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Full-Text Articles in Computer Sciences

Class Activation Mapping And Uncertainty Estimation In Multi-Organ Segmentation, Md. Shibly Sadique, Walia Farzana, Ahmed Temtam, Khan Iftekharuddin, Khan Iftekharuddin (Ed.), Weijie Chen (Ed.) Jan 2023

Class Activation Mapping And Uncertainty Estimation In Multi-Organ Segmentation, Md. Shibly Sadique, Walia Farzana, Ahmed Temtam, Khan Iftekharuddin, Khan Iftekharuddin (Ed.), Weijie Chen (Ed.)

Electrical & Computer Engineering Faculty Publications

Deep learning (DL)-based medical imaging and image segmentation algorithms achieve impressive performance on many benchmarks. Yet the efficacy of deep learning methods for future clinical applications may become questionable due to the lack of ability to reason with uncertainty and interpret probable areas of failures in prediction decisions. Therefore, it is desired that such a deep learning model for segmentation classification is able to reliably predict its confidence measure and map back to the original imaging cases to interpret the prediction decisions. In this work, uncertainty estimation for multiorgan segmentation task is evaluated to interpret the predictive modeling in DL …

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Transfer Learning Using Infrared And Optical Full Motion Video Data For Gender Classification, Alexander M. Glandon, Joe Zalameda, Khan M. Iftekharuddin, Gabor F. Fulop (Ed.), David Z. Ting (Ed.), Lucy L. Zheng (Ed.) Jan 2023

Transfer Learning Using Infrared And Optical Full Motion Video Data For Gender Classification, Alexander M. Glandon, Joe Zalameda, Khan M. Iftekharuddin, Gabor F. Fulop (Ed.), David Z. Ting (Ed.), Lucy L. Zheng (Ed.)

Electrical & Computer Engineering Faculty Publications

This work is a review and extension of our ongoing research in human recognition analysis using multimodality motion sensor data. We review our work on hand crafted feature engineering for motion capture skeleton (MoCap) data, from the Air Force Research Lab for human gender followed by depth scan based skeleton extraction using LIDAR data from the Army Night Vision Lab for person identification. We then build on these works to demonstrate a transfer learning sensor fusion approach for using the larger MoCap and smaller LIDAR data for gender classification.

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Deep-Learning-Based Classification Of Digitally Modulated Signals Using Capsule Networks And Cyclic Cumulants, John A. Snoap, Dimitrie C. Popescu, James A. Latshaw, Chad M. Spooner Jan 2023

Deep-Learning-Based Classification Of Digitally Modulated Signals Using Capsule Networks And Cyclic Cumulants, John A. Snoap, Dimitrie C. Popescu, James A. Latshaw, Chad M. Spooner

Electrical & Computer Engineering Faculty Publications

This paper presents a novel deep-learning (DL)-based approach for classifying digitally modulated signals, which involves the use of capsule networks (CAPs) together with the cyclic cumulant (CC) features of the signals. These were blindly estimated using cyclostationary signal processing (CSP) and were then input into the CAP for training and classification. The classification performance and the generalization abilities of the proposed approach were tested using two distinct datasets that contained the same types of digitally modulated signals, but had distinct generation parameters. The results showed that the classification of digitally modulated signals using CAPs and CCs proposed in the paper …

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A Survey Of Using Machine Learning In Iot Security And The Challenges Faced By Researchers, Khawlah M. Harahsheh, Chung-Hao Chen Jan 2023

A Survey Of Using Machine Learning In Iot Security And The Challenges Faced By Researchers, Khawlah M. Harahsheh, Chung-Hao Chen

Electrical & Computer Engineering Faculty Publications

The Internet of Things (IoT) has become more popular in the last 15 years as it has significantly improved and gained control in multiple fields. We are nowadays surrounded by billions of IoT devices that directly integrate with our lives, some of them are at the center of our homes, and others control sensitive data such as military fields, healthcare, and datacenters, among others. This popularity makes factories and companies compete to produce and develop many types of those devices without caring about how secure they are. On the other hand, IoT is considered a good insecure environment for cyber …

