Physical Sciences and Mathematics Commons^™

Deep Learning Image Analysis To Isolate And Characterize Different Stages Of S-Phase In Human Cells, Kevin A. Boyd, Rudranil Mitra, John Santerre, Christopher L. Sansam

SMU Data Science Review

Abstract. This research used deep learning for image analysis by isolating and characterizing distinct DNA replication patterns in human cells. By leveraging high-resolution microscopy images of multiple cells stained with 5-Ethynyl-2′-deoxyuridine (EdU), a replication marker, this analysis utilized Convolutional Neural Networks (CNNs) to perform image segmentation and to provide robust and reliable classification results. First multiple cells in a field of focus were identified using a pretrained CNN called Cellpose. After identifying the location of each cell in the image a python script was created to crop out each cell into individual .tif files. After careful annotation, a CNN was …

Uavs And Deep Neural Networks: An Alternative Approach To Monitoring Waterfowl At The Site Level, Zachary J. Loken

LSU Master's Theses

Understanding how waterfowl respond to habitat restoration and management activities is crucial for evaluating and refining conservation delivery programs. However, site-specific waterfowl monitoring is challenging, especially in heavily forested systems such as the Mississippi Alluvial Valley (MAV)—a primary wintering region for ducks in North America. I hypothesized that using uncrewed aerial vehicles (UAVs) coupled with deep learning-based methods for object detection would provide an efficient and effective means for surveying non-breeding waterfowl on difficult-to-access restored wetland sites. Accordingly, during the winters of 2021 and 2022, I surveyed wetland restoration easements in the MAV using a UAV equipped with a dual …

Spoken Language Processing And Modeling For Aviation Communications, Aaron Van De Brook

Doctoral Dissertations and Master's Theses

With recent advances in machine learning and deep learning technologies and the creation of larger aviation-specific corpora, applying natural language processing technologies, especially those based on transformer neural networks, to aviation communications is becoming increasingly feasible. Previous work has focused on machine learning applications to natural language processing, such as N-grams and word lattices. This thesis experiments with a process for pretraining transformer-based language models on aviation English corpora and compare the effectiveness and performance of language models transfer learned from pretrained checkpoints and those trained from their base weight initializations (trained from scratch). The results suggest that transformer language …

A Hybrid Ensemble Of Learning Models, Bivin Sadler, Dhruba Dey, Duy Nguyen, Tavin Weeda

SMU Data Science Review

Statistical models in time series forecasting have long been challenged to be superseded by the advent of deep learning models. This research proposes a new hybrid ensemble of forecasting models that combines the strengths of several strong candidates from these two model types. The proposed ensemble aims to improve the accuracy of forecasts and reduce computational complexity by leveraging the strengths of each candidate model.

The Development Of Artificial Intelligence-Based Tools For Expert Peer Review Of Radiotherapy Treatment Plans, Mary Gronberg

Dissertations & Theses (Open Access)

Creating a patient-specific radiation treatment plan is a time-consuming and operator-dependent manual process. The treatment planner adjusts the planning parameters in a trial-and-error fashion in an effort to balance the competing clinical objectives of tumor coverage and normal tissue sparing. Often, a plan is selected because it meets basic organ at risk dose thresholds for severe toxicity; however, it is evident that a plan with a decreased risk of normal tissue complication probability could be achieved. This discrepancy between “acceptable” and “best possible” plan is magnified if either the physician or treatment planner lacks focal expertise in the disease site. …

Insights Into The Application Of Deep Reinforcement Learning In Healthcare And Materials Science, Benjamin R. Smith

Doctoral Dissertations

Reinforcement learning (RL) is a type of machine learning designed to optimize sequential decision-making. While controlled environments have served as a foundation for RL research, due to the growth in data volumes and deep learning methods, it is now increasingly being applied to real-world problems. In our work, we explore and attempt to overcome challenges that occur when applying RL to solve problems in healthcare and materials science.

First, we explore how issues in bias and data completeness affect healthcare applications of RL. To understand how bias has already been considered in this area, we survey the literature for existing …

Utilizing Few-Shot Meta Learning Algorithms For Medical Image Segmentation, Nick Littlefield

Thinking Matters Symposium

Deep learning models can be difficult to train because they require large amounts of data, which we usually do not have or are too expensive to get or annotate. To overcome this problem, we can use few-shot meta-learning, which allows us to train deep learning models with little data. Using a few examples, meta-learning, or learning-to-learn, aims to use the experience learned during training to generalize to unknown tasks. Medical imaging is an industry where it is particularly useful, as there is limited publicly available data due to patient privacy concerns and annotating costs.

