Numerical Analysis and Scientific Computing Commons^™

Design And Implementation Of A Stand-Alone Tool For Metabolic Simulations, Milad Ghiasi Rad

School of Computing: Dissertations, Theses, and Student Research

In this thesis, we present the design and implementation of a stand-alone tool for metabolic simulations. This system is able to integrate custom-built SBML models along with external user’s input information and produces the estimation of any reactants participating in the chain of the reactions in the provided model, e.g., ATP, Glucose, Insulin, for the given duration using numerical analysis and simulations. This tool offers the food intake arguments in the calculations to consider the personalized metabolic characteristics in the simulations. The tool has also been generalized to take into consideration of temporal genomic information and be flexible for simulation …

Study Of Self-Similarity In Brain Data, Jennifer Holst

Student Theses

In the area of computer science, past research has found that the concept of self-similarity is present in local and Internet-based network traffic. This study considers the possibility that data traveling through the neuronal network in the human brain is also self-similar. By analyzing publicly available raw EEG data and estimating its Hurst parameter, we find indications that brain data traffic may in fact be self-similar.

Online Learning With Nonlinear Models, Doyen Sahoo

Dissertations and Theses Collection (Open Access)

Recent years have witnessed the success of two broad categories of machine learning algorithms: (i) Online Learning; and (ii) Learning with nonlinear models. Typical machine learning algorithms assume that the entire data is available prior to the training task. This is often not the case in the real world, where data often arrives sequentially in a stream, or is too large to be stored in memory. To address these challenges, Online Learning techniques evolved as a promising solution to having highly scalable and efficient learning methodologies which could learn from data arriving sequentially. Next, as the real world data exhibited …

Pose Guided Person Image Generation, Liqian Ma, Xu Jia, Qianru Sun, Bernt Schiele, Tinne Tuytelaars, Luc Van Gool

Research Collection School Of Computing and Information Systems

This paper proposes the novel Pose Guided Person Generation Network (PG$^2$) that allows to synthesize person images in arbitrary poses, based on an image of that person and a novel pose. Our generation framework PG^2 utilizes the pose information explicitly and consists of two key stages: pose integration and image refinement. In the first stage the condition image and the target pose are fed into a U-Net-like network to generate an initial but coarse image of the person with the target pose. The second stage then refines the initial and blurry result by training a U-Net-like generator in an adversarial …

Multilingual Sentiment Analysis : From Formal To Informal And Scarce Resource Languages, Siaw Ling Lo, Erik Cambria, Raymond Chiong, David Cornforth

Research Collection School Of Computing and Information Systems

The ability to analyse online user-generated content related to sentiments (e.g., thoughts and opinions) on products or policies has become a de-facto skillset for many companies and organisations. Besides the challenge of understanding formal textual content, it is also necessary to take into consideration the informal and mixed linguistic nature of online social media languages, which are often coupled with localised slang as a way to express ‘true’ feelings. Due to the multilingual nature of social media data, analysis based on a single official language may carry the risk of not capturing the overall sentiment of online content. While efforts …

Leveraging Auxiliary Tasks For Document-Level Cross-Domain Sentiment Classification, Jianfei Yu, Jing Jiang

Research Collection School Of Computing and Information Systems

In this paper, we study domain adaptationwith a state-of-the-art hierarchicalneural network for document-level sentimentclassification. We first design a newauxiliary task based on sentiment scoresof domain-independent words. We thenpropose two neural network architecturesto respectively induce document embeddingsand sentence embeddings that workwell for different domains. When thesedocument and sentence embeddings areused for sentiment classification, we findthat with both pseudo and external sentimentlexicons, our proposed methods canperform similarly to or better than severalhighly competitive domain adaptationmethods on a benchmark dataset of productreviews.

Inferring Social Media Users’ Demographics From Profile Pictures: A Face++ Analysis On Twitter Users, Soon-Gyo Jung, Jisun An, Haewoon Kwak, Joni Salminen, Bernard J. Jansen

Research Collection School Of Computing and Information Systems

In this research, we evaluate the applicability of using facial recognition of social media account profile pictures to infer the demographic attributes of gender, race, and age of the account owners leveraging a commercial and well-known image service, specifically Face++. Our goal is to determine the feasibility of this approach for actual system implementation. Using a dataset of approximately 10,000 Twitter profile pictures, we use Face++ to classify this set of images for gender, race, and age. We determine that about 30% of these profile pictures contain identifiable images of people using the current state-of-the-art automated means. We then employ …

