scholarly journals EyeHealer: A large-scale anterior eye segment dataset with eye structure and lesion annotations

2021 ◽  
Author(s):  
Wenjia Cai ◽  
Jie Xu ◽  
Ke Wang ◽  
Xiaohong Liu ◽  
Wenqin Xu ◽  
...  
Keyword(s):  
Deep Learning ◽  
Large Scale ◽  
Image Annotation ◽  
Clinical Care ◽  
Significant Proportion ◽  
Anterior Segment ◽  
Future Research ◽  
Learning Models ◽  
Anterior Eye Segment ◽  
Segmentation Models

Abstract Anterior segment eye diseases account for a significant proportion of presentations to eye clinics worldwide, including diseases associated with corneal pathologies, anterior chamber abnormalities (e.g. blood or inflammation) and lens diseases. The construction of an automatic tool for the segmentation of anterior segment eye lesions will greatly improve the efficiency of clinical care. With research on artificial intelligence progressing in recent years, deep learning models have shown their superiority in image classification and segmentation. The training and evaluation of deep learning models should be based on a large amount of data annotated with expertise, however, such data are relatively scarce in the domain of medicine. Herein, the authors developed a new medical image annotation system, called EyeHealer. It is a large-scale anterior eye segment dataset with both eye structures and lesions annotated at the pixel level. Comprehensive experiments were conducted to verify its performance in disease classification and eye lesion segmentation. The results showed that semantic segmentation models outperformed medical segmentation models. This paper describes the establishment of the system for automated classification and segmentation tasks. The dataset will be made publicly available to encourage future research in this area.

scholarly journals Deep Learning with Neuroimaging and Genomics in Alzheimer’s Disease

2021 ◽  
Vol 22 (15) ◽  
pp. 7911
Author(s):  
Eugene Lin ◽  
Chieh-Hsin Lin ◽  
Hsien-Yuan Lane
Keyword(s):  
Alzheimer’S Disease ◽  
Alzheimer's Disease ◽  
Deep Learning ◽  
Future Research ◽  
Learning Approaches ◽  
Learning Models ◽  
Learning Techniques ◽  
Neuroimaging Data ◽  
Similarities And Differences ◽  
Normal Controls

A growing body of evidence currently proposes that deep learning approaches can serve as an essential cornerstone for the diagnosis and prediction of Alzheimer’s disease (AD). In light of the latest advancements in neuroimaging and genomics, numerous deep learning models are being exploited to distinguish AD from normal controls and/or to distinguish AD from mild cognitive impairment in recent research studies. In this review, we focus on the latest developments for AD prediction using deep learning techniques in cooperation with the principles of neuroimaging and genomics. First, we narrate various investigations that make use of deep learning algorithms to establish AD prediction using genomics or neuroimaging data. Particularly, we delineate relevant integrative neuroimaging genomics investigations that leverage deep learning methods to forecast AD on the basis of incorporating both neuroimaging and genomics data. Moreover, we outline the limitations as regards to the recent AD investigations of deep learning with neuroimaging and genomics. Finally, we depict a discussion of challenges and directions for future research. The main novelty of this work is that we summarize the major points of these investigations and scrutinize the similarities and differences among these investigations.

scholarly journals Deep learning for pulmonary embolism detection on computed tomography pulmonary angiogram: a systematic review and meta-analysis

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Shelly Soffer ◽  
Eyal Klang ◽  
Orit Shimon ◽  
Yiftach Barash ◽  
Noa Cahan ◽  
...  
Keyword(s):  
Systematic Review ◽  
Pulmonary Embolism ◽  
Deep Learning ◽  
Sensitivity And Specificity ◽  
Meta Analysis ◽  
Risk Of Bias ◽  
Future Research ◽  
Learning Models ◽  
Summary Receiver Operating Characteristic ◽  
Pulmonary Angiogram

