Lightweight 3D Convolutional Neural Network for Schizophrenia diagnosis using MRI Images and Ensemble Bagging Classifier

Structural alterations have been thoroughly investigated in the brain during the early onset of schizophrenia (SCZ) with the development of neuroimaging methods. The objective of the paper is an efficient classification of SCZ in 2 different classes: Cognitive Normal (CN), and SCZ using magnetic resonance imaging (MRI) images. This paper proposed a lightweight 3D convolutional neural network (CNN) based framework for SCZ diagnosis using MRI images. In the proposed model, lightweight 3D CNN is used to extract both spatial and spectral features simultaneously from 3D volume MRI scans, and classification is done using an ensemble bagging classifier. Ensemble bagging classifier contributes to preventing overfitting, reduces variance, and improves the model's accuracy. The proposed algorithm is tested on datasets taken from three benchmark databases available as open-source: MCICShare, COBRE, and fBRINPhase-II. These datasets have undergone preprocessing steps to register all the MRI images to the standard template and reduce the artifacts. The model achieves the highest accuracy 92.22%, sensitivity 94.44%, specificity 90%, precision 90.43%, recall 94.44%, F1-score 92.39% and G-mean 92.19% as compared to the current state-of-the-art techniques. The performance metrics evidenced the use of this model to assist the clinicians for automatic accurate diagnosis of SCZ

Automatic Autism Spectrum Disorder Detection Using Artificial Intelligence Methods with MRI Neuroimaging: A Review

Autism spectrum disorder (ASD) is a brain condition characterized by diverse signs and symptoms that appear in early childhood. ASD is also associated with communication deficits and repetitive behavior in affected individuals. Various ASD detection methods have been developed, including neuroimaging modalities and psychological tests. Among these methods, magnetic resonance imaging (MRI) imaging modalities are of paramount importance to physicians. Clinicians rely on MRI modalities to diagnose ASD accurately. The MRI modalities are non-invasive methods that include functional (fMRI) and structural (sMRI) neuroimaging methods. However, the process of diagnosing ASD with fMRI and sMRI for specialists is often laborious and time-consuming; therefore, several computer-aided design systems (CADS) based on artificial intelligence (AI) have been developed to assist the specialist physicians. Conventional machine learning (ML) and deep learning (DL) are the most popular schemes of AI used for diagnosing ASD. This study aims to review the automated detection of ASD using AI. We review several CADS that have been developed using ML techniques for the automated diagnosis of ASD using MRI modalities. There has been very limited work on the use of DL techniques to develop automated diagnostic models for ASD. A summary of the studies developed using DL is provided in the appendix. Then, the challenges encountered during the automated diagnosis of ASD using MRI and AI techniques are described in detail. Additionally, a graphical comparison of studies using ML and DL to diagnose ASD automatically is discussed. We conclude by suggesting future approaches to detecting ASDs using AI techniques and MRI neuroimaging

Automatic methods for detection of midline brain abnormalities

En col·laboració amb la Universitat de Barcelona (UB) i la Universitat Rovira i Virgili (URV)Different studies have demonstrated an augmented prevalence of different midline brain abnormalities in patients with both mood and psychotic disorders. One of these abnormalities is the cavum septum pellucidum (CSP), which occurs when the septum pellucidum fails to fuse. The study of these abnormalities in Magnetic Resonance Imaging requires a tedious and time-consuming process of manually analyzing all the images in order to detect them. It is also problematic when the same abnormality is analyzed manually by different experts because different criteria can be applied. In this context, in would be useful to develop an automatic method for localizing the abnormality and give the measure of its depth. In this project, several methods have been developed by using machine learning and deep learning techniques. To test the proposed approaches, data from of 861 subjects from FIDMAG, have been gathered and processed to use with our algorithms. Among the subjects, 639 are patients with mood or psychotic disorders and 223 are healthy controls. This same dataset was previously used in a study where the authors analyzed the prevalence of this abnormality across the subjects manually, the depth of the abnormality previously reported is finally compared with the results obtained from our automatic methods. The first proposed method implemented is an unsupervised algorithm that segments the abnormality over 2D slices with an accuracy of the 89.72% and a sensitivity of an 84%. Then, a comparison among different Machine Learning classifiers have been conducted along with different dimensionality reduction methods. Between them, K Nearest Neighbors produced the best overall accuracy, with a 99.1% of accuracy and a sensitivity of a 99% by using HOG descriptors to reduce the dimensionality of the data. The last group of methods are different Deep Learning architectures. Three different implementations have been designed, and over the best performing architecture, two different input options to take into account contextual information have been proposed. The best Deep Learning method reached an accuracy of 98,8% and a specificity and sensitivity of a 99%. Finally, an analysis of the similarity with respect to the results with the manually handcrafted ground-truth have been conducted to validate the usability of the automatic method in further analysis of the abnormality

