scholarly journals Dark blood ischemic LGE segmentation using a deep learning approach

2021 ◽  
Vol 22 (Supplement_2) ◽  
Author(s):  
C Torlasco ◽  
D Papetti ◽  
R Mene ◽  
J Artico ◽  
A Seraphim ◽  
...  
Keyword(s):  
Neural Network ◽  
Deep Learning ◽  
High Performance ◽  
Clinical Decision Making ◽  
Data Augmentation ◽  
Clinical Decision ◽  
Learning Approach ◽  
Dark Blood ◽  
Data Set ◽  
Automated Method

Abstract Funding Acknowledgements Type of funding sources: None. Introduction The extent of ischemic scar detected by Cardiac Magnetic Resonance (CMR) with late gadolinium enhancement (LGE) is linked with long-term prognosis, but scar quantification is time-consuming. Deep Learning (DL) approaches appear promising in CMR segmentation.  Purpose: To train and apply a deep learning approach to dark blood (DB) CMR-LGE for ischemic scar segmentation, comparing results to 4-Standard Deviation (4-SD) semi-automated method. Methods: We trained and validated a dual neural network infrastructure on a dataset of DB-LGE short-axis stacks, acquired at 1.5T from 33 patients with ischemic scar. The DL architectures were an evolution of the U-Net Convolutional Neural Network (CNN), using data augmentation to increase generalization. The CNNs worked together to identify and segment 1) the myocardium and 2) areas of LGE. The first CNN simultaneously cropped the region of interest (RoI) according to the bounding box of the heart and calculated the area of myocardium. The cropped RoI was then processed by the second CNN, which identified the overall LGE area. The extent of scar was calculated as the ratio of the two areas. For comparison, endo- and epi-cardial borders were manually contoured and scars segmented by a 4-SD technique with a validated software. Results: The two U-Net networks were implemented with two free and open-source software library for machine learning. We performed 5-fold cross-validation over a dataset of 108 and 385 labelled CMR images of the myocardium and scar, respectively. We obtained high performance (> ∼0.85) as measured by the Intersection over Union metric (IoU) on the training sets, in the case of scar segmentation. With regards to heart recognition, the performance was lower (> ∼0.7), although improved (∼ 0.75) by detecting the cardiac area instead of heart boundaries. On the validation set, performances oscillated between 0.8 and 0.85 for scar tissue recognition, and dropped to ∼0.7 for myocardium segmentation. We believe that underrepresented samples and noise might be affecting the overall performances, so that additional data might be beneficial. Figure1: examples of heart segmentation (upper left panel: training; upper right panel: validation) and of scar segmentation (lower left panel: training; lower right panel: validation). Conclusion: Our CNNs show promising results in automatically segmenting LV and quantify ischemic scars on DB-LGE-CMR images. The performances of our method can further improve by expanding the data set used for the training. If implemented in a clinical routine, this process can speed up the CMR analysis process and aid in the clinical decision-making. Abstract Figure.

A Deep Learning based Arabic Script Recognition System: Benchmark on KHAT

2020 ◽  
Vol 17 (3) ◽  
pp. 299-305 ◽  
Author(s):  
Riaz Ahmad ◽  
Saeeda Naz ◽  
Muhammad Afzal ◽  
Sheikh Rashid ◽  
Marcus Liwicki ◽  
...  
Keyword(s):  
Deep Learning ◽  
Character Recognition ◽  
Data Augmentation ◽  
Short Term Memory ◽  
Recognition System ◽  
Learning Approach ◽  
Arabic Text ◽  
Data Set ◽  
Processing Step ◽  
Handwritten Arabic

This paper presents a deep learning benchmark on a complex dataset known as KFUPM Handwritten Arabic TexT (KHATT). The KHATT data-set consists of complex patterns of handwritten Arabic text-lines. This paper contributes mainly in three aspects i.e., (1) pre-processing, (2) deep learning based approach, and (3) data-augmentation. The pre-processing step includes pruning of white extra spaces plus de-skewing the skewed text-lines. We deploy a deep learning approach based on Multi-Dimensional Long Short-Term Memory (MDLSTM) networks and Connectionist Temporal Classification (CTC). The MDLSTM has the advantage of scanning the Arabic text-lines in all directions (horizontal and vertical) to cover dots, diacritics, strokes and fine inflammation. The data-augmentation with a deep learning approach proves to achieve better and promising improvement in results by gaining 80.02% Character Recognition (CR) over 75.08% as baseline.