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Identifying The Serious Clinical Outcomes Of Adverse Reactions To Drugs By A Multi-Task Deep Learning Framework, Haochen Zhao, Peng Ni, Qichang Zhao, Xiao Liang, Di Ai, Shannon Erhardt, Jun Wang, Yaohang Li, Jiianxin Wang Jan 2023

Identifying The Serious Clinical Outcomes Of Adverse Reactions To Drugs By A Multi-Task Deep Learning Framework, Haochen Zhao, Peng Ni, Qichang Zhao, Xiao Liang, Di Ai, Shannon Erhardt, Jun Wang, Yaohang Li, Jiianxin Wang

Computer Science Faculty Publications

Adverse Drug Reactions (ADRs) have a direct impact on human health. As continuous pharmacovigilance and drug monitoring prove to be costly and time-consuming, computational methods have emerged as promising alternatives. However, most existing computational methods primarily focus on predicting whether or not the drug is associated with an adverse reaction and do not consider the core issue of drug benefit-risk assessment-whether the treatment outcome is serious when adverse drug reactions occur. To this end, we categorize serious clinical outcomes caused by adverse reactions to drugs into seven distinct classes and present a deep learning framework, so-called GCAP, for predicting the …

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Claimdistiller: Scientific Claim Extraction With Supervised Contrastive Learning, Xin Wei, Md Reshad Ul Hoque, Jian Wu, Jiang Li Jan 2023

Claimdistiller: Scientific Claim Extraction With Supervised Contrastive Learning, Xin Wei, Md Reshad Ul Hoque, Jian Wu, Jiang Li

Computer Science Faculty Publications

The growth of scientific papers in the past decades calls for effective claim extraction tools to automatically and accurately locate key claims from unstructured text. Such claims will benefit content-wise aggregated exploration of scientific knowledge beyond the metadata level. One challenge of building such a model is how to effectively use limited labeled training data. In this paper, we compared transfer learning and contrastive learning frameworks in terms of performance, time and training data size. We found contrastive learning has better performance at a lower cost of data across all models. Our contrastive-learning-based model ClaimDistiller has the highest performance, boosting …

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An Approach To Developing Benchmark Datasets For Protein Secondary Structure Segmentation From Cryo-Em Density Maps, Thu Nguyen, Yongcheng Mu, Jiangwen Sun, Jing He Jan 2023

An Approach To Developing Benchmark Datasets For Protein Secondary Structure Segmentation From Cryo-Em Density Maps, Thu Nguyen, Yongcheng Mu, Jiangwen Sun, Jing He

Computer Science Faculty Publications

More and more deep learning approaches have been proposed to segment secondary structures from cryo-electron density maps at medium resolution range (5--10Å). Although the deep learning approaches show great potential, only a few small experimental data sets have been used to test the approaches. There is limited understanding about potential factors, in data, that affect the performance of segmentation. We propose an approach to generate data sets with desired specifications in three potential factors - the protein sequence identity, structural contents, and data quality. The approach was implemented and has generated a test set and various training sets to study …

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A Hybrid Deep Learning Approach For Crude Oil Price Prediction, Hind Aldabagh, Xianrong Zheng, Ravi Mukkamala Jan 2023

A Hybrid Deep Learning Approach For Crude Oil Price Prediction, Hind Aldabagh, Xianrong Zheng, Ravi Mukkamala

Computer Science Faculty Publications

Crude oil is one of the world’s most important commodities. Its price can affect the global economy, as well as the economies of importing and exporting countries. As a result, forecasting the price of crude oil is essential for investors. However, crude oil price tends to fluctuate considerably during significant world events, such as the COVID-19 pandemic and geopolitical conflicts. In this paper, we propose a deep learning model for forecasting the crude oil price of one-step and multi-step ahead. The model extracts important features that impact crude oil prices and uses them to predict future prices. The prediction model …

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Unttangling Irregular Actin Cytoskeleton Architectures In Tomograms Of The Cell With Struwwel Tracer, Salim Sazzed, Peter Scheible, Jing He, Willy Wriggers Jan 2023

Unttangling Irregular Actin Cytoskeleton Architectures In Tomograms Of The Cell With Struwwel Tracer, Salim Sazzed, Peter Scheible, Jing He, Willy Wriggers