AbstractComputed tomographic pulmonary angiography (CTPA) is the gold standard for pulmonary embolism (PE) diagnosis. However, this diagnosis is susceptible to misdiagnosis. In this study, we aimed to perform a systematic review of current literature applying deep learning for the diagnosis of PE on CTPA. MEDLINE/PUBMED were searched for studies that reported on the accuracy of deep learning algorithms for PE on CTPA. The risk of bias was evaluated using the QUADAS-2 tool. Pooled sensitivity and specificity were calculated. Summary receiver operating characteristic curves were plotted. Seven studies met our inclusion criteria. A total of 36,847 CTPA studies were analyzed. All studies were retrospective. Five studies provided enough data to calculate summary estimates. The pooled sensitivity and specificity for PE detection were 0.88 (95% CI 0.803–0.927) and 0.86 (95% CI 0.756–0.924), respectively. Most studies had a high risk of bias. Our study suggests that deep learning models can detect PE on CTPA with satisfactory sensitivity and an acceptable number of false positive cases. Yet, these are only preliminary retrospective works, indicating the need for future research to determine the clinical impact of automated PE detection on patient care. Deep learning models are gradually being implemented in hospital systems, and it is important to understand the strengths and limitations of these algorithms.

scholarly journals Automatic image annotation based on deep learning models: a systematic review and future challenges

IEEE Access ◽  
2021 ◽  
pp. 1-1
Author(s):  
Myasar Mundher Adnan ◽  
Mohd Shafry Mohd Rahim ◽  
Amjad Rehman ◽  
Zahid Mehmood ◽  
Tanzila Saba ◽  
...  
Keyword(s):  
Systematic Review ◽  
Deep Learning ◽  
Image Annotation ◽  
Automatic Image Annotation ◽  
Learning Models ◽  
Future Challenges

scholarly journals A Physics-Infused Deep Learning Model for the Prediction of Refractive Indices and Its Use for the Large-Scale Screening of Organic Compound Space

2019 ◽  
Author(s):  
Mojtaba Haghighatlari ◽  
Gaurav Vishwakarma ◽  
Mohammad Atif Faiz Afzal ◽  
Johannes Hachmann
Keyword(s):  
Machine Learning ◽  
Deep Learning ◽  
Large Scale ◽  
Organic Molecules ◽  
Learning Model ◽  
Training Data ◽  
Refractive Indices ◽  
Learning Models ◽  
Deep Learning Model ◽  
Machine Learning Models

<div><div><div><p>We present a multitask, physics-infused deep learning model to accurately and efficiently predict refractive indices (RIs) of organic molecules, and we apply it to a library of 1.5 million compounds. We show that it outperforms earlier machine learning models by a significant margin, and that incorporating known physics into data-derived models provides valuable guardrails. Using a transfer learning approach, we augment the model to reproduce results consistent with higher-level computational chemistry training data, but with a considerably reduced number of corresponding calculations. Prediction errors of machine learning models are typically smallest for commonly observed target property values, consistent with the distribution of the training data. However, since our goal is to identify candidates with unusually large RI values, we propose a strategy to boost the performance of our model in the remoter areas of the RI distribution: We bias the model with respect to the under-represented classes of molecules that have values in the high-RI regime. By adopting a metric popular in web search engines, we evaluate our effectiveness in ranking top candidates. We confirm that the models developed in this study can reliably predict the RIs of the top 1,000 compounds, and are thus able to capture their ranking. We believe that this is the first study to develop a data-derived model that ensures the reliability of RI predictions by model augmentation in the extrapolation region on such a large scale. These results underscore the tremendous potential of machine learning in facilitating molecular (hyper)screening approaches on a massive scale and in accelerating the discovery of new compounds and materials, such as organic molecules with high-RI for applications in opto-electronics.</p></div></div></div>

scholarly journals Disease classification in Solanum melongena using deep learning

