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Fulltext Evaluation of Deep Neural Networks for Semantic Segmentation of Prostate in T2W MRI

Khan Z, Yahya N, Alsaih K, Ali SSA, Meriaudeau F

Sensors (Basel), 2020 Jun 03;20(11).
PMID: 32503330 DOI: 10.3390/s20113183

In this paper, we present an evaluation of four encoder-decoder CNNs in the segmentation of the prostate gland in T2W magnetic resonance imaging (MRI) image. The four selected CNNs are FCN, SegNet, U-Net, and DeepLabV3+, which was originally proposed for the segmentation of road scene, biomedical, and natural images. Segmentation of prostate in T2W MRI images is an important step in the automatic diagnosis of prostate cancer to enable better lesion detection and staging of prostate cancer. Therefore, many research efforts have been conducted to improve the segmentation of the prostate gland in MRI images. The main challenges of prostate gland segmentation are blurry prostate boundary and variability in prostate anatomical structure. In this work, we investigated the performance of encoder-decoder CNNs for segmentation of prostate gland in T2W MRI. Image pre-processing techniques including image resizing, center-cropping and intensity normalization are applied to address the issues of inter-patient and inter-scanner variability as well as the issue of dominating background pixels over prostate pixels. In addition, to enrich the network with more data, to increase data variation, and to improve its accuracy, patch extraction and data augmentation are applied prior to training the networks. Furthermore, class weight balancing is used to avoid having biased networks since the number of background pixels is much higher than the prostate pixels. The class imbalance problem is solved by utilizing weighted cross-entropy loss function during the training of the CNN model. The performance of the CNNs is evaluated in terms of the Dice similarity coefficient (DSC) and our experimental results show that patch-wise DeepLabV3+ gives the best performance with DSC equal to 92 . 8 % . This value is the highest DSC score compared to the FCN, SegNet, and U-Net that also competed the recently published state-of-the-art method of prostate segmentation.
A machine learning framework involving EEG-based functional connectivity to diagnose major depressive disorder (MDD)

Mumtaz W, Ali SSA, Yasin MAM, Malik AS

Med Biol Eng Comput, 2018 Feb;56(2):233-246.
PMID: 28702811 DOI: 10.1007/s11517-017-1685-z

Major depressive disorder (MDD), a debilitating mental illness, could cause functional disabilities and could become a social problem. An accurate and early diagnosis for depression could become challenging. This paper proposed a machine learning framework involving EEG-derived synchronization likelihood (SL) features as input data for automatic diagnosis of MDD. It was hypothesized that EEG-based SL features could discriminate MDD patients and healthy controls with an acceptable accuracy better than measures such as interhemispheric coherence and mutual information. In this work, classification models such as support vector machine (SVM), logistic regression (LR) and Naïve Bayesian (NB) were employed to model relationship between the EEG features and the study groups (MDD patient and healthy controls) and ultimately achieved discrimination of study participants. The results indicated that the classification rates were better than chance. More specifically, the study resulted into SVM classification accuracy = 98%, sensitivity = 99.9%, specificity = 95% and f-measure = 0.97; LR classification accuracy = 91.7%, sensitivity = 86.66%, specificity = 96.6% and f-measure = 0.90; NB classification accuracy = 93.6%, sensitivity = 100%, specificity = 87.9% and f-measure = 0.95. In conclusion, SL could be a promising method for diagnosing depression. The findings could be generalized to develop a robust CAD-based tool that may help for clinical purposes.
An EEG-based functional connectivity measure for automatic detection of alcohol use disorder

Mumtaz W, Saad MNBM, Kamel N, Ali SSA, Malik AS

Artif Intell Med, 2018 01;84:79-89.
PMID: 29169647 DOI: 10.1016/j.artmed.2017.11.002

