Digital Commons Network^™

Sensitivity Analysis Of An Agent-Based Simulation Model Using Reconstructability Analysis, Andey M. Nunes, Martin Zwick, Wayne Wakeland

Systems Science Faculty Publications and Presentations

Reconstructability analysis, a methodology based on information theory and graph theory, was used to perform a sensitivity analysis of an agent-based model. The NetLogo BehaviorSpace tool was employed to do a full 2^k factorial parameter sweep on Uri Wilensky’s Wealth Distribution NetLogo model, to which a Gini-coefficient convergence condition was added. The analysis identified the most influential predictors (parameters and their interactions) of the Gini coefficient wealth inequality outcome. Implications of this type of analysis for building and testing agent-based simulation models are discussed.

A Conformation Variant Of P53 Combined With Machine Learning Identifies Alzheimer Disease In Preclinical And Prodromal Stages, Giulia Abate, Marika Vezzoli, Letizia Polito, Antonio Guaita, Diego Albani, Moira Marizzoni, Emirena Garrafa, Alessandra Marengoni, Gianluigi Forloni, Giovanni B. Frisoni, Jeffrey L. Cummings, Maurizio Memo, Daniela Uberti

School of Medicine Faculty Publications

© 2020 by the authors. Li-censee MDPI, Basel, Switzerland. Early diagnosis of Alzheimer’s disease (AD) is a crucial starting point in disease man-agement. Blood-based biomarkers could represent a considerable advantage in providing AD-risk information in primary care settings. Here, we report new data for a relatively unknown blood-based biomarker that holds promise for AD diagnosis. We evaluate a p53-misfolding conformation rec-ognized by the antibody 2D3A8, also named Unfolded p53 (U-p532D3A8+), in 375 plasma samples derived from InveCe.Ab and PharmaCog/E-ADNI longitudinal studies. A machine learning approach is used to combine U-p532D3A8+ plasma levels with Mini-Mental State Examination (MMSE) and apolipoprotein E …

Pathway‐Extended Gene Expression Signatures Integrate Novel Biomarkers That Improve Predictions Of Patient Responses To Kinase Inhibitors, Ashis Bagchee‐Clark, Eliseos J. Mucaki, Tyson Whitehead, Peter Rogan

Biochemistry Publications

Cancer chemotherapy responses have been related to multiple pharmacogenetic biomarkers, often for the same drug. This study utilizes machine learning to derive multi‐gene expression signatures that predict individual patient responses to specific tyrosine kinase inhibitors, including erlotinib, gefitinib, sorafenib, sunitinib, lapatinib and imatinib. Support vector machine (SVM) learning was used to train mathematical models that distinguished sensitivity from resistance to these drugs using a novel systems biology‐based approach. This began with expression of genes previously implicated in specific drug responses, then expanded to evaluate genes whose products were related through biochemical pathways and interactions. Optimal pathway‐extended SVMs predicted responses in …

An Assessment Of The Hydrological Trends Using Synergistic Approaches Of Remote Sensing And Model Evaluations Over Global Arid And Semi-Arid Regions, Wenzhao Li, Hesham El-Askary, Rejoice Thomas, Surya Prakash Tiwari, Karuppasamy Manikandan, Thomas Piechota, Daniele Struppa

Mathematics, Physics, and Computer Science Faculty Articles and Research

Drylands cover about 40% of the world’s land area and support two billion people, most of them living in developing countries that are at risk due to land degradation. Over the last few decades, there has been warming, with an escalation of drought and rapid population growth. This will further intensify the risk of desertification, which will seriously affect the local ecological environment, food security and people’s lives. The goal of this research is to analyze the hydrological and land cover characteristics and variability over global arid and semi-arid regions over the last decade (2010–2019) using an integrative approach of …

Diagnostic Utility Of Genome-Wide Dna Methylation Analysis In Mendelian Neurodevelopmental Disorders, Sadegheh Haghshenas, Pratibha Bhai, Erfan Aref-Eshghi, Bekim Sadikovic

