Analytical, Diagnostic and Therapeutic Techniques and Equipment Commons^™

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 …

Computer Aided Diagnosis System For Breast Cancer Using Deep Learning., Asma Baccouche

Electronic Theses and Dissertations

The recent rise of big data technology surrounding the electronic systems and developed toolkits gave birth to new promises for Artificial Intelligence (AI). With the continuous use of data-centric systems and machines in our lives, such as social media, surveys, emails, reports, etc., there is no doubt that data has gained the center of attention by scientists and motivated them to provide more decision-making and operational support systems across multiple domains. With the recent breakthroughs in artificial intelligence, the use of machine learning and deep learning models have achieved remarkable advances in computer vision, ecommerce, cybersecurity, and healthcare. Particularly, numerous …

Assessing The Reidentification Risks Posed By Deep Learning Algorithms Applied To Ecg Data, Arin Ghazarian, Jianwei Zheng, Daniele Struppa, Cyril Rakovski

Mathematics, Physics, and Computer Science Faculty Articles and Research

ECG (Electrocardiogram) data analysis is one of the most widely used and important tools in cardiology diagnostics. In recent years the development of advanced deep learning techniques and GPU hardware have made it possible to train neural network models that attain exceptionally high levels of accuracy in complex tasks such as heart disease diagnoses and treatments. We investigate the use of ECGs as biometrics in human identification systems by implementing state-of-the-art deep learning models. We train convolutional neural network models on approximately 81k patients from the US, Germany and China. Currently, this is the largest research project on ECG identification. …

Toward A Multimodal Computer-Aided Diagnostic Tool For Alzheimer’S Disease Conversion, Danilo Pena, Jessika Suescun, Mya Schiess, Timothy M. Ellmore, Luca Giancardo, Alzheimer’S Disease Neuroimaging Initiative

Publications and Research

Alzheimer’s disease (AD) is a progressive neurodegenerative disorder. It is one of the leading sources of morbidity and mortality in the aging population AD cardinal symptoms include memory and executive function impairment that profoundly alters a patient’s ability to perform activities of daily living. People with mild cognitive impairment (MCI) exhibit many of the early clinical symptoms of patients with AD and have a high chance of converting to AD in their lifetime. Diagnostic criteria rely on clinical assessment and brain magnetic resonance imaging (MRI). Many groups are working to help automate this process to improve the clinical workflow. Current …

Construction Of A Repeatable Framework For Prostate Cancer Lesion Binary Semantic Segmentation Using Convolutional Neural Networks, Ian Vincent O. Mirasol, Patricia Angela R. Abu, Rosula Sj Reyes

Department of Information Systems & Computer Science Faculty Publications

Prostate cancer is the 3rd most diagnosed cancer overall. Current screening methods such as the prostate-specific antigen test could result in overdiagonosis and overtreatment while other methods such as a transrectal ultrasonography are invasive. Recent medical advancements have allowed the use of multiparametric MRI — a noninvasive and reliable screening process for prostate cancer. However, assessment would still vary from different professionals introducing subjectivity. While con-volutional neural network has been used in multiple studies to ob-jectively segment prostate lesions, due to the sensitivity of datasets and varying ground-truth established used in these studies, it is not possible to reproduce and …

Developing Deep-Learning Methods For Diagnosis And Prognosis Of Pediatric Progressive Diseases Using Modern Imaging Techniques, Mahdieh Shabanian

Theses and Dissertations (ETD)

Purpose and Rationale. Central nervous system manifestations form a significant burden of disease in young children. There have been efforts to correlate the neurological disease state in tuberous sclerosis complex (TSC) neurological disease state with imaging findings is a standard part of patient care. However, such analysis of neuroimaging is time- and labor-intensive. Automated approaches to these tasks are needed to improve speed, accuracy, and availability. Automated medical image analysis tools based on 3D/2D deep learning algorithms can help improve the quality and consistency of image diagnosis and interpretation for cognitive disorders in infants. We propose to automate neuroimaging analysis …

Detection Of Dental Apical Lesions Using Cnns On Periapical Radiograph, Chun-Wei Li, Szu-Yin Lin, He-Sheng Chou, Tsung-Yi Chen, Yu-An Chen, Sheng-Yu Liu, Yu-Lin Liu, Chiung-An Chen, Yen-Cheng Huang, Shih-Lun Chen, Yi-Cheng Mao, Patricia Angela R. Abu, Wei-Yuan Chiang, Wen-Shen Lo

