This paper presents a comprehensive and quality collection of functional human brain network data for potential research in the intersection of neuroscience, machine learning, and graph analytics. Anatomical and functional MRI images have been used to understand the functional connectivity of the human brain and are particularly important in identifying underlying neurodegenerative conditions such as Alzheimer's, Parkinson's, and Autism. Recently, the study of the brain in the form of brain networks using machine learning and graph analytics has become increasingly popular, especially to predict the early onset of these conditions. A brain network, represented as a graph, retains rich structural and positional information that traditional examination methods are unable to capture. However, the lack of publicly accessible brain network data prevents researchers from data-driven explorations.

Focal Cortical Dysplasia (FCD) is a primary cause of drug-resistant epilepsy and is difficult to detect in brain {magnetic resonance imaging} (MRI) due to the subtle and small-scale nature of its lesions. Accurate segmentation of FCD regions in 3D multimodal brain MRI images is essential for effective surgical planning and treatment. However, this task remains highly challenging due to the limited availability of annotated FCD datasets, the extremely small size and weak contrast of FCD lesions, the complexity of handling 3D multimodal inputs, and the need for output smoothness and anatomical consistency, which is often not addressed by standard voxel-wise loss functions. This paper presents a new framework for segmenting FCD regions in 3D brain MRI images. We adopt state-of-the-art transformer-enhanced encoder-decoder architecture and introduce a novel loss function combining Dice loss with an anisotropic {Total Variation} (TV) term. This integration encourages spatial smoothness and reduces false positive clusters without relying on post-processing. The framework is evaluated on a public FCD dataset with 85 epilepsy patients and demonstrates superior segmentation accuracy and consistency compared to standard loss formulations. The model with the proposed TV loss shows an 11.9\% improvement on the Dice coefficient and 13.3\% higher precision over the baseline model. Moreover, the number of false positive clusters is reduced by 61.6%

The early and accurate classification of brain tumors is crucial for guiding effective treatment strategies and improving patient outcomes. This study presents BrainFusion, a significant advancement in brain tumor analysis using magnetic resonance imaging (MRI) by combining fine-tuned convolutional neural networks (CNNs) for tumor classification--including VGG16, ResNet50, and Xception--with YOLOv8 for precise tumor localization with bounding boxes. Leveraging the Brain Tumor MRI Dataset, our experiments reveal that the fine-tuned VGG16 model achieves test accuracy of 99.86%, substantially exceeding previous benchmarks. Beyond setting a new accuracy standard, the integration of bounding-box localization and explainable AI techniques further enhances both the clinical interpretability and trustworthiness of the system's outputs. Overall, this approach underscores the transformative potential of deep learning in delivering faster, more reliable diagnoses, ultimately contributing to improved patient care and survival rates.

Brain tumors are serious health problems that require early diagnosis due to their high mortality rates. Diagnosing tumors by examining Magnetic Resonance Imaging (MRI) images is a process that requires expertise and is prone to error. Therefore, the need for automated diagnosis systems is increasing day by day. In this context, a robust and explainable Deep Learning (DL) model for the classification of brain tumors is proposed. In this study, a publicly available Figshare dataset containing 3,064 T1-weighted contrast-enhanced brain MRI images of three tumor types was used. First, the classification performance of nine well-known CNN architectures was evaluated to determine the most effective backbone. Among these, EfficientNetV2 demonstrated the best performance and was selected as the backbone for further development. Subsequently, an attention-based MLP-Mixer architecture was integrated into EfficientNetV2 to enhance its classification capability. The performance of the final model was comprehensively compared with basic CNNs and the methods in the literature. Additionally, Grad-CAM visualization was used to interpret and validate the decision-making process of the proposed model. The proposed model's performance was evaluated using the five-fold cross-validation method. The proposed model demonstrated superior performance with 99.50% accuracy, 99.47% precision, 99.52% recall and 99.49% F1 score. The results obtained show that the model outperforms the studies in the literature. Moreover, Grad-CAM visualizations demonstrate that the model effectively focuses on relevant regions of MRI images, thus improving interpretability and clinical reliability. A robust deep learning model for clinical decision support systems has been obtained by combining EfficientNetV2 and attention-based MLP-Mixer, providing high accuracy and interpretability in brain tumor classification.

Generative Adversarial Networks (GAN) have shown potential in expanding limited medical imaging datasets. This study explores how different ratios of GAN-generated and real brain tumor MRI images impact the performance of a CNN in classifying healthy vs. tumorous scans. A DCGAN was used to create synthetic images which were mixed with real ones at various ratios to train a custom CNN. The CNN was then evaluated on a separate real-world test set. Our results indicate that the model maintains high sensitivity and precision in tumor classification, even when trained predominantly on synthetic data. When only a small portion of GAN data was added, such as 900 real images and 100 GAN images, the model achieved excellent performance, with test accuracy reaching 95.2%, and precision, recall, and F1-score all exceeding 95%. However, as the proportion of GAN images increased further, performance gradually declined. This study suggests that while GANs are useful for augmenting limited datasets especially when real data is scarce, too much synthetic data can introduce artifacts that affect the model's ability to generalize to real world cases.

Imaging and genomic data offer distinct and rich features, and their integration can unveil new insights into the complex landscape of diseases. In this study, we present a novel approach utilizing radiogenomic data including structural MRI images and gene expression data, for Alzheimer's disease detection. Our framework introduces a novel heterogeneous bipartite graph representation learning featuring two distinct node types: genes and images. The network can effectively classify Alzheimer's disease (AD) into three distinct stages:AD, Mild Cognitive Impairment (MCI), and Cognitive Normal (CN) classes, utilizing a small dataset. Additionally, it identified which genes play a significant role in each of these classification groups. We evaluate the performance of our approach using metrics including classification accuracy, recall, precision, and F1 score. The proposed technique holds potential for extending to radiogenomic-based classification to other diseases.