Computer Science Faculty Publications

In this work, we established, validated, and optimized a novel computational framework for tracing arbitrarily oriented actin filaments in cryo-electron tomography maps. Our approach was designed for highly complex intracellular architectures in which a long-range cytoskeleton network extends throughout the cell bodies and protrusions. The irregular organization of the actin network, as well as cryo-electron-tomography-specific noise, missing wedge artifacts, and map dimensions call for a specialized implementation that is both robust and efficient. Our proposed solution, Struwwel Tracer, accumulates densities along paths of a specific length in various directions, starting from locally determined seed points. The highest-density paths originating …

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Combating Fake News: A Gravity Well Simulation To Model Echo Chamber Formation In Social Media, Jeremy E. Thompson Jan 2023

Combating Fake News: A Gravity Well Simulation To Model Echo Chamber Formation In Social Media, Jeremy E. Thompson

Dartmouth College Ph.D Dissertations

Fake news has become a serious concern as distributing misinformation has become easier and more impactful. A solution is critically required. One solution is to ban fake news, but that approach could create more problems than it solves, and would also be problematic from the beginning, as it must first be identified to be banned. We initially propose a method to automatically recognize suspected fake news, and to provide news consumers with more information as to its veracity. We suggest that fake news is comprised of two components: premises and misleading content. Fake news can be condensed down to a …

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Monitoring Climate Change With Machine Learning And Uncertainty Quantification, Firas Gerges Dec 2022

Monitoring Climate Change With Machine Learning And Uncertainty Quantification, Firas Gerges

Dissertations

The impact of climate change on the environment has become increasingly visible today. One important topic in climate change monitoring is to forecast future climate events, which relies on long-term prediction of climate variables at a local regional scale. This topic is crucial for disaster risk management and for resolving climate change at the local level. General Circulation Models (GCMs) allow for the simulation of several climate variables, decades into the future. GCM simulations, however, are at a global large scale and are too coarse to monitor climate change at the local small scale. This dissertation explores new machine learning …

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Occlusion Handler Density Networks For 3d Multimodal Joint Location Of Hand Pose Hypothesis, Stanley Tito Dec 2022

Occlusion Handler Density Networks For 3d Multimodal Joint Location Of Hand Pose Hypothesis, Stanley Tito

Tanzania Journal of Engineering and Technology (TJET)

(HPE) process is an ill-posed challenge. This is due to severe self occluded joints of the hand. The existing approaches for predicting pose parameters of the hand, utilize a single-value mapping of an input image to generate final pose output. This way makes it difficult to handle occlusion especially when it comes from the multimodal pose hypothesis. This paper introduces an effective method of handling multimodal joint occlusion using the negative log-likelihood of a multimodal mixture-of-Gaussians through a hybrid hierarchical mixture density network (HHMDN). The proposed approach generates multiple feasible hypotheses of 3D poses with visibility, unimodal and multimodal distribution …

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A Neural Analysis-Synthesis Approach To Learning Procedural Audio Models, Danzel Serrano Dec 2022

A Neural Analysis-Synthesis Approach To Learning Procedural Audio Models, Danzel Serrano

Theses

The effective sound design of environmental sounds is crucial to demonstrating an immersive experience. Classical Procedural Audio (PA) models have been developed to give the sound designer a fast way to synthesize a specific class of environmental sounds in a physically accurate and computationally efficient manner. These models are controllable due to the choice of parameters from analyzing a class of sound. However, the resulting synthesis lacks the fidelity for the preferred immersive experience; thus, the sound designer would rather search through an extensive database for real recordings of a target sound class. This thesis proposes the Procedural audio Variational …

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Two Studies On Binary Program Stylometry: A White-Box Analysis And A Deep Learning Analysis On Some Crypto Ransomware, Alexander Mitchell Dec 2022

Two Studies On Binary Program Stylometry: A White-Box Analysis And A Deep Learning Analysis On Some Crypto Ransomware, Alexander Mitchell

Masters Theses, 2020-current

Computer programmers often leave their individual programming styles in source code. Recent studies show that contrary to a popular belief, many of such programming styles can survive, in controlled environments, code compilation into binary. From the binary programming styles can be effectively retrieved for enhanced binary authorship attribution; such binary authorship attribution is often called binary program stylometry. In this thesis, we first perform a white-box impact analysis of various factors in code compilation on programming styles. For the MS Windows platform, we study the impact of multiple compilers, including gcc, Clang, and MSVC, their optimization levels, symbol stripping, and …

