methods, deep learning (DL) networks have gained popularity recently compared to conventional machine learning (ML). Unlike ML, all stages of feature extraction, feature selection, and classification are accomplished automatically in DL models. In this paper, a complete survey of studies on the application of DL techniques for COVID-19 diagnostic and segmentation of lungs is discussed, concentrating on works that used X-Ray and CT images. Additionally, a review of papers on the forecasting of coronavirus prevalence in different parts of the world with DL is presented. Lastly, the challenges faced in the detection of COVID-19 using DL techniques and directions for future research are discussed.

cs.LG↗

arXiv2023

Automated detection of Zika and dengue in Aedes aegypti using neural spiking analysis

Mosquito-borne diseases present considerable risks to the health of both animals and humans. Aedes aegypti mosquitoes are the primary vectors for numerous medically important viruses such as dengue, Zika, yellow fever, and chikungunya. To characterize this mosquito neural activity, it is essential to classify the generated electrical spikes. However, no open-source neural spike classification method is currently available for mosquitoes. Our work presented in this paper provides an innovative artificial intelligence-based method to classify the neural spikes in uninfected, dengue-infected, and Zika-infected mosquitoes. Aiming for outstanding performance, the method employs a fusion of normalization, feature importance, and dimension reduction for the preprocessing and combines convolutional neural network and extra gradient boosting (XGBoost) for classification. The method uses the electrical spiking activity data of mosquito neurons recorded by microelectrode array technology. We used data from 0, 1, 2, 3, and 7 days post-infection, containing over 15 million samples, to analyze the method's performance. The performance of the proposed method was evaluated using accuracy, precision, recall, and the F1 scores. The results obtained from the method highlight its remarkable performance in differentiating infected vs uninfected mosquito samples, achieving an average of 98.1%. The performance was also compared with 6 other machine learning algorithms to further assess the method's capability. The method outperformed all other machine learning algorithms' performance. Overall, this research serves as an efficient method to classify the neural spikes of Aedes aegypti mosquitoes and can assist in unraveling the complex interactions between pathogens and mosquitoes.

cs.LG↗

arXiv2023

Automatic Diagnosis of Myocarditis Disease in Cardiac MRI Modality using Deep Transformers and Explainable Artificial Intelligence

Myocarditis is a significant cardiovascular disease (CVD) that poses a threat to the health of many individuals by causing damage to the myocardium. The occurrence of microbes and viruses, including the likes of HIV, plays a crucial role in the development of myocarditis disease (MCD). The images produced during cardiac magnetic resonance imaging (CMRI) scans are low contrast, which can make it challenging to diagnose cardiovascular diseases. In other hand, checking numerous CMRI slices for each CVD patient can be a challenging task for medical doctors. To overcome the existing challenges, researchers have suggested the use of artificial intelligence (AI)-based computer-aided diagnosis systems (CADS). The presented paper outlines a CADS for the detection of MCD from CMR images, utilizing deep learning (DL) methods. The proposed CADS consists of several steps, including dataset, preprocessing, feature extraction, classification, and post-processing. First, the Z-Alizadeh dataset was selected for the experiments. Subsequently, the CMR images underwent various preprocessing steps, including denoising, resizing, as well as data augmentation (DA) via CutMix and MixUp techniques. In the following, the most current deep pre-trained and transformer models are used for feature extraction and classification on the CMR images. The findings of our study reveal that transformer models exhibit superior performance in detecting MCD as opposed to pre-trained architectures. In terms of DL architectures, the Turbulence Neural Transformer (TNT) model exhibited impressive accuracy, reaching 99.73% utilizing a 10-fold cross-validation approach. Additionally, to pinpoint areas of suspicion for MCD in CMRI images, the Explainable-based Grad Cam method was employed.

cs.CV↗

arXiv2023

An Investigation of Hepatitis B Virus Genome using Markov Models

The human genome encodes a family of editing enzymes known as APOBEC3 (apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3). Several family members, such as APO-BEC3G, APOBEC3F, and APOBEC3H haplotype II, exhibit activity against viruses such as HIV. These enzymes induce C-to-U mutations in the negative strand of viral genomes, resulting in multiple G-to-A changes, commonly referred to as 'hypermutation.' Mutations catalyzed by these enzymes are sequence context-dependent in the HIV genome; for instance, APOBEC3G preferen-tially mutates G within GG, TGG, and TGGG contexts, while other members mutate G within GA, TGA, and TGAA contexts. However, the same sequence context has not been explored in relation to these enzymes and HBV. In this study, our objective is to identify the mutational footprint of APOBEC3 enzymes in the HBV genome. To achieve this, we employ a multivariable data analytics technique to investigate motif preferences and potential sequence hierarchies of mutation by APOBEC3 enzymes using full genome HBV sequences from a diverse range of naturally infected patients. This approach allows us to distinguish between normal and hypermutated sequences based on the representation of mono- to tetra-nucleotide motifs. Additionally, we aim to identify motifs associated with hypermutation induced by different APOBEC3 enzymes in HBV genomes. Our analyses reveal that either APOBEC3 enzymes are not active against HBV, or the induction of G-to-A mutations by these enzymes is not sequence context-dependent in the HBV genome.

q-bio.GN↗

arXiv2023

Explainable Artificial Intelligence for Drug Discovery and Development -- A Comprehensive Survey

The field of drug discovery has experienced a remarkable transformation with the advent of artificial intelligence (AI) and machine learning (ML) technologies. However, as these AI and ML models are becoming more complex, there is a growing need for transparency and interpretability of the models. Explainable Artificial Intelligence (XAI) is a novel approach that addresses this issue and provides a more interpretable understanding of the predictions made by machine learning models. In recent years, there has been an increasing interest in the application of XAI techniques to drug discovery. This review article provides a comprehensive overview of the current state-of-the-art in XAI for drug discovery, including various XAI methods, their application in drug discovery, and the challenges and limitations of XAI techniques in drug discovery. The article also covers the application of XAI in drug discovery, including target identification, compound design, and toxicity prediction. Furthermore, the article suggests potential future research directions for the application of XAI in drug discovery. The aim of this review article is to provide a comprehensive understanding of the current state of XAI in drug discovery and its potential to transform the field.

cs.AI↗

arXiv2023

Machine Learning Meets Advanced Robotic Manipulation

Automated industries lead to high quality production, lower manufacturing cost and better utilization of human resources. Robotic manipulator arms have major role in the automation process. However, for complex manipulation tasks, hard coding efficient and safe trajectories is challenging and time consuming. Machine learning methods have the potential to learn such controllers based on expert demonstrations. Despite promising advances, better approaches must be developed to improve safety, reliability, and efficiency of ML methods in both training and deployment phases. This survey aims to review cutting edge technologies and recent trends on ML methods applied to real-world manipulation tasks. After reviewing the related background on ML, the rest of the paper is devoted to ML applications in different domains such as industry, healthcare, agriculture, space, military, and search and rescue. The paper is closed with important research directions for future works.

cs.RO↗

arXiv2023

AI Framework for Early Diagnosis of Coronary Artery Disease: An Integration of Borderline SMOTE, Autoencoders and Convolutional Neural Networks Approach

The accuracy of coronary artery disease (CAD) diagnosis is dependent on a variety of factors, including demographic, symptom, and medical examination, ECG, and echocardiography data, among others. In this context, artificial intelligence (AI) can help clinicians identify high-risk patients early in the diagnostic process, by synthesizing information from multiple factors. To this aim, Machine Learning algorithms are used to classify patients based on their CAD disease risk. In this study, we contribute to this research filed by developing a methodology for balancing and augmenting data for more accurate prediction when the data is imbalanced and the sample size is small. The methodology can be used in a variety of other situations, particularly when data collection is expensive and the sample size is small. The experimental results revealed that the average accuracy of our proposed method for CAD prediction was 95.36, and was higher than random forest (RF), decision tree (DT), support vector machine (SVM), logistic regression (LR), and artificial neural network (ANN).

cs.AI↗

arXiv2023

Deep Learning in Spatially Resolved Transcriptomics: A Comprehensive Technical View

Spatially resolved transcriptomics (SRT) has evolved rapidly through various technologies, enabling scientists to investigate both morphological contexts and gene expression profiling at single-cell resolution in parallel. SRT data are complex and multi-modal, comprising gene expression matrices, spatial information, and often high-resolution histology images. Because of this complexity and multi-modality, sophisticated computational algorithms are required to accurately analyze SRT data. Most efforts in this domain have been made to utilize conventional machine learning and statistical approaches, exhibiting sub-optimal results due to the complicated nature of SRT datasets. To address these shortcomings, researchers have recently employed deep learning algorithms including various state-of-the-art methods mainly in spatial clustering, spatially variable gene identification, and alignment. While great progress has been made in developing deep learning-based models for SRT data analysis, further improvement is still needed to create more biologically aware models that consider aspects such as phylogeny-aware clustering or the analysis of small histology image patches. Additionally, strategies for batch effect removal, normalization, and handling overdispersion and zero inflation patterns of gene expression are still needed in the analysis of SRT data using deep learning methods. In this paper, we provide a comprehensive overview of these deep learning methods, including their strengths and limitations. We also highlight new frontiers, current challenges, limitations, and open questions in this field. Also, we provide a comprehensive list of all available SRT databases that can be used as an extensive resource for future studies.

q-bio.GN↗