Paediatrics Publications

Mendelian neurodevelopmental disorders customarily present with complex and overlapping symptoms, complicating the clinical diagnosis. Individuals with a growing number of the so-called rare disorders exhibit unique, disorder-specific DNA methylation patterns, consequent to the underlying gene defects. Besides providing insights to the pathophysiology and molecular biology of these disorders, we can use these epigenetic patterns as functional biomarkers for the screening and diagnosis of these conditions. This review summarizes our current understanding of DNA methylation episignatures in rare disorders and describes the underlying technology and analytical approaches. We discuss the computational parameters, including statistical and machine learning methods, used for the …

Detecting Hacker Threats: Performance Of Word And Sentence Embedding Models In Identifying Hacker Communications, Susan Mckeever, Brian Keegan, Andrei Quieroz

Conference papers

Abstract—Cyber security is striving to find new forms of protection against hacker attacks. An emerging approach nowadays is the investigation of security-related messages exchanged on deep/dark web and even surface web channels. This approach can be supported by the use of supervised machine learning models and text mining techniques. In our work, we compare a variety of machine learning algorithms, text representations and dimension reduction approaches for the detection accuracies of software-vulnerability-related communications. Given the imbalanced nature of the three public datasets used, we investigate appropriate sampling approaches to boost detection accuracies of our models. In addition, we examine how …

Language-Driven Region Pointer Advancement For Controllable Image Captioning, Annika Lindh, Robert J. Ross, John D. Kelleher

Conference papers

Controllable Image Captioning is a recent sub-field in the multi-modal task of Image Captioning wherein constraints are placed on which regions in an image should be described in the generated natural language caption. This puts a stronger focus on producing more detailed descriptions, and opens the door for more end-user control over results. A vital component of the Controllable Image Captioning architecture is the mechanism that decides the timing of attending to each region through the advancement of a region pointer. In this paper, we propose a novel method for predicting the timing of region pointer advancement by treating the …

Machine-Learning-Based Hybrid Method For The Multilevel Fast Multipole Algorithm, Jia Jing Sun, Sheng Sun, Yongpin P. Chen, Lijun Jiang, Jun Hu

Electrical and Computer Engineering Faculty Research & Creative Works

In this letter, a hybrid translation computation method for the multilevel fast multipole algorithm (MLFMA) is proposed based on machine learning. The hybrid method combines both generalized regression neural network (GRNN) and artificial neural network (ANN) to replace the traditional translation procedure during the solving process of the MLFMA. Based on the data corresponding to every one of the interaction list boxes at each level, the hybrid neural network is trained. Comparing with the previous machine learning method in this field, the proposed model is more general, and with lower complexity since it inherits the accuracy of the GRNN as …

Walls Have Ears: Eavesdropping User Behaviors Via Graphics-Interrupt-Based Side Channel, Haoyu Ma, Jianwen Tian, Debin Gao, Jia Chunfu

Research Collection School Of Computing and Information Systems

Graphics Processing Units (GPUs) are now playing a vital role in many devices and systems including computing devices, data centers, and clouds, making them the next target of side-channel attacks. Unlike those targeting CPUs, existing side-channel attacks on GPUs exploited vulnerabilities exposed by application interfaces like OpenGL and CUDA, which can be easily mitigated with software patches. In this paper, we investigate the lower-level and native interface between GPUs and CPUs, i.e., the graphics interrupts, and evaluate the side channel they expose. Being an intrinsic profile in the communication between a GPU and a CPU, the pattern of graphics interrupts …

Pathway-Extended Gene Expression Signatures Integrate Novel Biomarkers That Improve Predictions Of Patient Responses To Kinase Inhibitors, Ashis Jem Bagchee-Clark, Eliseos J. Mucaki, Tyson Whitehead, Peter Rogan

Biochemistry Publications

No abstract provided.