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Isolation Of Ddos Attacks And Flash Events In Internet Traffic Using Deep Learning Techniques, Alex Frank Mongi Dec 2022

Isolation Of Ddos Attacks And Flash Events In Internet Traffic Using Deep Learning Techniques, Alex Frank Mongi

Tanzania Journal of Engineering and Technology (TJET)

The adoption of network function visualization (NFV) and software defined radio (SDN) has created a tremendous increase in Internet traffic due to flexibility brought in the network layer. An increase in traffic flowing through the network poses a security threat that becomes tricky to detect and hence selects an appropriate mitigation strategy. Under such a scenario occurrence of the distributed denial of service (DDoS) and flash events (FEs) affect the target servers and interrupt services. Isolating the attacks is the first step before selecting an appropriate mitigation technique. However, detecting and isolating the DDoS attacks from FEs when happening simultaneously …

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Assessing Wood Failure In Plywood By Deep Learning/Semantic Segmentation, Ramon Ferreira Oliveira Dec 2022

Assessing Wood Failure In Plywood By Deep Learning/Semantic Segmentation, Ramon Ferreira Oliveira

Theses and Dissertations

The current method for estimating wood failure is highly subjective. Various techniques have been proposed to improve the current protocol, but none have succeeded. This research aims to use deep learning/semantic segmentation using SegNet architecture to estimate wood failure in four types of three-ply plywood from mechanical shear strength specimens. We trained and tested our approach on custom and commercial plywood with bio-based and phenol-formaldehyde adhesives. Shear specimens were prepared and tested. Photographs of 255 shear bonded areas were taken. Forty photographs were used to solicit visual estimates from five human evaluators, and the remaining photographs were used to train …

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Data-Driven Deep Learning-Based Analysis On Thz Imaging, Haoyan Liu Dec 2022

Data-Driven Deep Learning-Based Analysis On Thz Imaging, Haoyan Liu

Graduate Theses and Dissertations

Breast cancer affects about 12.5% of women population in the United States. Surgical operations are often needed post diagnosis. Breast conserving surgery can help remove malignant tumors while maximizing the remaining healthy tissues. Due to lacking effective real-time tumor analysis tools and a unified operation standard, re-excision rate could be higher than 30% among breast conserving surgery patients. This results in significant physical, physiological, and financial burdens to those patients. This work designs deep learning-based segmentation algorithms that detect tissue type in excised tissues using pulsed THz technology. This work evaluates the algorithms for tissue type classification task among freshly …

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Movie Reviews Sentiment Analysis Using Bert, Gibson Nkhata Dec 2022

Movie Reviews Sentiment Analysis Using Bert, Gibson Nkhata

Graduate Theses and Dissertations

Sentiment analysis (SA) or opinion mining is analysis of emotions and opinions from texts. It is one of the active research areas in Natural Language Processing (NLP). Various approaches have been deployed in the literature to address the problem. These techniques devise complex and sophisticated frameworks in order to attain optimal accuracy with their focus on polarity classification or binary classification. In this paper, we aim to fine-tune BERT in a simple but robust approach for movie reviews sentiment analysis to provide better accuracy than state-of-the-art (SOTA) methods. We start by conducting sentiment classification for every review, followed by computing …

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The Role Of Radiomics And Ai Technologies In The Segmentation, Detection, And Management Of Hepatocellular Carcinoma, Dalia Fahmy, Ahmed Alksas, Ahmed Elnakib, Ali Mahmoud, Heba Kandil, Ashraf Khalil, Mohammed Ghazal, Eric Van Bogaert, Sohail Contractor, Ayman El-Baz Dec 2022

The Role Of Radiomics And Ai Technologies In The Segmentation, Detection, And Management Of Hepatocellular Carcinoma, Dalia Fahmy, Ahmed Alksas, Ahmed Elnakib, Ali Mahmoud, Heba Kandil, Ashraf Khalil, Mohammed Ghazal, Eric Van Bogaert, Sohail Contractor, Ayman El-Baz

