scholarly journals The semantic segmentation approach for normal and pathologic tympanic membrane using deep learning

2019 ◽  
Author(s):  
Jungirl Seok ◽  
Jae-Jin Song ◽  
Ja-Won Koo ◽  
Hee Chan Kim ◽  
Byung Yoon Choi
Keyword(s):  
Deep Learning ◽  
Tympanic Membrane ◽  
Medical Records ◽  
Semantic Segmentation ◽  
Detection Accuracy ◽  
Test Set ◽  
Starting Point ◽  
Segmentation Approach ◽  
Validation Set ◽  
Deep Learning Model

AbstractObjectivesThe purpose of this study was to create a deep learning model for the detection and segmentation of major structures of the tympanic membrane.MethodsTotal 920 tympanic endoscopic images had been stored were obtained, retrospectively. We constructed a detection and segmentation model using Mask R-CNN with ResNet-50 backbone targeting three clinically meaningful structures: (1) tympanic membrane (TM); (2) malleus with side of tympanic membrane; and (3) suspected perforation area. The images were randomly divided into three sets – taining set, validation set, and test set – at a ratio of 0.6:0.2:0.2, resulting in 548, 187, and 185 images, respectively. After assignment, 548 tympanic membrane images were augmented 50 times each, reaching 27,400 images.ResultsAt the most optimized point of the model, it achieved a mean average precision of 92.9% on test set. When an intersection over Union (IoU) score of greater than 0.5 was used as the reference point, the tympanic membrane was 100% detectable, the accuracy of side of the tympanic membrane based on the malleus segmentation was 88.6% and detection accuracy of suspicious perforation was 91.4%.ConclusionsAnatomical segmentation may allow the inclusion of an explanation provided by deep learning as part of the results. This method is applicable not only to tympanic endoscope, but also to sinus endoscope, laryngoscope, and stroboscope. Finally, it will be the starting point for the development of automated medical records descriptor of endoscope images.

scholarly journals Semantic segmentation of PolSAR image data using advanced deep learning model

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Rajat Garg ◽  
Anil Kumar ◽  
Nikunj Bansal ◽  
Manish Prateek ◽  
Shashi Kumar
Keyword(s):  
Machine Learning ◽  
Remote Sensing ◽  
Deep Learning ◽  
Urban Area ◽  
Urban Areas ◽  
Learning Algorithms ◽  
Semantic Segmentation ◽  
Learning Model ◽  
Machine Learning Algorithms ◽  
Deep Learning Model

AbstractUrban area mapping is an important application of remote sensing which aims at both estimation and change in land cover under the urban area. A major challenge being faced while analyzing Synthetic Aperture Radar (SAR) based remote sensing data is that there is a lot of similarity between highly vegetated urban areas and oriented urban targets with that of actual vegetation. This similarity between some urban areas and vegetation leads to misclassification of the urban area into forest cover. The present work is a precursor study for the dual-frequency L and S-band NASA-ISRO Synthetic Aperture Radar (NISAR) mission and aims at minimizing the misclassification of such highly vegetated and oriented urban targets into vegetation class with the help of deep learning. In this study, three machine learning algorithms Random Forest (RF), K-Nearest Neighbour (KNN), and Support Vector Machine (SVM) have been implemented along with a deep learning model DeepLabv3+ for semantic segmentation of Polarimetric SAR (PolSAR) data. It is a general perception that a large dataset is required for the successful implementation of any deep learning model but in the field of SAR based remote sensing, a major issue is the unavailability of a large benchmark labeled dataset for the implementation of deep learning algorithms from scratch. In current work, it has been shown that a pre-trained deep learning model DeepLabv3+ outperforms the machine learning algorithms for land use and land cover (LULC) classification task even with a small dataset using transfer learning. The highest pixel accuracy of 87.78% and overall pixel accuracy of 85.65% have been achieved with DeepLabv3+ and Random Forest performs best among the machine learning algorithms with overall pixel accuracy of 77.91% while SVM and KNN trail with an overall accuracy of 77.01% and 76.47% respectively. The highest precision of 0.9228 is recorded for the urban class for semantic segmentation task with DeepLabv3+ while machine learning algorithms SVM and RF gave comparable results with a precision of 0.8977 and 0.8958 respectively.