Department of Information Systems & Computer Science Faculty Publications

Apical lesions, the general term for chronic infectious diseases, are very common dental diseases in modern life, and are caused by various factors. The current prevailing endodontic treatment makes use of X-ray photography taken from patients where the lesion area is marked manually, which is therefore time consuming. Additionally, for some images the significant details might not be recognizable due to the different shooting angles or doses. To make the diagnosis process shorter and efficient, repetitive tasks should be performed automatically to allow the dentists to focus more on the technical and medical diagnosis, such as treatment, tooth cleaning, or …

Advancing Proper Dataset Partitioning And Classification Of Visual Search And The Vigilance Decrement Using Eeg Deep Learning Algorithms, Alexander J. Kamrud

Theses and Dissertations

Electroencephalography (EEG) classification of visual search and vigilance tasks has vast potential in its benefits. In future human-machine teaming systems, EEG could act as the tool for operator state assessment, enabling AI teammates to know when to assist the operator in these tasks, with the potential to lead to increased safety of operations, better training systems for our operators, and improved operational effectiveness. This research investigates deep learning methods which utilize EEG signals to classify the efficiency of an operator's search and to classify whether an operator is in a decrement during a vigilance type task, and investigates performing these …

Generalized Deep Learning Eeg Models For Cross-Participant And Cross-Task Detection Of The Vigilance Decrement In Sustained Attention Tasks, Alexander J. Kamrud, Brett J. Borghetti, Christine M. Schubert Kabban, Michael E. Miller

Faculty Publications

Tasks which require sustained attention over a lengthy period of time have been a focal point of cognitive fatigue research for decades, with these tasks including air traffic control, watchkeeping, baggage inspection, and many others. Recent research into physiological markers of mental fatigue indicate that markers exist which extend across all individuals and all types of vigilance tasks. This suggests that it would be possible to build an EEG model which detects these markers and the subsequent vigilance decrement in any task (i.e., a task-generic model) and in any person (i.e., a cross-participant model). However, thus far, no task-generic EEG …

Deep-Learning-Based Multivariate Pattern Analysis (Dmvpa): A Tutorial And A Toolbox, Karl M. Kuntzelman, Jacob M. Williams, Phui Cheng Lim, Ashtok Samal, Prahalada K. Rao, Matthew R. Johnson

Center for Brain, Biology, and Behavior: Faculty Publications

In recent years, multivariate pattern analysis (MVPA) has been hugely beneficial for cognitive neuroscience by making new experiment designs possible and by increasing the inferential power of functional magnetic resonance imaging (fMRI), electroencephalography (EEG), and other neuroimaging methodologies. In a similar time frame, “deep learning” (a term for the use of artificial neural networks with convolutional, recurrent, or similarly sophisticated architectures) has produced a parallel revolution in the field of machine learning and has been employed across a wide variety of applications. Traditional MVPA also uses a form of machine learning, but most commonly with much simpler techniques based on …

Adaptive Physics-Based Non-Rigid Registration For Immersive Image-Guided Neuronavigation Systems, Fotis Drakopoulos, Christos Tsolakis, Angelos Angelopoulos, Yixun Liu, Chengjun Yao, Kyriaki Rafailia Kavazidi, Nikolaos Foroglou, Andrey Fedorov, Sarah Frisken, Ron Kikinis, Alexandra Golby, Nikos Chrisochoides

Computer Science Faculty Publications

Objective: In image-guided neurosurgery, co-registered preoperative anatomical, functional, and diffusion tensor imaging can be used to facilitate a safe resection of brain tumors in eloquent areas of the brain. However, the brain deforms during surgery, particularly in the presence of tumor resection. Non-Rigid Registration (NRR) of the preoperative image data can be used to create a registered image that captures the deformation in the intraoperative image while maintaining the quality of the preoperative image. Using clinical data, this paper reports the results of a comparison of the accuracy and performance among several non-rigid registration methods for handling brain deformation. A …

Data Augmentation For Deep-Learning-Based Electroencephalography, Elnaz Lashgari, Dehua Liang, Uri Maoz

Psychology Faculty Articles and Research

Background

Data augmentation (DA) has recently been demonstrated to achieve considerable performance gains for deep learning (DL)—increased accuracy and stability and reduced overfitting. Some electroencephalography (EEG) tasks suffer from low samples-to-features ratio, severely reducing DL effectiveness. DA with DL thus holds transformative promise for EEG processing, possibly like DL revolutionized computer vision, etc.

