iAnt: Combination of Convolutional Neural Network and Random Forest Models using PSSM and BERT Features to Identify Antioxidant Proteins

2021 ◽  
Vol 16 ◽  
Author(s):  
Hoang V. Tran ◽  
Quang H. Nguyen
Keyword(s):  
Neural Network ◽  
Random Forest ◽  
Convolutional Neural Network ◽  
State Of The Art ◽  
Protein Sequences ◽  
The Body ◽  
Antioxidant Protein ◽  
Independent Test Dataset ◽  
Random Forest Models ◽  
Antioxidant Proteins

Background: Reactive oxygen species (ROS) has many roles in the body such as cell signaling, homeostasis or protection from harmful bacteria. However, too much ROS in the body will damage lipids, proteins, and DNA. Many studies show that many environmental factors increase the amount of ROS produced in the body. Antioxidant proteins are responsible for neutralizing these ROS or free radicals. Although the amount of data on protein sequences has increased over the last two decades, we still lack bioinformatics tools to be able to accurately identify antioxidant protein sequences while biochemical methods to determine antioxidant proteins are very expensive and time consuming, so a machine learning approach must be used to speed up the computation. In this study. Methods: we propose a new method that combines convolutional neural network and Random Forest using two features, the normalized PSSM and the best selected feature of the ProtBert output. Result: Our model gave very good results on the independent test dataset with 97.3% sensitivity and 95.9% specificity. Comparison with current state of the art models shows that our model is superior. Conclusion: We have also installed iAnt as an online web site with a friendly interface available at http://antixiodant.nguyenhongquang.edu.vn. iAnt has been developed to accurately identify the antioxidant protein. It shows results outperforming the existing state-of-the-art methods, and it is available online.

scholarly journals HIGH QUALITY FACADE SEGMENTATION BASED ON STRUCTURED RANDOM FOREST, REGION PROPOSAL NETWORK AND RECTANGULAR FITTING

2018 ◽  
Vol IV-2 ◽  
pp. 223-230 ◽  
Author(s):  
K. Rahmani ◽  
H. Mayer
Keyword(s):  
Neural Network ◽  
Random Forest ◽  
Convolutional Neural Network ◽  
State Of The Art ◽  
Semantic Segmentation ◽  
High Quality ◽  
Current State ◽  
Forest Region ◽  
Building Facades ◽  
Art Methods

In this paper we present a pipeline for high quality semantic segmentation of building facades using Structured Random Forest (SRF), Region Proposal Network (RPN) based on a Convolutional Neural Network (CNN) as well as rectangular fitting optimization. Our main contribution is that we employ features created by the RPN as channels in the SRF.We empirically show that this is very effective especially for doors and windows. Our pipeline is evaluated on two datasets where we outperform current state-of-the-art methods. Additionally, we quantify the contribution of the RPN and the rectangular fitting optimization on the accuracy of the result.

scholarly journals Low-Rank and Sparse Based Deep-Fusion Convolutional Neural Network for Crowd Counting

2017 ◽  
Vol 2017 ◽  
pp. 1-11 ◽  
Author(s):  
Siqi Tang ◽  
Zhisong Pan ◽  
Xingyu Zhou
Keyword(s):  
Neural Network ◽  
Convolutional Neural Network ◽  
State Of The Art ◽  
Regression Method ◽  
Low Rank ◽  
Counting Method ◽  
Direct Integral ◽  
Crowd Counting ◽  
Counting Methods ◽  
Density Map

This paper proposes an accurate crowd counting method based on convolutional neural network and low-rank and sparse structure. To this end, we firstly propose an effective deep-fusion convolutional neural network to promote the density map regression accuracy. Furthermore, we figure out that most of the existing CNN based crowd counting methods obtain overall counting by direct integral of estimated density map, which limits the accuracy of counting. Instead of direct integral, we adopt a regression method based on low-rank and sparse penalty to promote accuracy of the projection from density map to global counting. Experiments demonstrate the importance of such regression process on promoting the crowd counting performance. The proposed low-rank and sparse based deep-fusion convolutional neural network (LFCNN) outperforms existing crowd counting methods and achieves the state-of-the-art performance.

scholarly journals PedNet: A Spatio-Temporal Deep Convolutional Neural Network for Pedestrian Segmentation