scholarly journals Evolving Deep Learning Convolutional Neural Networks for Early COVID-19 Detection in Chest X-ray Images

Mathematics ◽  
2021 ◽  
Vol 9 (9) ◽  
pp. 1002
Author(s):  
Mohammad Khishe ◽  
Fabio Caraffini ◽  
Stefan Kuhn
Keyword(s):  
Deep Learning ◽  
Early Detection ◽  
Iterative Process ◽  
High Accuracy ◽  
X Ray ◽  
Starting Point ◽  
Reliable Model ◽  
Minimum Number ◽  
Chest X Ray ◽  
Deep Learning Model

This article proposes a framework that automatically designs classifiers for the early detection of COVID-19 from chest X-ray images. To do this, our approach repeatedly makes use of a heuristic for optimisation to efficiently find the best combination of the hyperparameters of a convolutional deep learning model. The framework starts with optimising a basic convolutional neural network which represents the starting point for the evolution process. Subsequently, at most two additional convolutional layers are added, at a time, to the previous convolutional structure as a result of a further optimisation phase. Each performed phase maximises the the accuracy of the system, thus requiring training and assessment of the new model, which gets gradually deeper, with relevant COVID-19 chest X-ray images. This iterative process ends when no improvement, in terms of accuracy, is recorded. Hence, the proposed method evolves the most performing network with the minimum number of convolutional layers. In this light, we simultaneously achieve high accuracy while minimising the presence of redundant layers to guarantee a fast but reliable model. Our results show that the proposed implementation of such a framework achieves accuracy up to 99.11%, thus being particularly suitable for the early detection of COVID-19.

Deep learning to predict subtypes of poorly differentiated lung cancer from biopsy whole slide images.

2021 ◽  
Vol 39 (15_suppl) ◽  
pp. 8536-8536
Author(s):  
Gouji Toyokawa ◽  
Fahdi Kanavati ◽  
Seiya Momosaki ◽  
Kengo Tateishi ◽  
Hiroaki Takeoka ◽  
...  
Keyword(s):  
Lung Cancer ◽  
Deep Learning ◽  
Learning Model ◽  
Test Set ◽  
Cancer Subtypes ◽  
Independent Test ◽  
Poorly Differentiated ◽  
Test Sets ◽  
Deep Learning Model ◽  
Whole Slide Images

8536 Background: Lung cancer is the leading cause of cancer-related death in many countries, and its prognosis remains unsatisfactory. Since treatment approaches differ substantially based on the subtype, such as adenocarcinoma (ADC), squamous cell carcinoma (SCC) and small cell lung cancer (SCLC), an accurate histopathological diagnosis is of great importance. However, if the specimen is solely composed of poorly differentiated cancer cells, distinguishing between histological subtypes can be difficult. The present study developed a deep learning model to classify lung cancer subtypes from whole slide images (WSIs) of transbronchial lung biopsy (TBLB) specimens, in particular with the aim of using this model to evaluate a challenging test set of indeterminate cases. Methods: Our deep learning model consisted of two separately trained components: a convolutional neural network tile classifier and a recurrent neural network tile aggregator for the WSI diagnosis. We used a training set consisting of 638 WSIs of TBLB specimens to train a deep learning model to classify lung cancer subtypes (ADC, SCC and SCLC) and non-neoplastic lesions. The training set consisted of 593 WSIs for which the diagnosis had been determined by pathologists based on the visual inspection of Hematoxylin-Eosin (HE) slides and of 45 WSIs of indeterminate cases (64 ADCs and 19 SCCs). We then evaluated the models using five independent test sets. For each test set, we computed the receiver operator curve (ROC) area under the curve (AUC). Results: We applied the model to an indeterminate test set of WSIs obtained from TBLB specimens that pathologists had not been able to conclusively diagnose by examining the HE-stained specimens alone. Overall, the model achieved ROC AUCs of 0.993 (confidence interval [CI] 0.971-1.0) and 0.996 (0.981-1.0) for ADC and SCC, respectively. We further evaluated the model using five independent test sets consisting of both TBLB and surgically resected lung specimens (combined total of 2490 WSIs) and obtained highly promising results with ROC AUCs ranging from 0.94 to 0.99. Conclusions: In this study, we demonstrated that a deep learning model could be trained to predict lung cancer subtypes in indeterminate TBLB specimens. The extremely promising results obtained show that if deployed in clinical practice, a deep learning model that is capable of aiding pathologists in diagnosing indeterminate cases would be extremely beneficial as it would allow a diagnosis to be obtained sooner and reduce costs that would result from further investigations.