Pathway-Extended Gene Expression Signatures Integrate Novel Biomarkers That Improve Predictions Of Patient Responses To Kinase Inhibitors, Jem Bagchee-Clark, Eliseos J. Mucaki, Tyson Whitehead, Peter Rogan

Biochemistry Publications

Cancer chemotherapy responses have been related to multiple pharmacogenetic biomarkers, often for the same drug. This study utilizes machine learning to derive multi-gene expression signatures that predict individual patient responses to specific tyrosine kinase inhibitors, including erlotinib, gefitinib, sorafenib, sunitinib, lapatinib and imatinib. Support Vector Machine learning was used to train mathematical models that distinguished sensitivity from resistance to these drugs using a novel systems biology-based approach. This began with expression of genes previously implicated in specific drug responses, then expanded to evaluate genes whose products were related through biochemical pathways and interactions. Optimal pathway-extended support vector machines predicted responses …

Prediction Of Mental Illness In Heart Disease Patients: Association Of Comorbidities, Dietary Supplements, And Antibiotics As Risk Factors, Jayanth Sivakumar, Saba Ahmed, Lina Begdache, Swati Jain, Daehan Won

Health & Wellness Studies Faculty Scholarship

Comorbidities, dietary supplement use, and prescription drug use may negatively (or positively) affect mental health in cardiovascular patients. Although the significance of mental illnesses, such as depression, anxiety, and schizophrenia, on cardiovascular disease is well documented, mental illnesses resulting from heart disease are not well studied. In this paper, we introduce the risk factors of mental illnesses as an exploratory study and develop a prediction framework for mental illness that uses comorbidities, dietary supplements, and drug usage in heart disease patients. Particularly, the data used in this study consist of the records of 68,647 patients with heart disease, including the …

Machine Learning Integrated Design For Additive Manufacturing, Jingchao Jiang, Yi Xiong, Zhiyuan Zhang, David W. Rosen

Research Collection School Of Computing and Information Systems

For improving manufacturing efficiency and minimizing costs, design for additive manufacturing (AM) has been accordingly proposed. The existing design for AM methods are mainly surrogate model based. Due to the increasingly available data nowadays, machine learning (ML) has been applied to medical diagnosis, image processing, prediction, classification, learning association, etc. A variety of studies have also been carried out to use machine learning for optimizing the process parameters of AM with corresponding objectives. In this paper, a ML integrated design for AM framework is proposed, which takes advantage of ML that can learn the complex relationships between the design and …

Groundwater Withdrawal Prediction Using Integrated Multitemporal Remote Sensing Data Sets And Machine Learning, S. Majumdar, Ryan G. Smith, J. J. Butler, V. Lakshmi

Geosciences and Geological and Petroleum Engineering Faculty Research & Creative Works

Effective monitoring of groundwater withdrawals is necessary to help mitigate the negative impacts of aquifer depletion. In this study, we develop a holistic approach that combines water balance components with a machine learning model to estimate groundwater withdrawals. We use both multitemporal satellite and modeled data from sensors that measure different components of the water balance and land use at varying spatial and temporal resolutions. These remote sensing products include evapotranspiration, precipitation, and land cover. Due to the inherent complexity of integrating these data sets and subsequently relating them to groundwater withdrawals using physical models, we apply random forests -- …

Incorporation Of A Machine Learning Algorithm With Object Detection Within The Thyroid Imaging Reporting And Data System Improves The Diagnosis Of Genetic Risk., Shuo Wang, Jiajun Xu, Aylin Tahmasebi, Kelly Daniels, Ji-Bin Liu, Joseph Curry, Elizabeth Cottrill, Andrej Lyshchik, John R Eisenbrey

Department of Radiology Faculty Papers

Background: The role of next generation sequencing (NGS) for identifying high risk mutations in thyroid nodules following fine needle aspiration (FNA) biopsy continues to grow. However, ultrasound diagnosis even using the American College of Radiology's Thyroid Imaging Reporting and Data System (TI-RADS) has limited ability to stratify genetic risk. The purpose of this study was to incorporate an artificial intelligence (AI) algorithm of thyroid ultrasound with object detection within the TI-RADS scoring system to improve prediction of genetic risk in these nodules.