All Works

Hepatocellular carcinoma (HCC) is the most common primary hepatic neoplasm. Thanks to recent advances in computed tomography (CT) and magnetic resonance imaging (MRI), there is potential to improve detection, segmentation, discrimination from HCC mimics, and monitoring of therapeutic response. Radiomics, artificial intelligence (AI), and derived tools have already been applied in other areas of diagnostic imaging with promising results. In this review, we briefly discuss the current clinical applications of radiomics and AI in the detection, segmentation, and management of HCC. Moreover, we investigate their potential to reach a more accurate diagnosis of HCC and to guide proper treatment planning.

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The Role Of Generative Adversarial Networks In Bioimage Analysis And Computational Diagnostics., Ahmed Naglah Dec 2022

The Role Of Generative Adversarial Networks In Bioimage Analysis And Computational Diagnostics., Ahmed Naglah

Electronic Theses and Dissertations

Computational technologies can contribute to the modeling and simulation of the biological environments and activities towards achieving better interpretations, analysis, and understanding. With the emergence of digital pathology, we can observe an increasing demand for more innovative, effective, and efficient computational models. Under the umbrella of artificial intelligence, deep learning mimics the brain’s way in learn complex relationships through data and experiences. In the field of bioimage analysis, models usually comprise discriminative approaches such as classification and segmentation tasks. In this thesis, we study how we can use generative AI models to improve bioimage analysis tasks using Generative Adversarial Networks …

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Deep Learning Of Microstructures, Amir Abbas Kazemzadeh Farizhandi Dec 2022

Deep Learning Of Microstructures, Amir Abbas Kazemzadeh Farizhandi

Boise State University Theses and Dissertations

The internal structure of materials also called the microstructure plays a critical role in the properties and performance of materials. The chemical element composition is one of the most critical factors in changing the structure of materials. However, the chemical composition alone is not the determining factor, and a change in the production process can also significantly alter the materials' structure. Therefore, many efforts have been made to discover and improve production methods to optimize the functional properties of materials. The most critical challenge in finding materials with enhanced properties is to understand and define the salient features of the …

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Dronlomaly: Runtime Detection Of Anomalous Drone Behaviors Via Log Analysis And Deep Learning, Lwin Khin Shar, Wei Minn, Nguyen Binh Duong Ta, Jianli Fan, Lingxiao Jiang, Daniel Wai Kiat Lim Dec 2022

Dronlomaly: Runtime Detection Of Anomalous Drone Behaviors Via Log Analysis And Deep Learning, Lwin Khin Shar, Wei Minn, Nguyen Binh Duong Ta, Jianli Fan, Lingxiao Jiang, Daniel Wai Kiat Lim

Research Collection School Of Computing and Information Systems

Drones are increasingly popular and getting used in a variety of missions such as area surveillance, pipeline inspection, cinematography, etc. While the drone is conducting a mission, anomalies such as sensor fault, actuator fault, configuration errors, bugs in controller program, remote cyber- attack, etc., may affect the drone’s physical stability and cause serious safety violations such as crashing into the public. During a flight mission, drones typically log flight status and state units such as GPS coordinates, actuator outputs, accelerator readings, gyroscopic readings, etc. These log data may reflect the above-mentioned anomalies. In this paper, we propose a novel, deep …

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Quote: Quality-Oriented Testing For Deep Learning Systems, Jialuo Chen, Jingyi Wang, Xingjun Ma, Youcheng Sun, Jun Sun, Peixin Zhang, Peng Cheng Dec 2022

Quote: Quality-Oriented Testing For Deep Learning Systems, Jialuo Chen, Jingyi Wang, Xingjun Ma, Youcheng Sun, Jun Sun, Peixin Zhang, Peng Cheng

Research Collection School Of Computing and Information Systems

Recently, there has been a significant growth of interest in applying software engineering techniques for the quality assurance of deep learning (DL) systems. One popular direction is deep learning testing, i.e., given a property of test, defects of DL systems are found either by fuzzing or guided search with the help of certain testing metrics. However, recent studies have revealed that the neuron coverage metrics, commonly used by most existing DL testing approaches, are not necessarily correlated with model quality (e.g., robustness, the most studied model property), and are also not an effective measurement on the confidence of the model …