Abstract P319: Can Deep Learning Find the Ischemic Core on CT? Transfer Learning From Pre-Trained MRI-Based Networks

Stroke ◽  
2021 ◽  
Vol 52 (Suppl_1) ◽  
Author(s):  
Yannan Yu ◽  
Soren Christensen ◽  
Yuan Xie ◽  
Enhao Gong ◽  
Maarten G Lansberg ◽  
...  
Keyword(s):  
Deep Learning ◽  
Ground Truth ◽  
Learning Model ◽  
Fine Tuning ◽  
Learning Models ◽  
Starting Point ◽  
Stroke Lesion ◽  
Ischemic Core ◽  
Deep Learning Model

Objective: Ischemic core prediction from CT perfusion (CTP) remains inaccurate compared with gold standard diffusion-weighted imaging (DWI). We evaluated if a deep learning model to predict the DWI lesion from MR perfusion (MRP) could facilitate ischemic core prediction on CTP. Method: Using the multi-center CRISP cohort of acute ischemic stroke patient with CTP before thrombectomy, we included patients with major reperfusion (TICI score≥2b), adequate image quality, and follow-up MRI at 3-7 days. Perfusion parameters including Tmax, mean transient time, cerebral blood flow (CBF), and cerebral blood volume were reconstructed by RAPID software. Core lab experts outlined the stroke lesion on the follow-up MRI. A previously trained MRI model in a separate group of patients was used as a starting point, which used MRP parameters as input and RAPID ischemic core on DWI as ground truth. We fine-tuned this model, using CTP parameters as input, and follow-up MRI as ground truth. Another model was also trained from scratch with only CTP data. 5-fold cross validation was used. Performance of the models was compared with ischemic core (rCBF≤30%) from RAPID software to identify the presence of a large infarct (volume>70 or >100ml). Results: 94 patients in the CRISP trial met the inclusion criteria (mean age 67±15 years, 52% male, median baseline NIHSS 18, median 90-day mRS 2). Without fine-tuning, the MRI model had an agreement of 73% in infarct >70ml, and 69% in >100ml; the MRI model fine-tuned on CT improved the agreement to 77% and 73%; The CT model trained from scratch had agreements of 73% and 71%; All of the deep learning models outperformed the rCBF segmentation from RAPID, which had agreements of 51% and 64%. See Table and figure. Conclusions: It is feasible to apply MRP-based deep learning model to CT. Fine-tuning with CTP data further improves the predictions. All deep learning models predict the stroke lesion after major recanalization better than thresholding approaches based on rCBF.

scholarly journals Efficient 3D Deep Learning Model for Medical Image Semantic Segmentation