This project examines how meta-learning performs …

Deephtlv: A Deep Learning Framework For Detecting Human T-Lymphotrophic Virus 1 Integration Sites, Johnathan Jia, Johnathan Jia

Dissertations & Theses (Open Access)

In the 1980s, researchers found the first human oncogenic retrovirus called human T-lymphotrophic virus type 1 (HTLV-1). Since then, HTLV-1 has been identified as the causative agent behind several diseases such as adult T-cell leukemia/lymphoma (ATL) and a HTLV-1 associated myelopathy or tropical spastic paraparesis (HAM/TSP). As part of its normal replication cycle, the genome is converted into DNA and integrated into the genome. With several hundreds to thousands of unique viral integration sites (VISs) distributed with indeterminate preference throughout the genome, detection of HTLV-1 VISs is a challenging task. Experimental studies typically use molecular biology …

A Bidirectional Deep Lstm Machine Learning Method For Flight Delay Modelling And Analysis, Desmond B. Bisandu, Irene Moulitsas

National Training Aircraft Symposium (NTAS)

Flight delays can be prevented by providing a reference point from an accurate prediction model because predicting flight delays is a problem with a specific space. Only a few algorithms consider predicted classes' mutual correlation during flight delay classification or prediction modelling tasks. None of these existing methods works for all scenarios. Therefore, the need to investigate the performance of more models in solving the problem of flight delay is vast and rapidly increasing. This paper presents the development and evaluation of LSTM and BiLSTM models by comparing them for a flight delay prediction. The LSTM does the feature extraction …

A Multistage Framework For Detection Of Very Small Objects, Duleep Rathgamage Don, Ramazan Aygun, Mahmut Karakaya

Published and Grey Literature from PhD Candidates

Small object detection is one of the most challenging problems in computer vision. Algorithms based on state-of-the-art object detection methods such as R-CNN, SSD, FPN, and YOLO fail to detect objects of very small sizes. In this study, we propose a novel method to detect very small objects, smaller than 8×8 pixels, that appear in a complex background. The proposed method is a multistage framework consisting of an unsupervised algorithm and three separately trained supervised algorithms. The unsupervised algorithm extracts ROIs from a high-resolution image. Then the ROIs are upsampled using SRGAN, and the enhanced ROIs are detected by our …

Multimodal Neuron Classification Based On Morphology And Electrophysiology, Aqib Ahmad

Graduate Theses, Dissertations, and Problem Reports

Categorizing neurons into different types to understand neural circuits and ultimately brain function is a major challenge in neuroscience. While electrical properties are critical in defining a neuron, its morphology is equally important. Advancements in single-cell analysis methods have allowed neuroscientists to simultaneously capture multiple data modalities from a neuron. We propose a method to classify neurons using both morphological structure and electrophysiology. Current approaches are based on a limited analysis of morphological features. We propose to use a new graph neural network to learn representations that more comprehensively account for the complexity of the shape of neuronal structures. In …

An Explainable Deep Learning Prediction Model For Severity Of Alzheimer's Disease From Brain Images, Godwin O. Ekuma

MSU Graduate Theses

Deep Convolutional Neural Networks (CNNs) have become the go-to method for medical imaging classification on various imaging modalities for binary and multiclass problems. Deep CNNs extract spatial features from image data hierarchically, with deeper layers learning more relevant features for the classification application. The effectiveness of deep learning models are hampered by limited data sets, skewed class distributions, and the undesirable "black box" of neural networks, which decreases their understandability and usability in precision medicine applications. This thesis addresses the challenge of building an explainable deep learning model for a clinical application: predicting the severity of Alzheimer's disease (AD). AD …

A Deep Bilstm Machine Learning Method For Flight Delay Prediction Classification, Desmond B. Bisandu Phd, Irene Moulitsas Phd

Journal of Aviation/Aerospace Education & Research

This paper proposes a classification approach for flight delays using Bidirectional Long Short-Term Memory (BiLSTM) and Long Short-Term Memory (LSTM) models. Flight delays are a major issue in the airline industry, causing inconvenience to passengers and financial losses to airlines. The BiLSTM and LSTM models, powerful deep learning techniques, have shown promising results in a classification task. In this study, we collected a dataset from the United States (US) Bureau of Transportation Statistics (BTS) of flight on-time performance information and used it to train and test the BiLSTM and LSTM models. We set three criteria for selecting highly important features …

Lessons Learned From Interdisciplinary Efforts To Combat Covid-19 Misinformation: Development Of Agile Integrative Methods From Behavioral Science, Data Science, And Implementation Science, Sahiti Myneni, Paula Cuccaro, Sarah Montgomery, Vivek Pakanati, Jinni Tang, Tavleen Singh, Olivia Dominguez, Trevor Cohen, Belinda Reininger, Lara S Savas, Maria E Fernandez

Journal Articles

BACKGROUND: Despite increasing awareness about and advances in addressing social media misinformation, the free flow of false COVID-19 information has continued, affecting individuals' preventive behaviors, including masking, testing, and vaccine uptake.

OBJECTIVE: In this paper, we describe our multidisciplinary efforts with a specific focus on methods to (1) gather community needs, (2) develop interventions, and (3) conduct large-scale agile and rapid community assessments to examine and combat COVID-19 misinformation.

METHODS: We used the Intervention Mapping framework to perform community needs assessment and develop theory-informed interventions. To supplement these rapid and responsive efforts through large-scale online social listening, we developed a …

Face Anti-Spoofing And Deep Learning Based Unsupervised Image Recognition Systems, Enoch Solomon

Theses and Dissertations

One of the main problems of a supervised deep learning approach is that it requires large amounts of labeled training data, which are not always easily available. This PhD dissertation addresses the above-mentioned problem by using a novel unsupervised deep learning face verification system called UFace, that does not require labeled training data as it automatically, in an unsupervised way, generates training data from even a relatively small size of data. The method starts by selecting, in unsupervised way, k-most similar and k-most dissimilar images for a given face image. Moreover, this PhD dissertation proposes a new loss function to …

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.