New method

We review trends and approaches to DA for DL in EEG to address: Which DA approaches exist and are common for which EEG tasks? What input features are used? And, what kind of accuracy gain can be expected?

Results

DA for DL on EEG begun …

Covid-19 Detection From Chest X-Ray Images Using Cnns Models: Further Evidence From Deep Transfer Learning, Mohamed Samir Boudrioua

The University of Louisville Journal of Respiratory Infections

Introduction: The early automatic diagnosis of the novel coronavirus (COVID-19) disease could be very helpful to reduce its spread around the world. In this study, we revisit the identification of COVID-19 from chest X-ray images using deep learning.

Methods: We collected a relatively large COVID-19 dataset—compared with previous studies—containing 309 real COVID-19 chest X-ray images. We also prepared 2,000 chest X-ray images of pneumonia cases and 1,000 images of healthy controls. Deep transfer learning was used to detect abnormalities in our image dataset. We fine-tuned three, pre-trained convolutional neural network (CNN) models on a training dataset: DenseNet 121, NASNetLarge, and …

The Effectiveness Of Transfer Learning Systems On Medical Images, James Boit

Masters Theses & Doctoral Dissertations

Deep neural networks have revolutionized the performances of many machine learning tasks such as medical image classification and segmentation. Current deep learning (DL) algorithms, specifically convolutional neural networks are increasingly becoming the methodological choice for most medical image analysis. However, training these deep neural networks requires high computational resources and very large amounts of labeled data which is often expensive and laborious. Meanwhile, recent studies have shown the transfer learning (TL) paradigm as an attractive choice in providing promising solutions to challenges of shortage in the availability of labeled medical images. Accordingly, TL enables us to leverage the knowledge learned …

Deep Learning-Based Structure-Activity Relationship Modeling For Multi-Category Toxicity Classification: A Case Study Of 10k Tox21 Chemicals With High-Throughput Cell-Based Androgen Receptor Bioassay Data, Gabriel Idakwo, Sundar Thangapandian, Joseph Luttrell Iv, Zhaoxian Zhou, Chaoyang Zhang, Ping Gong

Faculty Publications

Deep learning (DL) has attracted the attention of computational toxicologists as it offers a potentially greater power for in silico predictive toxicology than existing shallow learning algorithms. However, contradicting reports have been documented. To further explore the advantages of DL over shallow learning, we conducted this case study using two cell-based androgen receptor (AR) activity datasets with 10K chemicals generated from the Tox21 program. A nested double-loop cross-validation approach was adopted along with a stratified sampling strategy for partitioning chemicals of multiple AR activity classes (i.e., agonist, antagonist, inactive, and inconclusive) at the same distribution rates amongst the training, validation …

Identifying Depression In The National Health And Nutrition Examination Survey Data Using A Deep Learning Algorithm, Jihoon Oh, Kyongsik Yun, Uri Maoz, Tae-Suk Kim, Jeong-Ho Chae

Psychology Faculty Articles and Research

Background

As depression is the leading cause of disability worldwide, large-scale surveys have been conducted to establish the occurrence and risk factors of depression. However, accurately estimating epidemiological factors leading up to depression has remained challenging. Deep-learning algorithms can be applied to assess the factors leading up to prevalence and clinical manifestations of depression.

Methods

Customized deep-neural-network and machine-learning classifiers were assessed using survey data from 19,725 participants from the NHANES database (from 1999 through 2014) and 4949 from the South Korea NHANES (K-NHANES) database in 2014.

Results

A deep-learning algorithm showed area under the receiver operating characteristic curve (AUCs) …

A Novel Deep Learning Framework For Internal Gross Target Volume Definition From 4d Computed Tomography Of Lung Cancer Patients, Xiadong Li, Ziheng Deng, Qinghua Deng, Lidan Zhang, Tianye Niu, Yu Kuang

Health Physics and Diagnostic Sciences Faculty Research

In this paper, we study the reliability of a novel deep learning framework for internal gross target volume (IGTV) delineation from four-dimensional computed tomography (4DCT), which is applied to patients with lung cancer treated by Stereotactic Body Radiation Therapy (SBRT). 77 patients who underwent SBRT followed by 4DCT scans were incorporated in a retrospective study. The IGTV_DL was delineated using a novel deep machine learning algorithm with a linear exhaustive optimal combination framework, for the purpose of comparison, three other IGTVs base on common methods was also delineated, we compared the relative volume difference (RVI), matching index (MI) and encompassment …