Methods: Two hundred fifty-two nodules from 249 patients that underwent ultrasound imaging and ultrasound-guided FNA with NGS with …

Using Data Analytics To Predict Students Score, Nang Laik Ma, Gim Hong Chua

Research Collection School Of Computing and Information Systems

Education is very important to Singapore, and the government has continued to invest heavily in our education system to become one of the world-class systems today. A strong foundation of Science, Technology, Engineering, and Mathematics (STEM) was what underpinned Singapore's development over the past 50 years. PISA is a triennial international survey that evaluates education systems worldwide by testing the skills and knowledge of 15-year-old students who are nearing the end of compulsory education. In this paper, the authors used the PISA data from 2012 and 2015 and developed machine learning techniques to predictive the students' scores and understand the …

Base-Package Recommendation Framework Based On Consumer Behaviours In Iptv Platform, Kuruparan Shanmugalingam, Ruwinda Ranganayanke, Chanka Gunawardhaha, Rajitha Navarathna

Research Collection School Of Computing and Information Systems

Internet Protocol TeleVision (IPTV) provides many services such as live television streaming, time-shifted media, and Video On Demand (VOD). However, many customers do not engage properly with their subscribed packages due to a lack of knowledge and poor guidance. Many customers fail to identify the proper IPTV service package based on their needs and to utilise their current package to the maximum. In this paper, we propose a base-package recommendation model with a novel customer scoring-meter based on customers behaviour. Initially, our paper describes an algorithm to measure customers engagement score, which illustrates a novel approach to track customer engagement …

Characterization Of Indeterminate Breast Lesions On B-Mode Ultrasound Using Automated Machine Learning Models, Shuo Wang, Sihua Niu, Enze Qu, Flemming Forsberg, Annina Wilkes, Alexander Sevrukov, Kibo Nam, Robert F. Mattrey, Haydee Ojeda-Fournier, John R. Eisenbrey

Department of Radiology Faculty Papers

Purpose: While mammography has excellent sensitivity for the detection of breast lesions, its specificity is limited. Adjunct screening with ultrasound may partially alleviate this issue, but also increases false positives, resulting in unnecessary biopsies. This study investigated the use of Google AutoML Vision (Mountain View, CA), a commercially available machine learning service, to both identify and characterize indeterminate breast lesions on ultrasound.

Methods: B-mode images from 253 independent cases of indeterminate breast lesions scheduled for core biopsy were used for model creation and validation. The performances of two sub-models from AutoML Vision, the image classification model and object detection model …

A Review Of Integrative Imputation For Multi-Omics Datasets, Meng Song, Jonathan Greenbaum, Joseph Luttrell, Weihua Zhou, Chong Wu, Hui Shen, Ping Gong, Chaoyang Zhang, Hong Wen Deng

Michigan Tech Publications

Multi-omics studies, which explore the interactions between multiple types of biological factors, have significant advantages over single-omics analysis for their ability to provide a more holistic view of biological processes, uncover the causal and functional mechanisms for complex diseases, and facilitate new discoveries in precision medicine. However, omics datasets often contain missing values, and in multi-omics study designs it is common for individuals to be represented for some omics layers but not all. Since most statistical analyses cannot be applied directly to the incomplete datasets, imputation is typically performed to infer the missing values. Integrative imputation techniques which make use …

A Review Of Integrative Imputation For Multi-Omics Datasets, Meng Song, Jonathan Greenbaum, Joseph Luttrell, Weihua Zhou, Chong Wu, Hui Shen, Ping Gong, Chaoyang Zhang, Hong Wen Deng

Faculty Publications

Multi-omics studies, which explore the interactions between multiple types of biological factors, have significant advantages over single-omics analysis for their ability to provide a more holistic view of biological processes, uncover the causal and functional mechanisms for complex diseases, and facilitate new discoveries in precision medicine. However, omics datasets often contain missing values, and in multi-omics study designs it is common for individuals to be represented for some omics layers but not all. Since most statistical analyses cannot be applied directly to the incomplete datasets, imputation is typically performed to infer the missing values. Integrative imputation techniques which make use …