Automatic autism spectrum disorder detection using artificial intelligence methods with MRI neuroimaging: A review

Autism spectrum disorder (ASD) is a brain condition characterized by diverse signs and symptoms that appear in early childhood. ASD is also associated with communication deficits and repetitive behavior in affected individuals. Various ASD detection methods have been developed, including neuroimaging modalities and psychological tests. Among these methods, magnetic resonance imaging (MRI) imaging modalities are of paramount importance to physicians. Clinicians rely on MRI modalities to diagnose ASD accurately. The MRI modalities are non-invasive methods that include functional (fMRI) and structural (sMRI) neuroimaging methods. However, diagnosing ASD with fMRI and sMRI for specialists is often laborious and time-consuming; therefore, several computer-aided design systems (CADS) based on artificial intelligence (AI) have been developed to assist specialist physicians. Conventional machine learning (ML) and deep learning (DL) are the most popular schemes of AI used for diagnosing ASD. This study aims to review the automated detection of ASD using AI. We review several CADS that have been developed using ML techniques for the automated diagnosis of ASD using MRI modalities. There has been very limited work on the use of DL techniques to develop automated diagnostic models for ASD. A summary of the studies developed using DL is provided in the Supplementary Appendix. Then, the challenges encountered during the automated diagnosis of ASD using MRI and AI techniques are described in detail. Additionally, a graphical comparison of studies using ML and DL to diagnose ASD automatically is discussed. We suggest future approaches to detecting ASDs using AI techniques and MRI neuroimaging.Qatar National Librar

EEG-based Brain-Computer Interfaces (BCIs): A Survey of Recent Studies on Signal Sensing Technologies and Computational Intelligence Approaches and Their Applications.

Brain-Computer interfaces (BCIs) enhance the capability of human brain activities to interact with the environment. Recent advancements in technology and machine learning algorithms have increased interest in electroencephalographic (EEG)-based BCI applications. EEG-based intelligent BCI systems can facilitate continuous monitoring of fluctuations in human cognitive states under monotonous tasks, which is both beneficial for people in need of healthcare support and general researchers in different domain areas. In this review, we survey the recent literature on EEG signal sensing technologies and computational intelligence approaches in BCI applications, compensating for the gaps in the systematic summary of the past five years. Specifically, we first review the current status of BCI and signal sensing technologies for collecting reliable EEG signals. Then, we demonstrate state-of-the-art computational intelligence techniques, including fuzzy models and transfer learning in machine learning and deep learning algorithms, to detect, monitor, and maintain human cognitive states and task performance in prevalent applications. Finally, we present a couple of innovative BCI-inspired healthcare applications and discuss future research directions in EEG-based BCI research