scholarly journals Fish Detection Using Deep Learning

2020 ◽  
Vol 2020 ◽  
pp. 1-13 ◽  
Author(s):  
Suxia Cui ◽  
Yu Zhou ◽  
Yonghui Wang ◽  
Lujun Zhai
Keyword(s):  
Neural Network ◽  
Deep Learning ◽  
Data Augmentation ◽  
Autonomous Underwater Vehicle ◽  
Training Data ◽  
Training Process ◽  
Data Set ◽  
Speed Up ◽  
Fish Detection ◽  
Process Speed

Recently, human being’s curiosity has been expanded from the land to the sky and the sea. Besides sending people to explore the ocean and outer space, robots are designed for some tasks dangerous for living creatures. Take the ocean exploration for an example. There are many projects or competitions on the design of Autonomous Underwater Vehicle (AUV) which attracted many interests. Authors of this article have learned the necessity of platform upgrade from a previous AUV design project, and would like to share the experience of one task extension in the area of fish detection. Because most of the embedded systems have been improved by fast growing computing and sensing technologies, which makes them possible to incorporate more and more complicated algorithms. In an AUV, after acquiring surrounding information from sensors, how to perceive and analyse corresponding information for better judgement is one of the challenges. The processing procedure can mimic human being’s learning routines. An advanced system with more computing power can facilitate deep learning feature, which exploit many neural network algorithms to simulate human brains. In this paper, a convolutional neural network (CNN) based fish detection method was proposed. The training data set was collected from the Gulf of Mexico by a digital camera. To fit into this unique need, three optimization approaches were applied to the CNN: data augmentation, network simplification, and training process speed up. Data augmentation transformation provided more learning samples; the network was simplified to accommodate the artificial neural network; the training process speed up is introduced to make the training process more time efficient. Experimental results showed that the proposed model is promising, and has the potential to be extended to other underwear objects.

scholarly journals A microstructural neural network biomarker for dystonia diagnosis identified by a DystoniaNet deep learning platform

2020 ◽  
Vol 117 (42) ◽  
pp. 26398-26405 ◽  
Author(s):  
Davide Valeriani ◽  
Kristina Simonyan
Keyword(s):  
Neural Network ◽  
Deep Learning ◽  
Information Transfer ◽  
Clinical Decision Making ◽  
Clinical Decision ◽  
Machine Learning Algorithms ◽  
Diagnostic Uncertainty ◽  
Learning Platform ◽  
Abnormal Movements ◽  
Network Biomarker

Isolated dystonia is a neurological disorder of heterogeneous pathophysiology, which causes involuntary muscle contractions leading to abnormal movements and postures. Its diagnosis is remarkably challenging due to the absence of a biomarker or gold standard diagnostic test. This leads to a low agreement between clinicians, with up to 50% of cases being misdiagnosed and diagnostic delays extending up to 10.1 y. We developed a deep learning algorithmic platform, DystoniaNet, to automatically identify and validate a microstructural neural network biomarker for dystonia diagnosis from raw structural brain MRIs of 612 subjects, including 392 patients with three different forms of isolated focal dystonia and 220 healthy controls. DystoniaNet identified clusters in corpus callosum, anterior and posterior thalamic radiations, inferior fronto-occipital fasciculus, and inferior temporal and superior orbital gyri as the biomarker components. These regions are known to contribute to abnormal interhemispheric information transfer, heteromodal sensorimotor processing, and executive control of motor commands in dystonia pathophysiology. The DystoniaNet-based biomarker showed an overall accuracy of 98.8% in diagnosing dystonia, with a referral of 3.5% of cases due to diagnostic uncertainty. The diagnostic decision by DystoniaNet was computed in 0.36 s per subject. DystoniaNet significantly outperformed shallow machine-learning algorithms in benchmark comparisons, showing nearly a 20% increase in its diagnostic performance. Importantly, the microstructural neural network biomarker and its DystoniaNet platform showed substantial improvement over the current 34% agreement on dystonia diagnosis between clinicians. The translational potential of this biomarker is in its highly accurate, interpretable, and generalizable performance for enhanced clinical decision-making.

