scholarly journals ActiveHNE: Active Heterogeneous Network Embedding

2019 ◽  
Author(s):  
Xia Chen ◽  
Guoxian Yu ◽  
Jun Wang ◽  
Carlotta Domeniconi ◽  
Zhao Li ◽  
...  
Keyword(s):  
Neural Network ◽  
Convolutional Neural Network ◽  
Heterogeneous Networks ◽  
Heterogeneous Network ◽  
Selection Method ◽  
Network Embedding ◽  
Active Selection ◽  
Selection Strategies ◽  
Public Datasets ◽  
Active Query

Heterogeneous network embedding (HNE) is a challenging task due to the diverse node types and/or diverse relationships between nodes. Existing HNE methods are typically  unsupervised.  To maximize the profit of utilizing the rare and valuable supervised information in HNEs, we develop a novel Active Heterogeneous Network Embedding (ActiveHNE) framework, which includes two components: Discriminative Heterogeneous Network Embedding (DHNE) and Active Query in Heterogeneous Networks (AQHN).In DHNE, we introduce a novel semi-supervised heterogeneous network embedding method based on graph convolutional neural network. In AQHN, we first introduce three active selection strategies based on uncertainty and representativeness, and then derive a batch selection method that assembles these strategies using a multi-armed bandit mechanism. ActiveHNE aims at improving the performance of HNE by feeding the most valuable supervision obtained by AQHN into DHNE. Experiments on public datasets demonstrate the effectiveness of ActiveHNE and its advantage on reducing the query cost.

scholarly journals Performance Evaluation of Deep CNN-Based Crack Detection and Localization Techniques for Concrete Structures

Sensors ◽  
2021 ◽  
Vol 21 (5) ◽  
pp. 1688
Author(s):  
Luqman Ali ◽  
Fady Alnajjar ◽  
Hamad Al Jassmi ◽  
Munkhjargal Gochoo ◽  
Wasif Khan ◽  
...  
Keyword(s):  
Neural Network ◽  
Convolutional Neural Network ◽  
Crack Detection ◽  
Concrete Structures ◽  
Model Performance ◽  
Training Data ◽  
Computational Time ◽  
Data Heterogeneity ◽  
Public Datasets ◽  
Detection And Localization

This paper proposes a customized convolutional neural network for crack detection in concrete structures. The proposed method is compared to four existing deep learning methods based on training data size, data heterogeneity, network complexity, and the number of epochs. The performance of the proposed convolutional neural network (CNN) model is evaluated and compared to pretrained networks, i.e., the VGG-16, VGG-19, ResNet-50, and Inception V3 models, on eight datasets of different sizes, created from two public datasets. For each model, the evaluation considered computational time, crack localization results, and classification measures, e.g., accuracy, precision, recall, and F1-score. Experimental results demonstrated that training data size and heterogeneity among data samples significantly affect model performance. All models demonstrated promising performance on a limited number of diverse training data; however, increasing the training data size and reducing diversity reduced generalization performance, and led to overfitting. The proposed customized CNN and VGG-16 models outperformed the other methods in terms of classification, localization, and computational time on a small amount of data, and the results indicate that these two models demonstrate superior crack detection and localization for concrete structures.

scholarly journals MultiVERSE: a multiplex and multiplex-heterogeneous network embedding approach

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Léo Pio-Lopez ◽  
Alberto Valdeolivas ◽  
Laurent Tichit ◽  
Élisabeth Remy ◽  
Anaïs Baudot
Keyword(s):  
Heterogeneous Networks ◽  
Heterogeneous Network ◽  
Link Prediction ◽  
Network Embedding ◽  
Multiplex Networks ◽  
Multiplex Network ◽  
Gene Associations ◽  
Different Types ◽  
Embedding Methods ◽  
Node Embeddings

AbstractNetwork embedding approaches are gaining momentum to analyse a large variety of networks. Indeed, these approaches have demonstrated their effectiveness in tasks such as community detection, node classification, and link prediction. However, very few network embedding methods have been specifically designed to handle multiplex networks, i.e. networks composed of different layers sharing the same set of nodes but having different types of edges. Moreover, to our knowledge, existing approaches cannot embed multiple nodes from multiplex-heterogeneous networks, i.e. networks composed of several multiplex networks containing both different types of nodes and edges. In this study, we propose MultiVERSE, an extension of the VERSE framework using Random Walks with Restart on Multiplex (RWR-M) and Multiplex-Heterogeneous (RWR-MH) networks. MultiVERSE is a fast and scalable method to learn node embeddings from multiplex and multiplex-heterogeneous networks. We evaluate MultiVERSE on several biological and social networks and demonstrate its performance. MultiVERSE indeed outperforms most of the other methods in the tasks of link prediction and network reconstruction for multiplex network embedding, and is also efficient in link prediction for multiplex-heterogeneous network embedding. Finally, we apply MultiVERSE to study rare disease-gene associations using link prediction and clustering. MultiVERSE is freely available on github at https://github.com/Lpiol/MultiVERSE.

scholarly journals Graph Convolutional Network and Convolutional Neural Network Based Method for Predicting lncRNA-Disease Associations