BACKGROUND: The abnormal alcohol consumption could cause toxicity and could alter the human brain's structure and function, termed as alcohol used disorder (AUD). Unfortunately, the conventional screening methods for AUD patients are subjective and manual. Hence, to perform automatic screening of AUD patients, objective methods are needed. The electroencephalographic (EEG) data have been utilized to study the differences of brain signals between alcoholics and healthy controls that could further developed as an automatic screening tool for alcoholics.
METHOD: In this work, resting-state EEG-derived features were utilized as input data to the proposed feature selection and classification method. The aim was to perform automatic classification of AUD patients and healthy controls. The validation of the proposed method involved real-EEG data acquired from 30 AUD patients and 30 age-matched healthy controls. The resting-state EEG-derived features such as synchronization likelihood (SL) were computed involving 19 scalp locations resulted into 513 features. Furthermore, the features were rank-ordered to select the most discriminant features involving a rank-based feature selection method according to a criterion, i.e., receiver operating characteristics (ROC). Consequently, a reduced set of most discriminant features was identified and utilized further during classification of AUD patients and healthy controls. In this study, three different classification models such as Support Vector Machine (SVM), Naïve Bayesian (NB), and Logistic Regression (LR) were used.
RESULTS: The study resulted into SVM classification accuracy=98%, sensitivity=99.9%, specificity=95%, and f-measure=0.97; LR classification accuracy=91.7%, sensitivity=86.66%, specificity=96.6%, and f-measure=0.90; NB classification accuracy=93.6%, sensitivity=100%, specificity=87.9%, and f-measure=0.95.
CONCLUSION: The SL features could be utilized as objective markers to screen the AUD patients and healthy controls.
Fulltext Workplace Mental State Monitoring during VR-Based Training for Offshore Environment

Abu Hasan R, Sulaiman S, Ashykin NN, Abdullah MN, Hafeez Y, Ali SSA

Sensors (Basel), 2021 Jul 18;21(14).
PMID: 34300624 DOI: 10.3390/s21144885

Adults are constantly exposed to stressful conditions at their workplace, and this can lead to decreased job performance followed by detrimental clinical health problems. Advancement of sensor technologies has allowed the electroencephalography (EEG) devices to be portable and used in real-time to monitor mental health. However, real-time monitoring is not often practical in workplace environments with complex operations such as kindergarten, firefighting and offshore facilities. Integrating the EEG with virtual reality (VR) that emulates workplace conditions can be a tool to assess and monitor mental health of adults within their working environment. This paper evaluates the mental states induced when performing a stressful task in a VR-based offshore environment. The theta, alpha and beta frequency bands are analysed to assess changes in mental states due to physical discomfort, stress and concentration. During the VR trials, mental states of discomfort and disorientation are observed with the drop of theta activity, whilst the stress induced from the conditional tasks is reflected in the changes of low-alpha and high-beta activities. The deflection of frontal alpha asymmetry from negative to positive direction reflects the learning effects from emotion-focus to problem-solving strategies adopted to accomplish the VR task. This study highlights the need for an integrated VR-EEG system in workplace settings as a tool to monitor and assess mental health of working adults.
Fulltext Real-Time Stress Assessment Using Sliding Window Based Convolutional Neural Network

Naqvi SF, Ali SSA, Yahya N, Yasin MA, Hafeez Y, Subhani AR, et al.

Sensors (Basel), 2020 Aug 07;20(16).
PMID: 32784531 DOI: 10.3390/s20164400

Mental stress has been identified as a significant cause of several bodily disorders, such as depression, hypertension, neural and cardiovascular abnormalities. Conventional stress assessment methods are highly subjective and tedious and tend to lack accuracy. Machine-learning (ML)-based computer-aided diagnosis systems can be used to assess the mental state with reasonable accuracy, but they require offline processing and feature extraction, rendering them unsuitable for real-time applications. This paper presents a real-time mental stress assessment approach based on convolutional neural networks (CNNs). The CNN-based approach afforded real-time mental stress assessment with an accuracy as high as 96%, the sensitivity of 95%, and specificity of 97%. The proposed approach is compared with state-of-the-art ML techniques in terms of accuracy, time utilisation, and quality of features.