Subtype-GAN: a deep learning approach for integrative cancer subtyping of multi-omics data

2021 ◽  
Author(s):  
Hai Yang ◽  
Rui Chen ◽  
Dongdong Li ◽  
Zhe Wang
Keyword(s):  
Neural Network ◽  
Deep Learning ◽  
Latent Variables ◽  
Supplementary Information ◽  
Learning Approach ◽  
Data Sets ◽  
Omics Data ◽  
Data Set ◽  
Benchmark Data ◽  
Cancer Pathogenesis

Abstract Motivation The discovery of cancer subtyping can help explore cancer pathogenesis, determine clinical actionability in treatment, and improve patients' survival rates. However, due to the diversity and complexity of multi-omics data, it is still challenging to develop integrated clustering algorithms for tumor molecular subtyping. Results We propose Subtype-GAN, a deep adversarial learning approach based on the multiple-input multiple-output neural network to model the complex omics data accurately. With the latent variables extracted from the neural network, Subtype-GAN uses consensus clustering and the Gaussian Mixture model to identify tumor samples' molecular subtypes. Compared with other state-of-the-art subtyping approaches, Subtype-GAN achieved outstanding performance on the benchmark data sets consisting of ∼4,000 TCGA tumors from 10 types of cancer. We found that on the comparison data set, the clustering scheme of Subtype-GAN is not always similar to that of the deep learning method AE but is identical to that of NEMO, MCCA, VAE, and other excellent approaches. Finally, we applied Subtype-GAN to the BRCA data set and automatically obtained the number of subtypes and the subtype labels of 1031 BRCA tumors. Through the detailed analysis, we found that the identified subtypes are clinically meaningful and show distinct patterns in the feature space, demonstrating the practicality of Subtype-GAN. Availability The source codes, the clustering results of Subtype-GAN across the benchmark data sets are available at https://github.com/haiyang1986/Subtype-GAN. Supplementary information Supplementary data are available at Bioinformatics online.

scholarly journals High-Performance Deep learning to Detection and Tracking Tomato Plant Leaf Predict Disease and Expert Systems

2021 ◽  
Vol 10 (2) ◽  
Author(s):  
Yaser AbdulAali Jasim
Keyword(s):  
Neural Network ◽  
Artificial Intelligence ◽  
Machine Learning ◽  
Deep Learning ◽  
High Performance ◽  
Plant Disease ◽  
Detection System ◽  
Open Data ◽  
Data Set ◽  
Performance Rate

Nowadays, technology and computer science are rapidly developing many tools and algorithms, especially in the field of artificial intelligence.  Machine learning is involved in the development of new methodologies and models that have become a novel machine learning area of applications for artificial intelligence. In addition to the architectures of conventional neural network methodologies, deep learning refers to the use of artificial neural network architectures which include multiple processing layers. In this paper, models of the Convolutional neural network were designed to detect (diagnose) plant disorders by applying samples of healthy and unhealthy plant images analyzed by means of methods of deep learning. The models were trained using an open data set containing (18,000) images of ten different plants, including healthy plants. Several model architectures have been trained to achieve the best performance of (97 percent) when the respectively [plant, disease] paired are detected. This is a very useful information or early warning technique and a method that can be further improved with the substantially high-performance rate to support an automated plant disease detection system to work in actual farm conditions.

scholarly journals Effect of data-augmentation on fine-tuned CNN model performance

2021 ◽  
Vol 10 (1) ◽  
pp. 84
Author(s):  
Ramaprasad Poojary ◽  
Roma Raina ◽  
Amit Kumar Mondal
Keyword(s):  
Neural Network ◽  
Computer Vision ◽  
Deep Learning ◽  
High Performance ◽  
Data Augmentation ◽  
Model Performance ◽  
Training Data ◽  
Fine Tuning ◽  
Test Accuracy ◽  
Training Time

<span id="docs-internal-guid-cdb76bbb-7fff-978d-961c-e21c41807064"><span>During the last few years, deep learning achieved remarkable results in the field of machine learning when used for computer vision tasks. Among many of its architectures, deep neural network-based architecture known as convolutional neural networks are recently used widely for image detection and classification. Although it is a great tool for computer vision tasks, it demands a large amount of training data to yield high performance. In this paper, the data augmentation method is proposed to overcome the challenges faced due to a lack of insufficient training data. To analyze the effect of data augmentation, the proposed method uses two convolutional neural network architectures. To minimize the training time without compromising accuracy, models are built by fine-tuning pre-trained networks VGG16 and ResNet50. To evaluate the performance of the models, loss functions and accuracies are used. Proposed models are constructed using Keras deep learning framework and models are trained on a custom dataset created from Kaggle CAT vs DOG database. Experimental results showed that both the models achieved better test accuracy when data augmentation is employed, and model constructed using ResNet50 outperformed VGG16 based model with a test accuracy of 90% with data augmentation &amp; 82% without data augmentation.</span></span>

scholarly journals Explaining deep neural networks for knowledge discovery in electrocardiogram analysis