2019 ◽  
Vol 17 (3) ◽  
pp. e0204 ◽  
Author(s):  
Krishnaswamy R. Aravind ◽  
Purushothaman Raja ◽  
Rajendran Ashiwin ◽  
Konnaiyar V. Mukesh
Keyword(s):  
Deep Learning ◽  
Tamil Nadu ◽  
Solanum Melongena ◽  
Disease Classification ◽  
Healthy Plant ◽  
Future Research ◽  
Learning Models ◽  
Cercospora Leaf Spot ◽  
Before And After ◽  
Augmentation Techniques

Aim of study: The application of pre-trained deep learning models, AlexNet and VGG16, for classification of five diseases (Epilachna beetle infestation, little leaf, Cercospora leaf spot, two-spotted spider mite and Tobacco Mosaic Virus (TMV)) and a healthy plant in Solanum melongena (brinjal in Asia, eggplant in USA and aubergine in UK) with images acquired from smartphones.Area of study: Images were acquired from fields located at Alangudi (Pudukkottai district), Tirumalaisamudram and Pillayarpatti (Thanjavur district) – Tamil Nadu, India.Material and methods: Most of earlier studies have been carried out with images of isolated leaf samples, whereas in this work the whole or part of the plant images were utilized for the dataset creation. Augmentation techniques were applied to the manually segmented images for increasing the dataset size. The classification capability of deep learning models was analysed before and after augmentation. A fully connected layer was added to the architecture and evaluated for its performance.Main results: The modified architecture of VGG16 trained with the augmented dataset resulted in an average validation accuracy of 96.7%. Despite the best accuracy, all the models were tested with sample images from the field and the modified VGG16 resulted in an accuracy of 93.33%.Research highlights: The findings provide a guidance for possible factors to be considered in future research relevant to the dataset creation and methodology for efficient prediction using deep learning models.

scholarly journals Definitive guidelines toward effective mobile devices crowdtesting methodology

2020 ◽  
Vol 4 (2) ◽  
pp. 209-228
Author(s):  
Qamar Naith ◽  
Fabio Ciravegna
Keyword(s):  
Large Scale ◽  
Significant Proportion ◽  
Global Market ◽  
Future Research ◽  
Mobile Platforms ◽  
Content Type ◽  
The Public ◽  
Gig Economy ◽  
Development Teams ◽  
Application Developers

Purpose This paper aims to gauge developers’ perspectives regarding the participation of the public and anonymous crowd testers worldwide, with a range of varied experiences. It also aims to gather their needs that could reduce their concerns of dealing with the public crowd testers and increase the opportunity of using the crowdtesting platforms. Design/methodology/approach An online exploratory survey was conducted to gather information from the participants, which included 50 mobile application developers from various countries with diverse experiences across Android and iOS mobile platforms. Findings The findings revealed that a significant proportion (90%) of developers is potentially willing to perform testing via the public crowd testers worldwide. This on condition that several fundamental features were available, which enable them to achieve more realistic tests without artificial environments on large numbers of devices. The results also demonstrated that a group of developers does not consider testing as a serious job that they have to pay for, which can affect the gig-economy and global market. Originality/value This paper provides new insights for future research in the study of how acceptable it is to work with public and anonymous crowd workers, with varying levels of experience, to perform tasks in different domains and not only in software testing. In addition, it will assist individual or small development teams who have limited resources or who do not have thousands of testers in their private testing community, to perform large-scale testing of their products.

scholarly journals Validating the validation: reanalyzing a large-scale comparison of deep learning and machine learning models for bioactivity prediction

2020 ◽  
Vol 34 (7) ◽  
pp. 717-730 ◽  
Author(s):  
Matthew C. Robinson ◽  
Robert C. Glen ◽  
Alpha A. Lee
Keyword(s):  
Machine Learning ◽  
Deep Learning ◽  
Numerical Experiments ◽  
Large Scale ◽  
Operating Characteristic ◽  
Characteristic Curve ◽  
Learning Models ◽  
Bioactivity Prediction ◽  
Operating Characteristic Curve ◽  
Machine Learning Models

