DeepLINK: Deep learning inference using knockoffs with applications to genomics

2021 ◽  
Vol 118 (36) ◽  
pp. e2104683118
Author(s):  
Zifan Zhu ◽  
Yingying Fan ◽  
Yinfei Kong ◽  
Jinchi Lv ◽  
Fengzhu Sun
Keyword(s):  
Feature Selection ◽  
Deep Learning ◽  
Broad Class ◽  
Real Data ◽  
False Discovery ◽  
Empirical Performance ◽  
High Prediction ◽  
Multilayer Perceptron Network ◽  
Latent Factor Models ◽  
High Selection

We propose a deep learning–based knockoffs inference framework, DeepLINK, that guarantees the false discovery rate (FDR) control in high-dimensional settings. DeepLINK is applicable to a broad class of covariate distributions described by the possibly nonlinear latent factor models. It consists of two major parts: an autoencoder network for the knockoff variable construction and a multilayer perceptron network for feature selection with the FDR control. The empirical performance of DeepLINK is investigated through extensive simulation studies, where it is shown to achieve FDR control in feature selection with both high selection power and high prediction accuracy. We also apply DeepLINK to three real data applications to demonstrate its practical utility.

scholarly journals Deep Learning for Transient Image Reconstruction from ToF Data

Sensors ◽  
2021 ◽  
Vol 21 (6) ◽  
pp. 1962
Author(s):  
Enrico Buratto ◽  
Adriano Simonetto ◽  
Gianluca Agresti ◽  
Henrik Schäfer ◽  
Pietro Zanuttigh
Keyword(s):  
Deep Learning ◽  
State Of The Art ◽  
Light Response ◽  
Real Data ◽  
Depth Image ◽  
Learning Approach ◽  
Multiple Reflections ◽  
Noisy Input ◽  
Novel Approach ◽  
Incoming Light

In this work, we propose a novel approach for correcting multi-path interference (MPI) in Time-of-Flight (ToF) cameras by estimating the direct and global components of the incoming light. MPI is an error source linked to the multiple reflections of light inside a scene; each sensor pixel receives information coming from different light paths which generally leads to an overestimation of the depth. We introduce a novel deep learning approach, which estimates the structure of the time-dependent scene impulse response and from it recovers a depth image with a reduced amount of MPI. The model consists of two main blocks: a predictive model that learns a compact encoded representation of the backscattering vector from the noisy input data and a fixed backscattering model which translates the encoded representation into the high dimensional light response. Experimental results on real data show the effectiveness of the proposed approach, which reaches state-of-the-art performances.

scholarly journals Real UAV-Bird Image Classification Using CNN with a Synthetic Dataset

2021 ◽  
Vol 11 (9) ◽  
pp. 3863
Author(s):  
Ali Emre Öztürk ◽  
Ergun Erçelebi
Keyword(s):  
Deep Learning ◽  
Image Classification ◽  
Synthetic Data ◽  
Real Data ◽  
Corner Detection ◽  
Batch Size ◽  
Test Accuracy ◽  
Classification Problems ◽  
Auc Value ◽  
Classification Test

A large amount of training image data is required for solving image classification problems using deep learning (DL) networks. In this study, we aimed to train DL networks with synthetic images generated by using a game engine and determine the effects of the networks on performance when solving real-image classification problems. The study presents the results of using corner detection and nearest three-point selection (CDNTS) layers to classify bird and rotary-wing unmanned aerial vehicle (RW-UAV) images, provides a comprehensive comparison of two different experimental setups, and emphasizes the significant improvements in the performance in deep learning-based networks due to the inclusion of a CDNTS layer. Experiment 1 corresponds to training the commonly used deep learning-based networks with synthetic data and an image classification test on real data. Experiment 2 corresponds to training the CDNTS layer and commonly used deep learning-based networks with synthetic data and an image classification test on real data. In experiment 1, the best area under the curve (AUC) value for the image classification test accuracy was measured as 72%. In experiment 2, using the CDNTS layer, the AUC value for the image classification test accuracy was measured as 88.9%. A total of 432 different combinations of trainings were investigated in the experimental setups. The experiments were trained with various DL networks using four different optimizers by considering all combinations of batch size, learning rate, and dropout hyperparameters. The test accuracy AUC values for networks in experiment 1 ranged from 55% to 74%, whereas the test accuracy AUC values in experiment 2 networks with a CDNTS layer ranged from 76% to 89.9%. It was observed that the CDNTS layer has considerable effects on the image classification accuracy performance of deep learning-based networks. AUC, F-score, and test accuracy measures were used to validate the success of the networks.