A Bibliometric Survey On The Reliable Software Delivery Using Predictive Analysis, Jalaj Pachouly, Swati Ahirrao, Ketan Kotecha

Library Philosophy and Practice (e-journal)

Delivering a reliable software product is a fairly complex process, which involves proper coordination from the various teams in planning, execution, and testing for delivering software. Most of the development time and the software budget's cost is getting spent finding and fixing bugs. Rework and side effect costs are mostly not visible in the planned estimates, caused by inherent bugs in the modified code, which impact the software delivery timeline and increase the cost. Artificial intelligence advancements can predict the probable defects with classification based on the software code changes, helping the software development team make rational decisions. Optimizing the …

Short-Term Intersection Traffic Flow Forecasting, Wenrui Qu, Jinhong Li, Lu Yang, Delin Li, Shasha Liu, Qun Zhao, Yi Qi

Faculty Publications

The intersection is a bottleneck in an urban roadway network. As traffic demand increases, there is a growing congestion problem at urban intersections. Short-term traffic flow forecasting is crucial for advanced trip planning and traffic management. However, there are only a handful of existing models for forecasting intersection traffic flow. In addition, previous short-term traffic flow forecasting models usually were for predicting roadway conditions in a very short period, such as one minute or five minutes, which is often too late given that a driver may well be approaching the bottleneck already. Being able to accurately predict traffic congestions in …

Predictive Modeling For Occupational Safety Outcomes And Days Away From Work Analysis In Mining Operations, Anurag Yedla, Fatemeh Davoudi Kakhki, Ali Jannesari

Faculty Research, Scholarly, and Creative Activity

Mining is known to be one of the most hazardous occupations in the world. Many serious accidents have occurred worldwide over the years in mining. Although there have been efforts to create a safer work environment for miners, the number of accidents occurring at the mining sites is still significant. Machine learning techniques and predictive analytics are becoming one of the leading resources to create safer work environments in the manufacturing and construction industries. These techniques are leveraged to generate actionable insights to improve decision-making. A large amount of mining safety-related data are available, and machine learning algorithms can be …

European Floating Strike Lookback Options: Alpha Prediction And Generation Using Unsupervised Learning, Tristan Lim, Aldy Gunawan, Chin Sin Ong

Research Collection School Of Computing and Information Systems

This research utilized the intrinsic quality of European floating strike lookback call options, alongside selected return and volatility parameters, in a K-means clustering environment, to recommend an alpha generative trading strategy. The result is an elegant easy-to-use alpha strategy based on the option mechanisms which identifies investment assets with high degree of significance. In an upward trending market, the research had identified European floating strike lookback call option as an evaluative criterion and investable asset, which would both allow investors to predict and profit from alpha opportunities. The findings will be useful for (i) buy-side investors seeking alpha generation and/or …

Integrated Multiparametric Radiomics And Informatics System For Characterizing Breast Tumor Characteristics With The Oncotypedx Gene Assay, Michael A. Jacobs, Christopher B. Umbricht, Vishwa S. Parekh, Riham H. El Khouli, Leslie Cope, Katarzyna J. Macura, Susan Harvey, Antonio C. Wolff

Radiology Faculty Publications

Optimal use of multiparametric magnetic resonance imaging (mpMRI) can identify key MRI parameters and provide unique tissue signatures defining phenotypes of breast cancer. We have developed and implemented a new machine-learning informatic system, termed Informatics Radiomics Integration System (IRIS) that integrates clinical variables, derived from imaging and electronic medical health records (EHR) with multiparametric radiomics (mpRad) for identifying potential risk of local or systemic recurrence in breast cancer patients. We tested the model in patients (n = 80) who had Estrogen Receptor positive disease and underwent OncotypeDX gene testing, radiomic analysis, and breast mpMRI. The IRIS method was trained …

