scholarly journals Segment convolutional neural networks (Seg-CNNs) for classifying relations in clinical notes

2017 ◽  
Vol 25 (1) ◽  
pp. 93-98 ◽  
Author(s):  
Yuan Luo ◽  
Yu Cheng ◽  
Özlem Uzuner ◽  
Peter Szolovits ◽  
Justin Starren
Keyword(s):  
Neural Networks ◽  
Convolutional Neural Networks ◽  
State Of The Art ◽  
Graphics Processing Unit ◽  
Medical Problem ◽  
Feature Engineering ◽  
Processing Unit ◽  
Clinical Notes ◽  
Overall Evaluation ◽  
Relation Classification

Abstract We propose Segment Convolutional Neural Networks (Seg-CNNs) for classifying relations from clinical notes. Seg-CNNs use only word-embedding features without manual feature engineering. Unlike typical CNN models, relations between 2 concepts are identified by simultaneously learning separate representations for text segments in a sentence: preceding, concept1, middle, concept2, and succeeding. We evaluate Seg-CNN on the i2b2/VA relation classification challenge dataset. We show that Seg-CNN achieves a state-of-the-art micro-average F-measure of 0.742 for overall evaluation, 0.686 for classifying medical problem–treatment relations, 0.820 for medical problem–test relations, and 0.702 for medical problem–medical problem relations. We demonstrate the benefits of learning segment-level representations. We show that medical domain word embeddings help improve relation classification. Seg-CNNs can be trained quickly for the i2b2/VA dataset on a graphics processing unit (GPU) platform. These results support the use of CNNs computed over segments of text for classifying medical relations, as they show state-of-the-art performance while requiring no manual feature engineering.

scholarly journals Classifying relations in clinical narratives using segment graph convolutional and recurrent neural networks (Seg-GCRNs)

2018 ◽  
Vol 26 (3) ◽  
pp. 262-268 ◽  
Author(s):  
Yifu Li ◽  
Ran Jin ◽  
Yuan Luo
Keyword(s):  
Neural Networks ◽  
Recurrent Neural Networks ◽  
State Of The Art ◽  
Medical Problem ◽  
Word Embedding ◽  
Feature Engineering ◽  
Medical Test ◽  
Relation Classification ◽  
Syntactic Dependencies ◽  
Syntactic Dependency

Abstract We propose to use segment graph convolutional and recurrent neural networks (Seg-GCRNs), which use only word embedding and sentence syntactic dependencies, to classify relations from clinical notes without manual feature engineering. In this study, the relations between 2 medical concepts are classified by simultaneously learning representations of text segments in the context of sentence syntactic dependency: preceding, concept1, middle, concept2, and succeeding segments. Seg-GCRN was systematically evaluated on the i2b2/VA relation classification challenge datasets. Experiments show that Seg-GCRN attains state-of-the-art micro-averaged F-measure for all 3 relation categories: 0.692 for classifying medical treatment–problem relations, 0.827 for medical test–problem relations, and 0.741 for medical problem–medical problem relations. Comparison with the previous state-of-the-art segment convolutional neural network (Seg-CNN) suggests that adding syntactic dependency information helps refine medical word embedding and improves concept relation classification without manual feature engineering. Seg-GCRN can be trained efficiently for the i2b2/VA dataset on a GPU platform.

scholarly journals Object Detection with Low Capacity GPU Systems Using Improved Faster R-CNN

2019 ◽  
Vol 10 (1) ◽  
pp. 83 ◽  
Author(s):  
Atakan Körez ◽  
Necaattin Barışçı
Keyword(s):  
Neural Networks ◽  
Object Detection ◽  
Convolutional Neural Networks ◽  
Graphics Processing Unit ◽  
Satellite Image ◽  
Traffic Monitoring ◽  
Batch Size ◽  
Processing Unit ◽  
Proposed Model ◽  
Wide Range

Object detection in remote sensing images has been frequently used in a wide range of areas such as land planning, city monitoring, traffic monitoring, and agricultural applications. It is essential in the field of aerial and satellite image analysis but it is also a challenge. To overcome this challenging problem, there are many object detection models using convolutional neural networks (CNN). The deformable convolutional structure has been introduced to eliminate the disadvantage of the fixed grid structure of the convolutional neural networks. In this study, a multi-scale Faster R-CNN method based on deformable convolution is proposed for single/low graphics processing unit (GPU) systems. Weight standardization (WS) is used instead of batch normalization (BN) to make the proposed model more efficient for a small batch size (1 img/per GPU) on single GPU systems. Experiments were conducted on the publicly available 10-class geospatial object detection (NWPU-VHR 10) dataset to evaluate the object detection performance of the proposed model. Experiment results show that our model achieved a 92.3 mAP. This is a 1.7% mAP increase when compared to the best results in the models using the same dataset.