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A Wind Turbine Fault Diagnosis Method Based On Siamese Deep Neural Network, Jiarui Liu, Guotian Yang, Xiaowei Wang Nov 2022

A Wind Turbine Fault Diagnosis Method Based On Siamese Deep Neural Network, Jiarui Liu, Guotian Yang, Xiaowei Wang

Journal of System Simulation

Abstract: In order to effectively extract the fault features of time series data in supervisory control and data acquisition (SCADA), considering the advantages of one-dimensional convolutional neural network (1-D CNN) for extracting local time series features and the advantages of long-term memory (LSTM) which can extract long-term dependent features, a method for fault diagnosis of wind turbines based on 1-D CNN-LSTM is proposed. To solve the problem of the scarcity of fault samples of wind turbines based on the siamese network architecture, a wind fault diagnosis method based on siamese 1-D CNN-LSTM is proposed. The proposed siamese 1-D CNN-LSTM …

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Transresnet: Integrating The Strengths Of Vits And Cnns For High Resolution Medical Image Segmentation Via Feature Grafting, Muhammad Hamza Sharif, Dmitry Demidov, Asif Hanif, Mohammad Yaqub, Min Xu Nov 2022

Transresnet: Integrating The Strengths Of Vits And Cnns For High Resolution Medical Image Segmentation Via Feature Grafting, Muhammad Hamza Sharif, Dmitry Demidov, Asif Hanif, Mohammad Yaqub, Min Xu

Computer Vision Faculty Publications

High-resolution images are preferable in medical imaging domain as they significantly improve the diagnostic capability of the underlying method. In particular, high resolution helps substantially in improving automatic image segmentation. However, most of the existing deep learning-based techniques for medical image segmentation are optimized for input images having small spatial dimensions and perform poorly on high-resolution images. To address this shortcoming, we propose a parallel-in-branch architecture called TransResNet, which incorporates Transformer and CNN in a parallel manner to extract features from multi-resolution images independently. In TransResNet, we introduce Cross Grafting Module (CGM), which generates the grafted features, enriched in both …

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An Effective Deep Learning Approach For The Classification Of Bacteriosis In Peach Leave, Muneer Akbar, Mohib Ullah, Babar Shah, Rafi Ullah Khan, Tariq Hussain, Farman Ali, Fayadh Alenezi, Ikram Syed, Kyung Sup Kwak Nov 2022

An Effective Deep Learning Approach For The Classification Of Bacteriosis In Peach Leave, Muneer Akbar, Mohib Ullah, Babar Shah, Rafi Ullah Khan, Tariq Hussain, Farman Ali, Fayadh Alenezi, Ikram Syed, Kyung Sup Kwak

All Works

Bacteriosis is one of the most prevalent and deadly infections that affect peach crops globally. Timely detection of Bacteriosis disease is essential for lowering pesticide use and preventing crop loss. It takes time and effort to distinguish and detect Bacteriosis or a short hole in a peach leaf. In this paper, we proposed a novel LightWeight (WLNet) Convolutional Neural Network (CNN) model based on Visual Geometry Group (VGG-19) for detecting and classifying images into Bacteriosis and healthy images. Profound knowledge of the proposed model is utilized to detect Bacteriosis in peach leaf images. First, a dataset is developed which consists …

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An Autoencoder-Based Deep Learning Method For Genotype Imputation, Meng Song, Jonathan Greenbaum, Joseph Luttrell, Weihua Zhou, Chong Wu, Zhe Luo, Chuan Qiu, Lan Juan Zhao, Kuan Jui Su, Qing Tian, Hui Shen, Huixiao Hong, Ping Gong, Xinghua Shi, Hong Wen Deng, Chaoyang Zhang Nov 2022

An Autoencoder-Based Deep Learning Method For Genotype Imputation, Meng Song, Jonathan Greenbaum, Joseph Luttrell, Weihua Zhou, Chong Wu, Zhe Luo, Chuan Qiu, Lan Juan Zhao, Kuan Jui Su, Qing Tian, Hui Shen, Huixiao Hong, Ping Gong, Xinghua Shi, Hong Wen Deng, Chaoyang Zhang