2018 ◽  
Vol 4 (9) ◽  
pp. 107 ◽  
Author(s):  
Mohib Ullah ◽  
Ahmed Mohammed ◽  
Faouzi Alaya Cheikh
Keyword(s):  
Neural Network ◽  
Convolutional Neural Network ◽  
Performance Metrics ◽  
State Of The Art ◽  
Temporal Information ◽  
Feature Maps ◽  
Current Frame ◽  
Low Level ◽  
Art Methods ◽  
Spatio Temporal

Articulation modeling, feature extraction, and classification are the important components of pedestrian segmentation. Usually, these components are modeled independently from each other and then combined in a sequential way. However, this approach is prone to poor segmentation if any individual component is weakly designed. To cope with this problem, we proposed a spatio-temporal convolutional neural network named PedNet which exploits temporal information for spatial segmentation. The backbone of the PedNet consists of an encoder–decoder network for downsampling and upsampling the feature maps, respectively. The input to the network is a set of three frames and the output is a binary mask of the segmented regions in the middle frame. Irrespective of classical deep models where the convolution layers are followed by a fully connected layer for classification, PedNet is a Fully Convolutional Network (FCN). It is trained end-to-end and the segmentation is achieved without the need of any pre- or post-processing. The main characteristic of PedNet is its unique design where it performs segmentation on a frame-by-frame basis but it uses the temporal information from the previous and the future frame for segmenting the pedestrian in the current frame. Moreover, to combine the low-level features with the high-level semantic information learned by the deeper layers, we used long-skip connections from the encoder to decoder network and concatenate the output of low-level layers with the higher level layers. This approach helps to get segmentation map with sharp boundaries. To show the potential benefits of temporal information, we also visualized different layers of the network. The visualization showed that the network learned different information from the consecutive frames and then combined the information optimally to segment the middle frame. We evaluated our approach on eight challenging datasets where humans are involved in different activities with severe articulation (football, road crossing, surveillance). The most common CamVid dataset which is used for calculating the performance of the segmentation algorithm is evaluated against seven state-of-the-art methods. The performance is shown on precision/recall, F 1 , F 2 , and mIoU. The qualitative and quantitative results show that PedNet achieves promising results against state-of-the-art methods with substantial improvement in terms of all the performance metrics.

Spam Detection on Social Media Using Semantic Convolutional Neural Network

2018 ◽  
Vol 8 (1) ◽  
pp. 12-26 ◽  
Author(s):  
Gauri Jain ◽  
Manisha Sharma ◽  
Basant Agarwal
Keyword(s):  
Neural Network ◽  
Social Media ◽  
Convolutional Neural Network ◽  
State Of The Art ◽  
Spam Detection ◽  
Learning Technology ◽  
The Social ◽  
Social Media Text ◽  
Current Article ◽  
Semantic Layer

This article describes how spam detection in the social media text is becoming increasing important because of the exponential increase in the spam volume over the network. It is challenging, especially in case of text within the limited number of characters. Effective spam detection requires more number of efficient features to be learned. In the current article, the use of a deep learning technology known as a convolutional neural network (CNN) is proposed for spam detection with an added semantic layer on the top of it. The resultant model is known as a semantic convolutional neural network (SCNN). A semantic layer is composed of training the random word vectors with the help of Word2vec to get the semantically enriched word embedding. WordNet and ConceptNet are used to find the word similar to a given word, in case it is missing in the word2vec. The architecture is evaluated on two corpora: SMS Spam dataset (UCI repository) and Twitter dataset (Tweets scrapped from public live tweets). The authors' approach outperforms the-state-of-the-art results with 98.65% accuracy on SMS spam dataset and 94.40% accuracy on Twitter dataset.

Dangerous Scenes Recognition During Hoisting Based on Faster Region-Based Convolutional Neural Network

2018 ◽  
Author(s):  
Hongguo Su ◽  
Mingyuan Zhang ◽  
Shengyuan Li ◽  
Xuefeng Zhao
Keyword(s):  
Neural Network ◽  
Object Detection ◽  
Convolutional Neural Network ◽  
Image Classification ◽  
State Of The Art ◽  
Spatial Location ◽  
Average Precision ◽  
Practical Applications ◽  
Security Enhancement ◽  
Human Interactions

In the last couple of years, advancements in the deep learning, especially in convolutional neural networks, proved to be a boon for the image classification and recognition tasks. One of the important practical applications of object detection and image classification can be for security enhancement. If dangerous objects or scenes can be identified automatically, then a lot of accidents can be prevented. For this purpose, in this paper we made use of state-of-the-art implementation of Faster Region-based Convolutional Neural Network (Faster R-CNN) based on the monitoring video of hoisting sites to train a model to detect the dangerous object and the worker. By extracting the locations of them, object-human interactions during hoisting, mainly for changes in their spatial location relationship, can be understood whereby estimating whether the scene is safe or dangerous. Experimental results showed that the pre-trained model achieved good performance with a high mean average precision of 97.66% on object detection and the proposed method fulfilled the goal of dangerous scenes recognition perfectly.