A Compact Representation Of Human Actions By Sliding Coordinate Coding, Runwei Ding, Qianru Sun, Mengyuan Liu, Hong Liu

Research Collection School Of Computing and Information Systems

Human action recognition remains challenging in realistic videos, where scale and viewpoint changes make the problem complicated. Many complex models have been developed to overcome these difficulties, while we explore using low-level features and typical classifiers to achieve the state-of-the-art performance. The baseline model of feature encoding for action recognition is bag-of-words model, which has shown high efficiency but ignores the arrangement of local features. Refined methods compensate for this problem by using a large number of co-occurrence descriptors or a concatenation of the local distributions in designed segments. In contrast, this article proposes to encode the relative position of …

Extracting Implicit Suggestions From Students’ Comments: A Text Analytics Approach, Venky Shankararaman, Swapna Gottipati, Jeff Rongsheng Lin, Sandy Gan

Research Collection School Of Computing and Information Systems

At the end of each course, students are required to give feedback on the course and instructor. This feedback includes quantitative rating using Likert scale and qualitative feedback as comments. Such qualitative feedback can provide valuable insights in helping the instructor enhance the course content and teaching delivery. However, the main challenge in analysing the qualitative feedback is the perceived increase in time and effort needed to manually process the textual comments. In this paper, we provide an automated solution for analysing comments, specifically extracting implicit suggestions from the students’ qualitative feedback comments. The implemented solution leverages existing text mining …

Examining The Electrical Excitation, Calcium Signaling, And Mechanical Contraction Cycle In A Heart Cell, Kristen Deetz, Nygel Foster, Darius Leftwich, Chad Meyer, Shalin Patel, Carlos Barajas, Matthias K. Gobbert, Zana Coulibaly

Spora: A Journal of Biomathematics

As the leading cause of death in the United States, heart disease has become a principal concern in modern society. Cardiac arrhythmias can be caused by a dysregulation of calcium dynamics in cardiomyocytes. Calcium dysregulation, however, is not yet fully understood and is not easily predicted; this provides motivation for the subsequent research. Excitation-contraction coupling (ECC) is the process through which cardiomyocytes undergo contraction from an action potential. Calcium induced calcium release (CICR) is the mechanism through which electrical excitation is coupled with mechanical contraction through calcium signaling. The study of the interplay between electrical excitation, calcium signaling, and mechanical …

Perfect Ratings With Negative Comments: Learning From Contradictory Patient Survey Responses, Andrew S. Gallan, Marina Girju, Roxana Girju

Patient Experience Journal

This research explores why patients give perfect domain scores yet provide negative comments on surveys. In order to explore this phenomenon, vendor-supplied in-patient survey data from eleven different hospitals of a major U.S. health care system were utilized. The dataset included survey scores and comments from 56,900 patients, collected from January 2015 through October 2016. Of the total number of responses, 30,485 (54%) contained at least one comment. For our analysis, we use a two-step approach: a quantitative analysis on the domain scores augmented by a qualitative text analysis of patients’ comments. To focus the research, we start by building …

Teaching Stats For Data Science, Daniel Kaplan

Faculty Publications

“Data science” is a useful catchword for methods and concepts original to the field of statistics, but typically being applied to large, multivariate, observational records. Such datasets call for techniques not often part of an introduction to statistics: modeling, consideration of covariates, sophisticated visualization, and causal reasoning. This article re-imagines introductory statistics as an introduction to data science and proposes a sequence of 10 blocks that together compose a suitable course for extracting information from contemporary data. Recent extensions to the mosaic packages for R together with tools from the “tidyverse” provide a concise and readable notation for wrangling, visualization, …

A High Quality, Eulerian 3d Fluid Solver In C++, Lejon Anthony Mcgowan

Computer Science and Software Engineering

Fluids are a part of everyday life, yet are one of the hardest elements to properly render in computer graphics. Water is the most obvious entity when thinking of what a fluid simulation can achieve (and it is indeed the focus of this project), but many other aspects of nature, like fog, clouds, and particle effects. Real-time graphics like video games employ many heuristics to approximate these effects, but large-scale renderers aim to simulate these effects as closely as possible.