Michigan Tech Publications, Part 1

Genotype imputation has a wide range of applications in genome-wide association study (GWAS), including increasing the statistical power of association tests, discovering trait-associated loci in meta-analyses, and prioritizing causal variants with fine-mapping. In recent years, deep learning (DL) based methods, such as sparse convolutional denoising autoencoder (SCDA), have been developed for genotype imputation. However, it remains a challenging task to optimize the learning process in DL-based methods to achieve high imputation accuracy. To address this challenge, we have developed a convolutional autoencoder (AE) model for genotype imputation and implemented a customized training loop by modifying the training process with a …

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An Autoencoder-Based Deep Learning Method For Genotype Imputation, Meng Song, Jonathan Greenbaum, Joseph Luttrell Iv, Weihua Zhou, Chong Wu, Zhe Luo, Chuan Qiu, Lan Juan Zhao, Kuan-Jui Su, Qing Tian, Hui Shen, Huixiao Hong, Ping Gong, Xinghua Shi, Hong-Wen Deng, Chaoyang Zhang Nov 2022

An Autoencoder-Based Deep Learning Method For Genotype Imputation, Meng Song, Jonathan Greenbaum, Joseph Luttrell Iv, Weihua Zhou, Chong Wu, Zhe Luo, Chuan Qiu, Lan Juan Zhao, Kuan-Jui Su, Qing Tian, Hui Shen, Huixiao Hong, Ping Gong, Xinghua Shi, Hong-Wen Deng, Chaoyang Zhang

Faculty Publications

Genotype imputation has a wide range of applications in genome-wide association study (GWAS), including increasing the statistical power of association tests, discovering trait-associated loci in meta-analyses, and prioritizing causal variants with fine-mapping. In recent years, deep learning (DL) based methods, such as sparse convolutional denoising autoencoder (SCDA), have been developed for genotype imputation. However, it remains a challenging task to optimize the learning process in DL-based methods to achieve high imputation accuracy. To address this challenge, we have developed a convolutional autoencoder (AE) model for genotype imputation and implemented a customized training loop by modifying the training process with a …

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From Machine Learning To Deep Learning: A Comprehensive Study Of Alcohol And Drug Use Disorder, Banafsheh Rekabdar, David L. Albright, Haelim Jeong, Sameerah Talafha Nov 2022

From Machine Learning To Deep Learning: A Comprehensive Study Of Alcohol And Drug Use Disorder, Banafsheh Rekabdar, David L. Albright, Haelim Jeong, Sameerah Talafha

Computer Science Faculty Publications and Presentations

This study aims to train and validate machine learning and deep learning models to identify patients with risky alcohol and drug misuse in a Screening, Brief Intervention, and Referral to Treatment (SBIRT) program. An observational cohort of 6978 adults was admitted in the western region of Alabama at three medical facilities between January and December of 2019. Data were cleaned and pre-processed using data imputation techniques and an augmented sampling data method. The primary analysis involved the multi-class classification of alcohol and drug misuse. Our study shows that accurate identification of alcohol and drug use screening instrument scores was best …

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Lstm-Sdm: An Integrated Framework Of Lstm Implementation For Sequential Data Modeling[Formula Presented], Hum Nath Bhandari, Binod Rimal, Nawa Raj Pokhrel, Ramchandra Rimal, Keshab R. Dahal Nov 2022

Lstm-Sdm: An Integrated Framework Of Lstm Implementation For Sequential Data Modeling[Formula Presented], Hum Nath Bhandari, Binod Rimal, Nawa Raj Pokhrel, Ramchandra Rimal, Keshab R. Dahal

Arts & Sciences Faculty Publications

LSTM-SDM is a python-based integrated computational framework built on the top of Tensorflow/Keras and written in the Jupyter notebook. It provides several object-oriented functionalities for implementing single layer and multilayer LSTM models for sequential data modeling and time series forecasting. Multiple subroutines are blended to create a conducive user-friendly environment that facilitates data exploration and visualization, normalization and input preparation, hyperparameter tuning, performance evaluations, visualization of results, and statistical analysis. We utilized the LSTM-SDM framework in predicting the stock market index and observed impressive results. The framework can be generalized to solve several other real-world time series problems.

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