Cells ◽  
2019 ◽  
Vol 8 (9) ◽  
pp. 1012 ◽  
Author(s):  
Xuan ◽  
Pan ◽  
Zhang ◽  
Liu ◽  
Sun
Keyword(s):  
Neural Network ◽  
Convolutional Neural Network ◽  
Heterogeneous Network ◽  
Heterogeneous Data ◽  
Superior Performance ◽  
Convolutional Network ◽  
Topological Information ◽  
Disease Pair ◽  
Disease Associations ◽  
The Right

Aberrant expressions of long non-coding RNAs (lncRNAs) are often associated with diseases and identification of disease-related lncRNAs is helpful for elucidating complex pathogenesis. Recent methods for predicting associations between lncRNAs and diseases integrate their pertinent heterogeneous data. However, they failed to deeply integrate topological information of heterogeneous network comprising lncRNAs, diseases, and miRNAs. We proposed a novel method based on the graph convolutional network and convolutional neural network, referred to as GCNLDA, to infer disease-related lncRNA candidates. The heterogeneous network containing the lncRNA, disease, and miRNA nodes, is constructed firstly. The embedding matrix of a lncRNA-disease node pair was constructed according to various biological premises about lncRNAs, diseases, and miRNAs. A new framework based on a graph convolutional network and a convolutional neural network was developed to learn network and local representations of the lncRNA-disease pair. On the left side of the framework, the autoencoder based on graph convolution deeply integrated topological information within the heterogeneous lncRNA-disease-miRNA network. Moreover, as different node features have discriminative contributions to the association prediction, an attention mechanism at node feature level is constructed. The left side learnt the network representation of the lncRNA-disease pair. The convolutional neural networks on the right side of the framework learnt the local representation of the lncRNA-disease pair by focusing on the similarities, associations, and interactions that are only related to the pair. Compared to several state-of-the-art prediction methods, GCNLDA had superior performance. Case studies on stomach cancer, osteosarcoma, and lung cancer confirmed that GCNLDA effectively discovers the potential lncRNA-disease associations.

scholarly journals A Multibranch of Convolutional Neural Network Models for Electroencephalogram-Based Motor Imagery Classification

Biosensors ◽  
2022 ◽  
Vol 12 (1) ◽  
pp. 22
Author(s):  
Ghadir Ali Altuwaijri ◽  
Ghulam Muhammad
Keyword(s):  
Neural Network ◽  
Convolutional Neural Network ◽  
Motor Imagery ◽  
Classification Accuracy ◽  
Network Models ◽  
Classification Methods ◽  
Neural Network Models ◽  
High Gamma ◽  
Public Datasets ◽  
High Level

Automatic high-level feature extraction has become a possibility with the advancement of deep learning, and it has been used to optimize efficiency. Recently, classification methods for convolutional neural network (CNN)-based electroencephalography (EEG) motor imagery have been proposed, and have achieved reasonably high classification accuracy. These approaches, however, use the CNN single convolution scale, whereas the best convolution scale varies from subject to subject. This limits the precision of classification. This paper proposes multibranch CNN models to address this issue by effectively extracting the spatial and temporal features from raw EEG data, where the branches correspond to different filter kernel sizes. The proposed method’s promising performance is demonstrated by experimental results on two public datasets, the BCI Competition IV 2a dataset and the High Gamma Dataset (HGD). The results of the technique show a 9.61% improvement in the classification accuracy of multibranch EEGNet (MBEEGNet) from the fixed one-branch EEGNet model, and 2.95% from the variable EEGNet model. In addition, the multibranch ShallowConvNet (MBShallowConvNet) improved the accuracy of a single-scale network by 6.84%. The proposed models outperformed other state-of-the-art EEG motor imagery classification methods.

scholarly journals Prediction of drug–target binding affinity using similarity-based convolutional neural network

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Jooyong Shim ◽  
Zhen-Yu Hong ◽  
Insuk Sohn ◽  
Changha Hwang
Keyword(s):  
Neural Network ◽  
Convolutional Neural Network ◽  
Binding Affinity ◽  
Drug Target ◽  
Binary Classification ◽  
Binding Affinities ◽  
Binding Affinity Prediction ◽  
Affinity Prediction ◽  
Target Binding ◽  
Public Datasets

AbstractIdentifying novel drug–target interactions (DTIs) plays an important role in drug discovery. Most of the computational methods developed for predicting DTIs use binary classification, whose goal is to determine whether or not a drug–target (DT) pair interacts. However, it is more meaningful but also more challenging to predict the binding affinity that describes the strength of the interaction between a DT pair. If the binding affinity is not sufficiently large, such drug may not be useful. Therefore, the methods for predicting DT binding affinities are very valuable. The increase in novel public affinity data available in the DT-related databases enables advanced deep learning techniques to be used to predict binding affinities. In this paper, we propose a similarity-based model that applies 2-dimensional (2D) convolutional neural network (CNN) to the outer products between column vectors of two similarity matrices for the drugs and targets to predict DT binding affinities. To our best knowledge, this is the first application of 2D CNN in similarity-based DT binding affinity prediction. The validation results on multiple public datasets show that the proposed model is an effective approach for DT binding affinity prediction and can be quite helpful in drug development process.

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