Classifying Reflectance Targets Under Ambient Light Conditions Using Passive Spectral Measurements, Ali Hamidisepehr, Michael P. Sama, Joseph S. Dvorak, Ole O. Wendroth, Michael D. Montross

Biosystems and Agricultural Engineering Faculty Publications

Collecting remotely sensed spectral data under varying ambient light conditions is challenging. The objective of this study was to test the ability to classify grayscale targets observed by portable spectrometers under varying ambient light conditions. Two sets of spectrometers covering ultraviolet (UV), visible (VIS), and near−infrared (NIR) wavelengths were instrumented using an embedded computer. One set was uncalibrated and used to measure the raw intensity of light reflected from a target. The other set was calibrated and used to measure downwelling irradiance. Three ambient−light compensation methods that successively built upon each other were investigated. The default method used a variable …

Developing Employment Environments Where Individuals With Asd Thrive: Using Machine Learning To Explore Employer Policies And Practices, Amy Jane Griffiths, Amy E. Hurley Hanson, Cristina M. Giannantonio, Sneha Kohli Mathur, Kayleigh Hyde, Erik Linstead

Education Faculty Articles and Research

An online survey instrument was developed to assess employers’ perspectives on hiring job candidates with Autism Spectrum Disorder (ASD). The investigators used K-means clustering to categorize companies in clusters based on their hiring practices related to individuals with ASD. This methodology allowed the investigators to assess and compare the various factors of businesses that successfully hire employees with ASD versus those that do not. The cluster analysis indicated that company structures, policies and practices, and perceptions, as well as the needs of employers and employees, were important in determining who would successfully hire individuals with ASD. Key areas that require …

Exploring The Eating Disorder Examination Questionnaire, Clinical Impairment Assessment, And Autism Quotient To Identify Eating Disorder Vulnerability: A Cluster Analysis, Natalia Stewart Rosenfield, Erik Linstead

Engineering Faculty Articles and Research

Eating disorders are very complicated and many factors play a role in their manifestation. Furthermore, due to the variability in diagnosis and symptoms, treatment for an eating disorder is unique to the individual. As a result, there are numerous assessment tools available, which range from brief survey questionnaires to in-depth interviews conducted by a professional. One of the many benefits to using machine learning is that it offers new insight into datasets that researchers may not previously have, particularly when compared to traditional statistical methods. The aim of this paper was to employ k-means clustering to explore the Eating Disorder …

Short-Term Load Forecasting Of Microgrid Via Hybrid Support Vector Regression And Long Short-Term Memory Algorithms, Arash Moradzadeh, Sahar Zakeri, Maryam Shoaran, Behnam Mohammadi-Ivatloo, Fazel Mohammadi

Electrical and Computer Engineering Publications

© 2020 by the authors. Short-Term Load Forecasting (STLF) is the most appropriate type of forecasting for both electricity consumers and generators. In this paper, STLF in a Microgrid (MG) is performed via the hybrid applications of machine learning. The proposed model is a modified Support Vector Regression (SVR) and Long Short-Term Memory (LSTM) called SVR-LSTM. In order to forecast the load, the proposed method is applied to the data related to a rural MG in Africa. Factors influencing the MG load, such as various household types and commercial entities, are selected as input variables and load profiles as target …

Automatic Traffic Monitoring And Management For Pedestrian And Cyclist Safety Using Deep Learning And Artificial Intelligence, Mohammad Pourhomayoun

Mineta Transportation Institute

In this project, we have designed and developed an effective end-to-end system based on advanced Artificial Intelligence (AI), machine learning, and computer vision to automatically monitor, detect, track, and count pedestrians and bicyclists. The main objective of this project is to improve the safety of pedestrians and bicyclists, by applying self-sensed and AI-powered systems to monitor and control the flow of pedestrians/bicyclists. The developed system includes algorithms for detecting the pedestrians and bicyclists, as well as algorithms for tracking and counting the pedestrians. We evaluated the developed system on real videos captured by actual traffic cameras in the city of …