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Steven A. Hicks ◽  
Jonas L. Isaksen ◽  
Vajira Thambawita ◽  
Jonas Ghouse ◽  
Gustav Ahlberg ◽  
...  
Keyword(s):  
Decision Making ◽  
Deep Learning ◽  
Deep Neural Networks ◽  
Clinical Decision Making ◽  
Medical Knowledge ◽  
Clinical Decision ◽  
Medical Data ◽  
Medical Doctors ◽  
Medical Tests ◽  
Deep Learning Model

AbstractDeep learning-based tools may annotate and interpret medical data more quickly, consistently, and accurately than medical doctors. However, as medical doctors are ultimately responsible for clinical decision-making, any deep learning-based prediction should be accompanied by an explanation that a human can understand. We present an approach called electrocardiogram gradient class activation map (ECGradCAM), which is used to generate attention maps and explain the reasoning behind deep learning-based decision-making in ECG analysis. Attention maps may be used in the clinic to aid diagnosis, discover new medical knowledge, and identify novel features and characteristics of medical tests. In this paper, we showcase how ECGradCAM attention maps can unmask how a novel deep learning model measures both amplitudes and intervals in 12-lead electrocardiograms, and we show an example of how attention maps may be used to develop novel ECG features.

scholarly journals An efficient technique for CT scan images classification of COVID-19

2020 ◽  
pp. 1-14
Author(s):  
Esraa Hassan ◽  
Noha A. Hikal ◽  
Samir Elmuogy
Keyword(s):  
Neural Network ◽  
Diagnostic Tool ◽  
Deep Neural Network ◽  
Data Augmentation ◽  
Performance Metrics ◽  
Classification Model ◽  
Data Set ◽  
Training Models ◽  
The Earth ◽  
Diagnostic Time

Nowadays, Coronavirus (COVID-19) considered one of the most critical pandemics in the earth. This is due its ability to spread rapidly between humans as well as animals. COVID_19 expected to outbreak around the world, around 70 % of the earth population might infected with COVID-19 in the incoming years. Therefore, an accurate and efficient diagnostic tool is highly required, which the main objective of our study. Manual classification was mainly used to detect different diseases, but it took too much time in addition to the probability of human errors. Automatic image classification reduces doctors diagnostic time, which could save human’s life. We propose an automatic classification architecture based on deep neural network called Worried Deep Neural Network (WDNN) model with transfer learning. Comparative analysis reveals that the proposed WDNN model outperforms by using three pre-training models: InceptionV3, ResNet50, and VGG19 in terms of various performance metrics. Due to the shortage of COVID-19 data set, data augmentation was used to increase the number of images in the positive class, then normalization used to make all images have the same size. Experimentation is done on COVID-19 dataset collected from different cases with total 2623 where (1573 training,524 validation,524 test). Our proposed model achieved 99,046, 98,684, 99,119, 98,90 In terms of Accuracy, precision, Recall, F-score, respectively. The results are compared with both the traditional machine learning methods and those using Convolutional Neural Networks (CNNs). The results demonstrate the ability of our classification model to use as an alternative of the current diagnostic tool.

scholarly journals Robust Approach to Supervised Deep Neural Network Training for Real-Time Object Classification in Cluttered Indoor Environment

2021 ◽  
Vol 11 (15) ◽  
pp. 7148
Author(s):  
Bedada Endale ◽  
Abera Tullu ◽  
Hayoung Shi ◽  
Beom-Soo Kang
Keyword(s):  
Neural Network ◽  
Deep Learning ◽  
Real Time ◽  
Network Architecture ◽  
Input Data ◽  
Deep Neural Network ◽  
Data Augmentation ◽  
Object Classification ◽  
Training Data ◽  
Gradient Descent Algorithm

Unmanned aerial vehicles (UAVs) are being widely utilized for various missions: in both civilian and military sectors. Many of these missions demand UAVs to acquire artificial intelligence about the environments they are navigating in. This perception can be realized by training a computing machine to classify objects in the environment. One of the well known machine training approaches is supervised deep learning, which enables a machine to classify objects. However, supervised deep learning comes with huge sacrifice in terms of time and computational resources. Collecting big input data, pre-training processes, such as labeling training data, and the need for a high performance computer for training are some of the challenges that supervised deep learning poses. To address these setbacks, this study proposes mission specific input data augmentation techniques and the design of light-weight deep neural network architecture that is capable of real-time object classification. Semi-direct visual odometry (SVO) data of augmented images are used to train the network for object classification. Ten classes of 10,000 different images in each class were used as input data where 80% were for training the network and the remaining 20% were used for network validation. For the optimization of the designed deep neural network, a sequential gradient descent algorithm was implemented. This algorithm has the advantage of handling redundancy in the data more efficiently than other algorithms.

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