Real-time Detection of Aortic Valve in Echocardiography using Convolutional Neural Networks

2020 ◽  
Vol 16 (5) ◽  
pp. 584-591 ◽  
Author(s):  
Muhammad Hanif Ahmad Nizar ◽  
Chow Khuen Chan ◽  
Azira Khalil ◽  
Ahmad Khairuddin Mohamed Yusof ◽  
Khin Wee Lai
Keyword(s):  
Neural Network ◽  
Neural Networks ◽  
Heart Disease ◽  
Aortic Valve ◽  
Real Time ◽  
Convolutional Neural Networks ◽  
Valvular Heart Disease ◽  
Detection System ◽  
Processing Unit ◽  
Real Time Detection

Background: Valvular heart disease is a serious disease leading to mortality and increasing medical care cost. The aortic valve is the most common valve affected by this disease. Doctors rely on echocardiogram for diagnosing and evaluating valvular heart disease. However, the images from echocardiogram are poor in comparison to Computerized Tomography and Magnetic Resonance Imaging scan. This study proposes the development of Convolutional Neural Networks (CNN) that can function optimally during a live echocardiographic examination for detection of the aortic valve. An automated detection system in an echocardiogram will improve the accuracy of medical diagnosis and can provide further medical analysis from the resulting detection. Methods: Two detection architectures, Single Shot Multibox Detector (SSD) and Faster Regional based Convolutional Neural Network (R-CNN) with various feature extractors were trained on echocardiography images from 33 patients. Thereafter, the models were tested on 10 echocardiography videos. Results: Faster R-CNN Inception v2 had shown the highest accuracy (98.6%) followed closely by SSD Mobilenet v2. In terms of speed, SSD Mobilenet v2 resulted in a loss of 46.81% in framesper- second (fps) during real-time detection but managed to perform better than the other neural network models. Additionally, SSD Mobilenet v2 used the least amount of Graphic Processing Unit (GPU) but the Central Processing Unit (CPU) usage was relatively similar throughout all models. Conclusion: Our findings provide a foundation for implementing a convolutional detection system to echocardiography for medical purposes.

scholarly journals Using spatial-temporal ensembles of convolutional neural networks for lumen segmentation in ureteroscopy

2021 ◽  
Author(s):  
Jorge F. Lazo ◽  
Aldo Marzullo ◽  
Sara Moccia ◽  
Michele Catellani ◽  
Benoit Rosa ◽  
...  
Keyword(s):  
Neural Networks ◽  
Convolutional Neural Networks ◽  
State Of The Art ◽  
Automatic Segmentation ◽  
Temporal Information ◽  
Invasive Technique ◽  
Dice Similarity Coefficient ◽  
Specular Reflections ◽  
Lumen Segmentation ◽  
Previous State

Abstract Purpose Ureteroscopy is an efficient endoscopic minimally invasive technique for the diagnosis and treatment of upper tract urothelial carcinoma. During ureteroscopy, the automatic segmentation of the hollow lumen is of primary importance, since it indicates the path that the endoscope should follow. In order to obtain an accurate segmentation of the hollow lumen, this paper presents an automatic method based on convolutional neural networks (CNNs). Methods The proposed method is based on an ensemble of 4 parallel CNNs to simultaneously process single and multi-frame information. Of these, two architectures are taken as core-models, namely U-Net based in residual blocks ($$m_1$$ m 1 ) and Mask-RCNN ($$m_2$$ m 2 ), which are fed with single still-frames I(t). The other two models ($$M_1$$ M 1 , $$M_2$$ M 2 ) are modifications of the former ones consisting on the addition of a stage which makes use of 3D convolutions to process temporal information. $$M_1$$ M 1 , $$M_2$$ M 2 are fed with triplets of frames ($$I(t-1)$$ I ( t - 1 ) , I(t), $$I(t+1)$$ I ( t + 1 ) ) to produce the segmentation for I(t). Results The proposed method was evaluated using a custom dataset of 11 videos (2673 frames) which were collected and manually annotated from 6 patients. We obtain a Dice similarity coefficient of 0.80, outperforming previous state-of-the-art methods. Conclusion The obtained results show that spatial-temporal information can be effectively exploited by the ensemble model to improve hollow lumen segmentation in ureteroscopic images. The method is effective also in the presence of poor visibility, occasional bleeding, or specular reflections.

scholarly journals Image Classification for the Automatic Feature Extraction in Human Worn Fashion Data

Mathematics ◽  
2021 ◽  
Vol 9 (6) ◽  
pp. 624
Author(s):  
Stefan Rohrmanstorfer ◽  
Mikhail Komarov ◽  
Felix Mödritscher
Keyword(s):  
Neural Networks ◽  
Feature Extraction ◽  
Image Classification ◽  
Convolutional Neural Networks ◽  
Data Augmentation ◽  
State Of The Art ◽  
Image Data ◽  
Classification Model ◽  
Upper Body ◽  
Automatic Feature Extraction