Enhancement of email spam detection using improved deep learning algorithms for cyber security

2021 ◽  
pp. 1-34
Author(s):  
Kadam Vikas Samarthrao ◽  
Vandana M. Rohokale
Keyword(s):  
Feature Selection ◽  
Deep Learning ◽  
Visual Features ◽  
Spam Detection ◽  
Learning Approaches ◽  
Learning Technique ◽  
Text Features ◽  
Optimal Feature Selection ◽  
Optimal Feature ◽  
Email Spam

Email has sustained to be an essential part of our lives and as a means for better communication on the internet. The challenge pertains to the spam emails residing a large amount of space and bandwidth. The defect of state-of-the-art spam filtering methods like misclassification of genuine emails as spam (false positives) is the rising challenge to the internet world. Depending on the classification techniques, literature provides various algorithms for the classification of email spam. This paper tactics to develop a novel spam detection model for improved cybersecurity. The proposed model involves several phases like dataset acquisition, feature extraction, optimal feature selection, and detection. Initially, the benchmark dataset of email is collected that involves both text and image datasets. Next, the feature extraction is performed using two sets of features like text features and visual features. In the text features, Term Frequency-Inverse Document Frequency (TF-IDF) is extracted. For the visual features, color correlogram and Gray-Level Co-occurrence Matrix (GLCM) are determined. Since the length of the extracted feature vector seems to the long, the optimal feature selection process is done. The optimal feature selection is performed by a new meta-heuristic algorithm called Fitness Oriented Levy Improvement-based Dragonfly Algorithm (FLI-DA). Once the optimal features are selected, the detection is performed by the hybrid learning technique that is composed of two deep learning approaches named Recurrent Neural Network (RNN) and Convolutional Neural Network (CNN). For improving the performance of existing deep learning approaches, the number of hidden neurons of RNN and CNN is optimized by the same FLI-DA. Finally, the optimized hybrid learning technique having CNN and RNN classifies the data into spam and ham. The experimental outcomes show the ability of the proposed method to perform the spam email classification based on improved deep learning.

scholarly journals Microwave Dielectric Property Retrieval from Open-Ended Coaxial Probe Response with Deep Learning

2021 ◽  
Author(s):  
Cemanur Aydinalp ◽  
Sulayman Joof ◽  
Mehmet Nuri Akinci ◽  
Ibrahim Akduman ◽  
Tuba Yilmaz
Keyword(s):  
Deep Learning ◽  
Dielectric Property ◽  
Large Scale ◽  
Real Data ◽  
Learning Model ◽  
Data Generation ◽  
Retrieval Technique ◽  
Design Flexibility ◽  
A New Technique ◽  
Deep Learning Model

In the manuscript, we propose a new technique for determination of Debye parameters, representing the dielectric properties of materials, from the reflection coefficient response of open-ended coaxial probes. The method retrieves the Debye parameters using a deep learning model designed through utilization of numerically generated data. Unlike real data, using synthetically generated input and output data for training purposes provides representation of a wide variety of materials with rapid data generation. Furthermore, the proposed method provides design flexibility and can be applied to any desired probe with intended dimensions and material. Next, we experimentally verified the designed deep learning model using measured reflection coefficients when the probe was terminated with five different standard liquids, four mixtures,and a gel-like material.and compared the results with the literature. Obtained mean percent relative error was ranging from 1.21±0.06 to 10.89±0.08. Our work also presents a large-scale statistical verification of the proposed dielectric property retrieval technique.

scholarly journals A Probability Density Function Generator Based on Deep Learning

2018 ◽  
Author(s):  
Chi-Hua Chen ◽  
Fangying Song ◽  
Feng-Jang Hwang ◽  
Ling Wu
Keyword(s):  
Deep Learning ◽  
Probability Density Function ◽  
Probability Density ◽  
Density Function ◽  
Probability Distributions ◽  
Real Data ◽  
Learning Model ◽  
Cumulative Distribution ◽  
Function Generator ◽  
Deep Learning Model

To generate a probability density function (PDF) for fitting probability distributions of real data, this study proposes a deep learning method which consists of two stages: (1) a training stage for estimating the cumulative distribution function (CDF) and (2) a performing stage for predicting the corresponding PDF. The CDFs of common probability distributions can be adopted as activation functions in the hidden layers of the proposed deep learning model for learning actual cumulative probabilities, and the differential equation of trained deep learning model can be used to estimate the PDF. To evaluate the proposed method, numerical experiments with single and mixed distributions are performed. The experimental results show that the values of both CDF and PDF can be precisely estimated by the proposed method.