Deep Interpretability Methods for Neuroimaging

Brain dynamics are highly complex and yet hold the key to understanding brain function and dysfunction. The dynamics captured by resting-state functional magnetic resonance imaging data are noisy, high-dimensional, and not readily interpretable. The typical approach of reducing this data to low-dimensional features and focusing on the most predictive features comes with strong assumptions and can miss essential aspects of the underlying dynamics. In contrast, introspection of discriminatively trained deep learning models may uncover disorder-relevant elements of the signal at the level of individual time points and spatial locations. Nevertheless, the difficulty of reliable training on high-dimensional but small-sample datasets and the unclear relevance of the resulting predictive markers prevent the widespread use of deep learning in functional neuroimaging. In this dissertation, we address these challenges by proposing a deep learning framework to learn from high-dimensional dynamical data while maintaining stable, ecologically valid interpretations. The developed model is pre-trainable and alleviates the need to collect an enormous amount of neuroimaging samples to achieve optimal training. We also provide a quantitative validation module, Retain and Retrain (RAR), that can objectively verify the higher predictability of the dynamics learned by the model. Results successfully demonstrate that the proposed framework enables learning the fMRI dynamics directly from small data and capturing compact, stable interpretations of features predictive of function and dysfunction. We also comprehensively reviewed deep interpretability literature in the neuroimaging domain. Our analysis reveals the ongoing trend of interpretability practices in neuroimaging studies and identifies the gaps that should be addressed for effective human-machine collaboration in this domain. This dissertation also proposed a post hoc interpretability method, Geometrically Guided Integrated Gradients (GGIG), that leverages geometric properties of the functional space as learned by a deep learning model. With extensive experiments and quantitative validation on MNIST and ImageNet datasets, we demonstrate that GGIG outperforms integrated gradients (IG), which is considered to be a popular interpretability method in the literature. As GGIG is able to identify the contours of the discriminative regions in the input space, GGIG may be useful in various medical imaging tasks where fine-grained localization as an explanation is beneficial

Social media mental health analysis framework through applied computational approaches

Studies have shown that mental illness burdens not only public health and productivity but also established market economies throughout the world. However, mental disorders are difficult to diagnose and monitor through traditional methods, which heavily rely on interviews, questionnaires and surveys, resulting in high under-diagnosis and under-treatment rates. The increasing use of online social media, such as Facebook and Twitter, is now a common part of people’s everyday life. The continuous and real-time user-generated content often reflects feelings, opinions, social status and behaviours of individuals, creating an unprecedented wealth of person-specific information. With advances in data science, social media has already been increasingly employed in population health monitoring and more recently mental health applications to understand mental disorders as well as to develop online screening and intervention tools. However, existing research efforts are still in their infancy, primarily aimed at highlighting the potential of employing social media in mental health research. The majority of work is developed on ad hoc datasets and lacks a systematic research pipeline. [Continues.]</div

Augmenting Structure/Function Relationship Analysis with Deep Learning for the Classification of Psychoactive Drug Activity at Class A G Protein-Coupled Receptors

G protein-coupled receptors (GPCRs) initiate intracellular signaling pathways via interaction with external stimuli. [1-5] Despite sharing similar structure and cellular mechanism, GPCRs participate in a uniquely broad range of physiological functions. [6] Due to the size and functional diversity of the GPCR family, these receptors are a major focus for pharmacological applications. [1,7] Current state-of-the-art pharmacology and toxicology research strategies rely on computational methods to efficiently design highly selective, low toxicity compounds. [9], [10] GPCR-targeting therapeutics are associated with low selectivity resulting in increased risk of adverse effects and toxicity. Psychoactive drugs that are active at Class A GPCRs used in the treatment of schizophrenia and other psychiatric disorders display promiscuous binding behavior linked to chronic toxicity and high-risk adverse effects. [16-18] We hypothesized that using a combination of physiochemical feature engineering with a feedforward neural network, predictive models can be trained for these specific GPCR subgroups that are more efficient and accurate than current state-of-the-art methods.. We combined normal mode analysis with deep learning to create a novel framework for the prediction of Class A GPCR/psychoactive drug interaction activities. Our deep learning classifier results in high classification accuracy (5-HT F1-score = 0.78; DRD F1-score = 0.93) and achieves a 45% reduction in model training time when structure-based feature selection is applied via guidance from an anisotropic network model (ANM). Additionally, we demonstrate the interpretability and application potential of our framework via evaluation of highly clinically relevant Class A GPCR/psychoactive drug interactions guided by our ANM results and deep learning predictions. Our model offers an increased range of applicability as compared to other methods due to accessible data compatibility requirements and low model complexity. While this model can be applied to a multitude of clinical applications, we have presented strong evidence for the impact of machine learning in the development of novel psychiatric therapeutics with improved safety and tolerability