With the always increasing amount of image data, it has become a necessity to automatically look for and process information in these images. As fashion is captured in images, the fashion sector provides the perfect foundation to be supported by the integration of a service or application that is built on an image classification model. In this article, the state of the art for image classification is analyzed and discussed. Based on the elaborated knowledge, four different approaches will be implemented to successfully extract features out of fashion data. For this purpose, a human-worn fashion dataset with 2567 images was created, but it was significantly enlarged by the performed image operations. The results show that convolutional neural networks are the undisputed standard for classifying images, and that TensorFlow is the best library to build them. Moreover, through the introduction of dropout layers, data augmentation and transfer learning, model overfitting was successfully prevented, and it was possible to incrementally improve the validation accuracy of the created dataset from an initial 69% to a final validation accuracy of 84%. More distinct apparel like trousers, shoes and hats were better classified than other upper body clothes.

scholarly journals Canopy Height Estimation at Landsat Resolution Using Convolutional Neural Networks

2020 ◽  
Vol 2 (1) ◽  
pp. 23-36
Author(s):  
Syed Aamir Ali Shah ◽  
Muhammad Asif Manzoor ◽  
Abdul Bais
Keyword(s):  
Neural Networks ◽  
Random Forest ◽  
Convolutional Neural Networks ◽  
Forest Structure ◽  
State Of The Art ◽  
Spatial Association ◽  
Canopy Height ◽  
Landsat Images ◽  
Structure Estimation ◽  
Vegetation Height

Forest structure estimation is very important in geological, ecological and environmental studies. It provides the basis for the carbon stock estimation and effective means of sequestration of carbon sources and sinks. Multiple parameters are used to estimate the forest structure like above ground biomass, leaf area index and diameter at breast height. Among all these parameters, vegetation height has unique standing. In addition to forest structure estimation it provides the insight into long term historical changes and the estimates of stand age of the forests as well. There are multiple techniques available to estimate the canopy height. Light detection and ranging (LiDAR) based methods, being the accurate and useful ones, are very expensive to obtain and have no global coverage. There is a need to establish a mechanism to estimate the canopy height using freely available satellite imagery like Landsat images. Multiple studies are available which contribute in this area. The majority use Landsat images with random forest models. Although random forest based models are widely used in remote sensing applications, they lack the ability to utilize the spatial association of neighboring pixels in modeling process. In this research work, we define Convolutional Neural Network based model and analyze that model for three test configurations. We replicate the random forest based setup of Grant et al., which is a similar state-of-the-art study, and compare our results and show that the convolutional neural networks (CNN) based models not only capture the spatial association of neighboring pixels but also outperform the state-of-the-art.

scholarly journals Automatic Tool for Fast Generation of Custom Convolutional Neural Networks Accelerators for FPGA

Electronics ◽  
2019 ◽  
Vol 8 (6) ◽  
pp. 641 ◽  
Author(s):  
Miguel Rivera-Acosta ◽  
Susana Ortega-Cisneros ◽  
Jorge Rivera
Keyword(s):  
Neural Networks ◽  
Convolutional Neural Networks ◽  
State Of The Art ◽  
Register Transfer Level ◽  
Third Party ◽  
Hardware Accelerators ◽  
Field Programmable ◽  
Custom Hardware ◽  
Architecture Description ◽  
Automatic Tool

This paper presents a platform that automatically generates custom hardware accelerators for convolutional neural networks (CNNs) implemented in field-programmable gate array (FPGA) devices. It includes a user interface for configuring and managing these accelerators. The herein-presented platform can perform all the processes necessary to design and test CNN accelerators from the CNN architecture description at both layer and internal parameter levels, training the desired architecture with any dataset and generating the configuration files required by the platform. With these files, it can synthesize the register-transfer level (RTL) and program the customized CNN accelerator into the FPGA device for testing, making it possible to generate custom CNN accelerators quickly and easily. All processes save the CNN architecture description are fully automatized and carried out by the platform, which manages third-party software to train the CNN and synthesize and program the generated RTL. The platform has been tested with the implementation of some of the CNN architectures found in the state-of-the-art for freely available datasets such as MNIST, CIFAR-10, and STL-10.

scholarly journals Multi-Channel Convolutional Neural Networks with Adversarial Training for Few-Shot Relation Classification (Student Abstract)

2020 ◽  
Vol 34 (10) ◽  
pp. 13967-13968
Author(s):  
Yuxiang Xie ◽  
Hua Xu ◽  
Congcong Yang ◽  
Kai Gao
Keyword(s):  
Neural Networks ◽  
Convolutional Neural Networks ◽  
Word Embedding ◽  
Vector Representation ◽  
Adversarial Learning ◽  
Model Experiments ◽  
Robust Model ◽  
Adversarial Training ◽  
Relation Classification

The distant supervised (DS) method has improved the performance of relation classification (RC) by means of extending the dataset. However, DS also brings the problem of wrong labeling. Contrary to DS, the few-shot method relies on few supervised data to predict the unseen classes. In this paper, we use word embedding and position embedding to construct multi-channel vector representation and use the multi-channel convolutional method to extract features of sentences. Moreover, in order to alleviate few-shot learning to be sensitive to overfitting, we introduce adversarial learning for training a robust model. Experiments on the FewRel dataset show that our model achieves significant and consistent improvements on few-shot RC as compared with baselines.

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