2021 ◽  
Vol 60 (1) ◽  
pp. 1231-1239
Author(s):  
Nasser Alalwan ◽  
Amr Abozeid ◽  
AbdAllah A. ElHabshy ◽  
Ahmed Alzahrani
Keyword(s):  
Deep Learning ◽  
Medical Image ◽  
Semantic Segmentation ◽  
Learning Model ◽  
Deep Learning Model

scholarly journals Visual Saliency Prediction Based on Deep Learning

Information ◽  
2019 ◽  
Vol 10 (8) ◽  
pp. 257 ◽  
Author(s):  
Bashir Ghariba ◽  
Mohamed S. Shehata ◽  
Peter McGuire
Keyword(s):  
Deep Learning ◽  
Saliency Detection ◽  
Visual Saliency ◽  
Semantic Segmentation ◽  
Input Image ◽  
Human Eye ◽  
Proposed Model ◽  
Global Accuracy ◽  
Visual Saliency Detection ◽  
Deep Learning Model

Human eye movement is one of the most important functions for understanding our surroundings. When a human eye processes a scene, it quickly focuses on dominant parts of the scene, commonly known as a visual saliency detection or visual attention prediction. Recently, neural networks have been used to predict visual saliency. This paper proposes a deep learning encoder-decoder architecture, based on a transfer learning technique, to predict visual saliency. In the proposed model, visual features are extracted through convolutional layers from raw images to predict visual saliency. In addition, the proposed model uses the VGG-16 network for semantic segmentation, which uses a pixel classification layer to predict the categorical label for every pixel in an input image. The proposed model is applied to several datasets, including TORONTO, MIT300, MIT1003, and DUT-OMRON, to illustrate its efficiency. The results of the proposed model are quantitatively and qualitatively compared to classic and state-of-the-art deep learning models. Using the proposed deep learning model, a global accuracy of up to 96.22% is achieved for the prediction of visual saliency.

scholarly journals IGRNet: A Deep Learning Model for Non-Invasive, Real-Time Diagnosis of Prediabetes through Electrocardiograms

Sensors ◽  
2020 ◽  
Vol 20 (9) ◽  
pp. 2556
Author(s):  
Liyang Wang ◽  
Yao Mu ◽  
Jing Zhao ◽  
Xiaoya Wang ◽  
Huilian Che
Keyword(s):  
Machine Learning ◽  
Deep Learning ◽  
Real Time ◽  
Clinical Symptoms ◽  
Characteristic Curve ◽  
Learning Model ◽  
Machine Learning Algorithms ◽  
Test Set ◽  
Non Invasive ◽  
Deep Learning Model

The clinical symptoms of prediabetes are mild and easy to overlook, but prediabetes may develop into diabetes if early intervention is not performed. In this study, a deep learning model—referred to as IGRNet—is developed to effectively detect and diagnose prediabetes in a non-invasive, real-time manner using a 12-lead electrocardiogram (ECG) lasting 5 s. After searching for an appropriate activation function, we compared two mainstream deep neural networks (AlexNet and GoogLeNet) and three traditional machine learning algorithms to verify the superiority of our method. The diagnostic accuracy of IGRNet is 0.781, and the area under the receiver operating characteristic curve (AUC) is 0.777 after testing on the independent test set including mixed group. Furthermore, the accuracy and AUC are 0.856 and 0.825, respectively, in the normal-weight-range test set. The experimental results indicate that IGRNet diagnoses prediabetes with high accuracy using ECGs, outperforming existing other machine learning methods; this suggests its potential for application in clinical practice as a non-invasive, prediabetes diagnosis technology.

scholarly journals Real-Time Semantic Segmentation with Dual Encoder and Self-Attention Mechanism for Autonomous Driving

Sensors ◽  
2021 ◽  
Vol 21 (23) ◽  
pp. 8072
Author(s):  
Yu-Bang Chang ◽  
Chieh Tsai ◽  
Chang-Hong Lin ◽  
Poki Chen
Keyword(s):  
Deep Learning ◽  
Real Time ◽  
Network Architecture ◽  
Semantic Segmentation ◽  
Autonomous Driving ◽  
Attention Mechanism ◽  
Trade Off ◽  
Segmentation Methods ◽  
General Semantic ◽  
Deep Learning Model