scholarly journals Probabilistic Deep Learning to Quantify Uncertainty in Air Quality Forecasting

Sensors ◽  
2021 ◽  
Vol 21 (23) ◽  
pp. 8009
Author(s):  
Abdulmajid Murad ◽  
Frank Alexander Kraemer ◽  
Kerstin Bach ◽  
Gavin Taylor
Keyword(s):  
Deep Learning ◽  
Air Quality ◽  
Probabilistic Models ◽  
Performance Metrics ◽  
Current Data ◽  
Data Driven ◽  
Quality Data ◽  
Empirical Performance ◽  
Adversarial Training ◽  
Scalable Methods

Data-driven forecasts of air quality have recently achieved more accurate short-term predictions. However, despite their success, most of the current data-driven solutions lack proper quantifications of model uncertainty that communicate how much to trust the forecasts. Recently, several practical tools to estimate uncertainty have been developed in probabilistic deep learning. However, there have not been empirical applications and extensive comparisons of these tools in the domain of air quality forecasts. Therefore, this work applies state-of-the-art techniques of uncertainty quantification in a real-world setting of air quality forecasts. Through extensive experiments, we describe training probabilistic models and evaluate their predictive uncertainties based on empirical performance, reliability of confidence estimate, and practical applicability. We also propose improving these models using “free” adversarial training and exploiting temporal and spatial correlation inherent in air quality data. Our experiments demonstrate that the proposed models perform better than previous works in quantifying uncertainty in data-driven air quality forecasts. Overall, Bayesian neural networks provide a more reliable uncertainty estimate but can be challenging to implement and scale. Other scalable methods, such as deep ensemble, Monte Carlo (MC) dropout, and stochastic weight averaging-Gaussian (SWAG), can perform well if applied correctly but with different tradeoffs and slight variations in performance metrics. Finally, our results show the practical impact of uncertainty estimation and demonstrate that, indeed, probabilistic models are more suitable for making informed decisions.

scholarly journals Wave2Vec: Vectorizing Electroencephalography Bio-Signal for Prediction of Brain Disease

2018 ◽  
Vol 15 (8) ◽  
pp. 1750 ◽  
Author(s):  
Seonho Kim ◽  
Jungjoon Kim ◽  
Hong-Woo Chun
Keyword(s):  
Artificial Intelligence ◽  
Time Series ◽  
Feature Selection ◽  
Deep Learning ◽  
Natural Language Processing ◽  
Data Analysis ◽  
Natural Language ◽  
Real Number ◽  
Real Time ◽  
Language Processing

Interest in research involving health-medical information analysis based on artificial intelligence, especially for deep learning techniques, has recently been increasing. Most of the research in this field has been focused on searching for new knowledge for predicting and diagnosing disease by revealing the relation between disease and various information features of data. These features are extracted by analyzing various clinical pathology data, such as EHR (electronic health records), and academic literature using the techniques of data analysis, natural language processing, etc. However, still needed are more research and interest in applying the latest advanced artificial intelligence-based data analysis technique to bio-signal data, which are continuous physiological records, such as EEG (electroencephalography) and ECG (electrocardiogram). Unlike the other types of data, applying deep learning to bio-signal data, which is in the form of time series of real numbers, has many issues that need to be resolved in preprocessing, learning, and analysis. Such issues include leaving feature selection, learning parts that are black boxes, difficulties in recognizing and identifying effective features, high computational complexities, etc. In this paper, to solve these issues, we provide an encoding-based Wave2vec time series classifier model, which combines signal-processing and deep learning-based natural language processing techniques. To demonstrate its advantages, we provide the results of three experiments conducted with EEG data of the University of California Irvine, which are a real-world benchmark bio-signal dataset. After converting the bio-signals (in the form of waves), which are a real number time series, into a sequence of symbols or a sequence of wavelet patterns that are converted into symbols, through encoding, the proposed model vectorizes the symbols by learning the sequence using deep learning-based natural language processing. The models of each class can be constructed through learning from the vectorized wavelet patterns and training data. The implemented models can be used for prediction and diagnosis of diseases by classifying the new data. The proposed method enhanced data readability and intuition of feature selection and learning processes by converting the time series of real number data into sequences of symbols. In addition, it facilitates intuitive and easy recognition, and identification of influential patterns. Furthermore, real-time large-capacity data analysis is facilitated, which is essential in the development of real-time analysis diagnosis systems, by drastically reducing the complexity of calculation without deterioration of analysis performance by data simplification through the encoding process.

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