In this project, I wish to achieve effects of the latter nature. Using the Eulerian technique of discrete grids, I …

Semvis: Semantic Visualization For Interactive Topical Analysis, Le Van Minh Tuan, Hady Wirawan Lauw

Research Collection School Of Computing and Information Systems

Exploratory analysis of a text corpus is an important task that can be aided by informative visualization. One spatially-oriented form of document visualization is a scatterplot, whereby every document is associated with a coordinate, and relationships among documents can be perceived through their spatial distances. Semantic visualization further infuses the visualization space with latent semantics, by incorporating a topic model that has a representation in the visualization space, allowing users to also perceive relationships between documents and topics spatially. We illustrate how a semantic visualization system called SemVis could be used to navigate a text corpus interactively and topically via …

Predicting Indoor Crowd Density Using Column-Structured Deep Neural Network, Akihito Sudo, Teck Hou (Deng Dehao) Teng, Hoong Chuin Lau, Yoshihide Sekimoto

Research Collection School Of Computing and Information Systems

This work proposes a deep neural network approach known as the column-structured deep neural network (COL-DNN-R) for predicting crowd density in an indoor environment using historical Wi-Fi traces of individual visitors. With a structure designed to minimize feature engineering, COL-DNN accepts raw features such as crowd density, opening and closing hours and peak visitor counts for extracting features. The extracted features are used by a regression model R for predicting the crowd densities. Standard regression models such as MLP, RF and SVM can be used as R. Experiments are performed to investigate the effect of feature representation and model structure …

Second-Order Online Active Learning And Its Applications, Shuji Hao, Jing Lu, Peilin Zhao, Chi Zhang, Steven C. H. Hoi, Chunyan Miao

Research Collection School Of Computing and Information Systems

The goal of online active learning is to learn predictive models from a sequence of unlabeled data given limited label querybudget. Unlike conventional online learning tasks, online active learning is considerably more challenging because of two reasons.Firstly, it is difficult to design an effective query strategy to decide when is appropriate to query the label of an incoming instance givenlimited query budget. Secondly, it is also challenging to decide how to update the predictive models effectively whenever the true labelof an instance is queried. Most existing approaches for online active learning are often based on a family of first-order online …

Highly Efficient Mining Of Overlapping Clusters In Signed Weighted Networks, Tuan-Anh Hoang, Ee-Peng Lim

Research Collection School Of Computing and Information Systems

In many practical contexts, networks are weighted as their links are assigned numerical weights representing relationship strengths or intensities of inter-node interaction. Moreover, the links' weight can be positive or negative, depending on the relationship or interaction between the connected nodes. The existing methods for network clustering however are not ideal for handling very large signed weighted networks. In this paper, we present a novel method called LPOCSIN (short for "Linear Programming based Overlapping Clustering on Signed Weighted Networks") for efficient mining of overlapping clusters in signed weighted networks. Different from existing methods that rely on computationally expensive cluster cohesiveness …

Text Analysis In R, Kasper Welbers, Wouter Van Atteveldt, Kenneth Benoit

Research Collection School of Social Sciences

Computational text analysis has become an exciting research field with many applications in communication research. It can be a difficult method to apply, however, because it requires knowledge of various techniques, and the software required to perform most of these techniques is not readily available in common statistical software packages. In this teacher’s corner, we address these barriers by providing an overview of general steps and operations in a computational text analysis project, and demonstrate how each step can be performed using the R statistical software. As a popular open-source platform, R has an extensive user community that develops and …

On Analyzing Job Hop Behavior And Talent Flow Networks, Richard J. Oentaryo, Xavier Jayaraj Siddarth Ashok, Ee-Peng Lim, Philips Kokoh Prasetyo

Research Collection School Of Computing and Information Systems

Analyzing job hopping behavior is important for theunderstanding of job preference and career progression of working individuals.When analyzed at the workforce population level, job hop analysis helps to gaininsights of talent flow and organization competition. Traditionally, surveysare conducted on job seekers and employers to study job behavior. While surveysare good at getting direct user input to specially designed questions, they areoften not scalable and timely enough to cope with fast-changing job landscape.In this paper, we present a data science approach to analyze job hops performedby about 490,000 working professionals located in a city using their publiclyshared profiles. We develop several …

Collaborative Topic Regression With Denoising Autoencoder For Content And Community Co-Representation, Trong T. Nguyen, Hady W. Lauw

Research Collection School Of Computing and Information Systems

Personalized recommendation of items frequently faces scenarios where we have sparse observations on users' adoption of items. In the literature, there are two promising directions. One is to connect sparse items through similarity in content. The other is to connect sparse users through similarity in social relations. We seek to integrate both types of information, in addition to the adoption information, within a single integrated model. Our proposed method models item content via a topic model, and user communities via an autoencoder model, while bridging a user's community-based preference to her topic-based preference. