Fine tuning deep learning models for breast tumor classification.

This paper proposes an approach to enhance the differentiation task between benign and malignant Breast Tumors (BT) using histopathology images from the BreakHis dataset. The main stages involve preprocessing, which encompasses image resizing, data partitioning (training and testing sets), followed by data augmentation techniques. Both feature extraction and classification tasks are employed by a Custom CNN. The experimental results show that the proposed approach using the Custom CNN model exhibits better performance with an accuracy of 84% than applying the same approach using other pretrained models, including MobileNetV3, EfficientNetB0, Vgg16, and ResNet50V2, that present relatively lower accuracies, ranging from 74 to 82%; these four models are used as both feature extractors and classifiers. To increase the accuracy and other performance metrics, Grey Wolf Optimization (GWO), and Modified Gorilla Troops Optimization (MGTO) metaheuristic optimizers are applied to each model separately for hyperparameter tuning. In this case, the experimental results show that the Custom CNN model, refined with MGTO optimization, reaches an exceptional accuracy of 93.13% in just 10 iterations, outperforming the other state-of-the-art methods, and the other four used pretrained models based on the BreakHis dataset.

MAC-ErrorReads: machine learning-assisted classifier for filtering erroneous NGS reads.

BACKGROUND: The rapid advancement of next-generation sequencing (NGS) machines in terms of speed and affordability has led to the generation of a massive amount of biological data at the expense of data quality as errors become more prevalent. This introduces the need to utilize different approaches to detect and filtrate errors, and data quality assurance is moved from the hardware space to the software preprocessing stages. RESULTS: We introduce MAC-ErrorReads, a novel Machine learning-Assisted Classifier designed for filtering Erroneous NGS Reads. MAC-ErrorReads transforms the erroneous NGS read filtration process into a robust binary classification task, employing five supervised machine learning algorithms. These models are trained on features extracted through the computation of Term Frequency-Inverse Document Frequency (TF_IDF) values from various datasets such as E. coli, GAGE S. aureus, H. Chr14, Arabidopsis thaliana Chr1 and Metriaclima zebra. Notably, Naive Bayes demonstrated robust performance across various datasets, displaying high accuracy, precision, recall, F1-score, MCC, and ROC values. The MAC-ErrorReads NB model accurately classified S. aureus reads, surpassing most error correction tools with a 38.69% alignment rate. For H. Chr14, tools like Lighter, Karect, CARE, Pollux, and MAC-ErrorReads showed rates above 99%. BFC and RECKONER exceeded 98%, while Fiona had 95.78%. For the Arabidopsis thaliana Chr1, Pollux, Karect, RECKONER, and MAC-ErrorReads demonstrated good alignment rates of 92.62%, 91.80%, 91.78%, and 90.87%, respectively. For the Metriaclima zebra, Pollux achieved a high alignment rate of 91.23%, despite having the lowest number of mapped reads. MAC-ErrorReads, Karect, and RECKONER demonstrated good alignment rates of 83.76%, 83.71%, and 83.67%, respectively, while also producing reasonable numbers of mapped reads to the reference genome. CONCLUSIONS: This study demonstrates that machine learning approaches for filtering NGS reads effectively identify and retain the most accurate reads, significantly enhancing assembly quality and genomic coverage. The integration of genomics and artificial intelligence through machine learning algorithms holds promise for enhancing NGS data quality, advancing downstream data analysis accuracy, and opening new opportunities in genetics, genomics, and personalized medicine research.

Adapting blockchain's proof-of-work mechanism for multiple traveling salesmen problem optimization.

The blockchain network uses a Proof-of-Work (PoW) mechanism to validate transactions and keep the blockchain growth safe against tampering, but it is hugely energy-consuming with no benefit to the peer-to-peer network participants. In this paper, we proposed a blockchain network for distributing products to different locations based on the use of the Proof of Useful Work mechanism, in which miners use computing resources to optimize the traveling salesman problem (TSP) as an alternative to solving mathematical problems that represent the basis of the traditional PoW mechanism to get a new block. According to this proposed blockchain, it not only receives and securely stores the distribution locations but also improves the paths for salesmen when traveling between different locations during the transportation process. This strategy aims to take advantage of the miners' efforts to minimize the traveled distance by applying the clustering technique and computing the shortest path by Guided Local Search (GLS) for each cluster at the same time. According to the tested results on TSP-LIB instances, the used strategy works efficiently with an average of 0.08 compared to the rest of the meta-heuristics, and the proposed architecture reduced total distances with an average of 0.025%. In addition, the block generation time in the blockchain decreased by 11.11% compared to other works.

Multimodal analysis of electroencephalographic and electrooculographic signals.

Electrooculography (EOG) is a method to concurrently obtain electrophysiological signals accompanying an Electroencephalography (EEG), where both methods have a common cerebral pattern and imply a similar medical significance. The most common electrophysiological signal source is EOG that contaminated the EEG signal and thereby decreases the accuracy of measurement and the predicated signal strength. In this study, we introduce a method to improve the correction efficiency for EOG artifacts (EOAs) on raw EEG recordings: We retrieve cerebral information from three EEG signals with high system performance and accuracy by applying feature engineering and a novel machine-learning (ML) procedure. To this end, we use two adaptive algorithms for signal decomposition to remove EOAs from multichannel EEG signals: empirical mode decomposition (EMD) and complete ensemble empirical mode decomposition (CEEMD), both using the Hilbert-Huang transform. First, the signal components are decomposed into multiple intrinsic mode functions. Next, statistical feature extraction and dimension reduction using principal component analysis are employed to select optimal feature sets for the ML procedure that is based on classification and regression models. The proposed CEEMD algorithm enhances the accuracy compared to the EMD algorithm and considerably improves the multi-sensory classification of EEG signals. Models of three different categories are applied, and the classification is based on a K-nearest neighbor (k-NN) algorithm, a decision tree (DT) algorithm, and a support vector machine (SVM) algorithm with accuracies of 94% for K-NN, 75% for DT, and 69% for SVM. For each classification model, a regression learner is used to assist as an evidence rule for the proposed artificial system and to influence the learning process from classification and regression models. The regression learning algorithms applied include algorithms based on an ensemble of trees (ET), a DT, and a SVM. We find that the ET-based regression model exhibits a determination coefficient R2 = 1.00 outperforming the other two approaches with R2 = 0.80 for DT and R2 = 0.76 for SVM.

Optimizing hyperparameters of deep reinforcement learning for autonomous driving based on whale optimization algorithm.

Deep Reinforcement Learning (DRL) enables agents to make decisions based on a well-designed reward function that suites a particular environment without any prior knowledge related to a given environment. The adaptation of hyperparameters has a great impact on the overall learning process and the learning processing times. Hyperparameters should be accurately estimated while training DRL algorithms, which is one of the key challenges that we attempt to address. This paper employs a swarm-based optimization algorithm, namely the Whale Optimization Algorithm (WOA), for optimizing the hyperparameters of the Deep Deterministic Policy Gradient (DDPG) algorithm to achieve the optimum control strategy in an autonomous driving control problem. DDPG is capable of handling complex environments, which contain continuous spaces for actions. To evaluate the proposed algorithm, the Open Racing Car Simulator (TORCS), a realistic autonomous driving simulation environment, was chosen to its ease of design and implementation. Using TORCS, the DDPG agent with optimized hyperparameters was compared with a DDPG agent with reference hyperparameters. The experimental results showed that the DDPG's hyperparameters optimization leads to maximizing the total rewards, along with testing episodes and maintaining a stable driving policy.

Neuro-fuzzy patch-wise R-CNN for multiple sclerosis segmentation.

The segmentation of the lesion plays a core role in diagnosis and monitoring of multiple sclerosis (MS). Magnetic resonance imaging (MRI) is the most frequent image modality used to evaluate such lesions. Because of the massive amount of data, manual segmentation cannot be achieved within a sensible time that restricts the usage of accurate quantitative measurement in clinical practice. Therefore, the need for effective automated segmentation techniques is critical. However, a large spatial variability between the structure of brain lesions makes it more challenging. Recently, convolutional neural network (CNN), in particular, the region-based CNN (R-CNN), have attained tremendous progress within the field of object recognition because of its ability to learn and represent features. CNN has proven a last-breaking performance in various fields, such as object recognition, and has also gained more attention in brain imaging, especially in tissue and brain segmentation. In this paper, an automated technique for MS lesion segmentation is proposed, which is built on a 3D patch-wise R-CNN. The proposed system includes two stages: first, segmenting MS lesions in T2-w and FLAIR sequences using R-CNN, then an adaptive neuro-fuzzy inference system (ANFIS) is applied to fuse the results of the two modalities. To evaluate the performance of the proposed method, the public MICCAI2008 MS challenge dataset is employed to segment MS lesions. The experimental results show competitive results of the proposed method compared with the state-of-the-art MS lesion segmentation methods with an average total score of 83.25 and an average sensitivity of 61.8% on the MICCAI2008 testing set. Graphical Abstract The proposed system overview. First, the input of two modalities FLAIR and T2 are pre-processed to remove the skull and correct the bias field. Then 3D patches for lesion and non-lesion tissues are extracted and fed to R-CNN. Each R-CNN produces a probability map of the segmentation result that provides to ANFIS to fuse the results and obtain the final MS lesion segmentation. The MS lesions are shown on a pre-processed FLAIR image.