As the techniques of autonomous driving become increasingly valued and universal, real-time semantic segmentation has become very popular and challenging in the field of deep learning and computer vision in recent years. However, in order to apply the deep learning model to edge devices accompanying sensors on vehicles, we need to design a structure that has the best trade-off between accuracy and inference time. In previous works, several methods sacrificed accuracy to obtain a faster inference time, while others aimed to find the best accuracy under the condition of real time. Nevertheless, the accuracies of previous real-time semantic segmentation methods still have a large gap compared to general semantic segmentation methods. As a result, we propose a network architecture based on a dual encoder and a self-attention mechanism. Compared with preceding works, we achieved a 78.6% mIoU with a speed of 39.4 FPS with a 1024 × 2048 resolution on a Cityscapes test submission.

scholarly journals Dropout, a basic and effective regularization method for a deep learning model: a case study

2021 ◽  
Vol 24 (2) ◽  
pp. 1009
Author(s):  
Brahim Jabir ◽  
Noureddine Falih
Keyword(s):  
Deep Learning ◽  
Weed Species ◽  
It Impacts ◽  
Artificial Neurons ◽  
Pest Detection ◽  
Learning Set ◽  
Validation Set ◽  
Deep Learning Model ◽  
And Training

Deep learning is based on a network of artificial neurons inspired by the human brain. This network is made up of tens or even hundreds of "layers" of neurons. The fields of application of deep learning are indeed multiple; Agriculture is one of those fields in which deep learning is used in various agricultural problems (disease detection, pest detection, and weed identification). A major problem with deep learning is how to create a model that works well, not only on the learning set but also on the validation set. Many approaches used in neural networks are explicitly designed to reduce overfit, possibly at the expense of increasing validation accuracy and training accuracy. In this paper, a basic technique (dropout) is proposed to minimize overfit, we integrated it into a convolutional neural network model to classify weed species and see how it impacts performance, a complementary solution (exponential linear units) are proposed to optimize the obtained results. The results showed that these proposed solutions are practical and highly accurate, enabling us to adopt them in deep learning models.

scholarly journals The contribution of hippocampal subfields to the progression of neurodegeneration

2020 ◽  
Author(s):  
Kichang Kwak ◽  
Marc Niethammer ◽  
Kelly S. Giovanello ◽  
Martin Styner ◽  
Eran Dayan ◽  
...  
Keyword(s):  
Deep Learning ◽  
Network Architecture ◽  
Molecular Layer ◽  
Total Sample ◽  
Neural Network Architecture ◽  
Hippocampal Subfields ◽  
Validation Set ◽  
Hippocampal Structure ◽  
Deep Learning Model ◽  
Variable Progression

AbstractMild cognitive impairment (MCI) is often considered the precursor of Alzheimer’s disease. However, MCI is associated with substantially variable progression rates, which are not well understood. Attempts to identify the mechanisms that underlie MCI progression have often focused on the hippocampus, but have mostly overlooked its intricate structure and subdivisions. Here, we utilized deep learning to delineate the contribution of hippocampal subfields to MCI progression using a total sample of 1157 subjects (349 in the training set, 427 in a validation set and 381 in the testing set). We propose a dense convolutional neural network architecture that differentiates stable and progressive MCI based on hippocampal morphometry. The proposed deep learning model predicted MCI progression with an accuracy of 75.85%. A novel implementation of occlusion analysis revealed marked differences in the contribution of hippocampal subfields to the performance of the model, with presubiculum, CA1, subiculum, and molecular layer showing the most central role. Moreover, the analysis reveals that 10.5% of the volume of the hippocampus was redundant in the differentiation between stable and progressive MCI. Our predictive model uncovers pronounced differences in the contribution of hippocampal subfields to the progression of MCI. The results may reflect the sparing of hippocampal structure in individuals with a slower progression of neurodegeneration.

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