Estimating ground-level PM2.5 using micro-satellite images by a convolutional neural network and random forest approach

2020 ◽  
Vol 230 ◽  
pp. 117451 ◽  
Author(s):  
Tongshu Zheng ◽  
Michael H. Bergin ◽  
Shijia Hu ◽  
Joshua Miller ◽  
David E. Carlson
Keyword(s):  
Neural Network ◽  
Random Forest ◽  
Convolutional Neural Network ◽  
Satellite Images ◽  
Ground Level

scholarly journals Random Forest Regressor-Based Approach for Detecting Fault Location and Duration in Power Systems

Sensors ◽  
2022 ◽  
Vol 22 (2) ◽  
pp. 458
Author(s):  
Zakaria El Mrabet ◽  
Niroop Sugunaraj ◽  
Prakash Ranganathan ◽  
Shrirang Abhyankar
Keyword(s):  
Neural Network ◽  
Random Forest ◽  
Power Systems ◽  
Real Time ◽  
Fault Location ◽  
State Of The Art ◽  
Economic Consequences ◽  
Support Vector ◽  
Detection Accuracy ◽  
Data Driven Approach

Power system failures or outages due to short-circuits or “faults” can result in long service interruptions leading to significant socio-economic consequences. It is critical for electrical utilities to quickly ascertain fault characteristics, including location, type, and duration, to reduce the service time of an outage. Existing fault detection mechanisms (relays and digital fault recorders) are slow to communicate the fault characteristics upstream to the substations and control centers for action to be taken quickly. Fortunately, due to availability of high-resolution phasor measurement units (PMUs), more event-driven solutions can be captured in real time. In this paper, we propose a data-driven approach for determining fault characteristics using samples of fault trajectories. A random forest regressor (RFR)-based model is used to detect real-time fault location and its duration simultaneously. This model is based on combining multiple uncorrelated trees with state-of-the-art boosting and aggregating techniques in order to obtain robust generalizations and greater accuracy without overfitting or underfitting. Four cases were studied to evaluate the performance of RFR: 1. Detecting fault location (case 1), 2. Predicting fault duration (case 2), 3. Handling missing data (case 3), and 4. Identifying fault location and length in a real-time streaming environment (case 4). A comparative analysis was conducted between the RFR algorithm and state-of-the-art models, including deep neural network, Hoeffding tree, neural network, support vector machine, decision tree, naive Bayesian, and K-nearest neighborhood. Experiments revealed that RFR consistently outperformed the other models in detection accuracy, prediction error, and processing time.

WTRPNet: An Explainable Graph Feature Convolutional Neural Network for Epileptic EEG Classification

2021 ◽  
Vol 17 (3s) ◽  
pp. 1-18
Author(s):  
Qi Xin ◽  
Shaohao Hu ◽  
Shuaiqi Liu ◽  
Ling Zhao ◽  
Shuihua Wang
Keyword(s):  
Neural Network ◽  
Convolutional Neural Network ◽  
State Of The Art ◽  
Traumatic Injury ◽  
Recurrence Plot ◽  
Superior Performance ◽  
Eeg Classification ◽  
Epilepsy Diagnosis ◽  
Electroencephalogram Eeg

As one of the important tools of epilepsy diagnosis, the electroencephalogram (EEG) is noninvasive and presents no traumatic injury to patients. It contains a lot of physiological and pathological information that is easy to obtain. The automatic classification of epileptic EEG is important in the diagnosis and therapeutic efficacy of epileptics. In this article, an explainable graph feature convolutional neural network named WTRPNet is proposed for epileptic EEG classification. Since WTRPNet is constructed by a recurrence plot in the wavelet domain, it can fully obtain the graph feature of the EEG signal, which is established by an explainable graph features extracted layer called WTRP block . The proposed method shows superior performance over state-of-the-art methods. Experimental results show that our algorithm has achieved an accuracy of 99.67% in classification of focal and nonfocal epileptic EEG, which proves the effectiveness of the classification and detection of epileptic EEG.

Sign in / Sign up

Export Citation Format

Share Document