Abstract Machine learning methods may have the potential to significantly accelerate drug discovery. However, the increasing rate of new methodological approaches being published in the literature raises the fundamental question of how models should be benchmarked and validated. We reanalyze the data generated by a recently published large-scale comparison of machine learning models for bioactivity prediction and arrive at a somewhat different conclusion. We show that the performance of support vector machines is competitive with that of deep learning methods. Additionally, using a series of numerical experiments, we question the relevance of area under the receiver operating characteristic curve as a metric in virtual screening. We further suggest that area under the precision–recall curve should be used in conjunction with the receiver operating characteristic curve. Our numerical experiments also highlight challenges in estimating the uncertainty in model performance via scaffold-split nested cross validation.

scholarly journals Salient Object Detection Techniques in Computer Vision—A Survey

Entropy ◽  
2020 ◽  
Vol 22 (10) ◽  
pp. 1174
Author(s):  
Ashish Kumar Gupta ◽  
Ayan Seal ◽  
Mukesh Prasad ◽  
Pritee Khanna
Keyword(s):  
Computer Vision ◽  
Deep Learning ◽  
Object Detection ◽  
Large Scale ◽  
Research Work ◽  
Salient Object Detection ◽  
Future Research ◽  
Automatic Identification ◽  
Salient Object ◽  
Detection Techniques

Detection and localization of regions of images that attract immediate human visual attention is currently an intensive area of research in computer vision. The capability of automatic identification and segmentation of such salient image regions has immediate consequences for applications in the field of computer vision, computer graphics, and multimedia. A large number of salient object detection (SOD) methods have been devised to effectively mimic the capability of the human visual system to detect the salient regions in images. These methods can be broadly categorized into two categories based on their feature engineering mechanism: conventional or deep learning-based. In this survey, most of the influential advances in image-based SOD from both conventional as well as deep learning-based categories have been reviewed in detail. Relevant saliency modeling trends with key issues, core techniques, and the scope for future research work have been discussed in the context of difficulties often faced in salient object detection. Results are presented for various challenging cases for some large-scale public datasets. Different metrics considered for assessment of the performance of state-of-the-art salient object detection models are also covered. Some future directions for SOD are presented towards end.

scholarly journals Active Learning Plus Deep Learning Can Establish Cost-Effective and Robust Model for Multichannel Image: A Case on Hyperspectral Image Classification

Sensors ◽  
2020 ◽  
Vol 20 (17) ◽  
pp. 4975
Author(s):  
Fangyu Shi ◽  
Zhaodi Wang ◽  
Menghan Hu ◽  
Guangtao Zhai
Keyword(s):  
Deep Learning ◽  
Active Learning ◽  
Image Classification ◽  
Large Scale ◽  
Hyperspectral Image ◽  
Image Annotation ◽  
Learning Algorithm ◽  
Magnetic Resonance Images ◽  
Biological Engineering ◽  
Hyperspectral Image Classification

Relying on large scale labeled datasets, deep learning has achieved good performance in image classification tasks. In agricultural and biological engineering, image annotation is time-consuming and expensive. It also requires annotators to have technical skills in specific areas. Obtaining the ground truth is difficult because natural images are expensive. In addition, images in these areas are usually stored as multichannel images, such as computed tomography (CT) images, magnetic resonance images (MRI), and hyperspectral images (HSI). In this paper, we present a framework using active learning and deep learning for multichannel image classification. We use three active learning algorithms, including least confidence, margin sampling, and entropy, as the selection criteria. Based on this framework, we further introduce an “image pool” to make full advantage of images generated by data augmentation. To prove the availability of the proposed framework, we present a case study on agricultural hyperspectral image classification. The results show that the proposed framework achieves better performance compared with the deep learning model. Manual annotation of all the training sets achieves an encouraging accuracy. In comparison, using active learning algorithm of entropy and image pool achieves a similar accuracy with only part of the whole training set manually annotated. In practical application, the proposed framework can remarkably reduce labeling effort during the model development and upadting processes, and can be applied to multichannel image classification in agricultural and biological engineering.

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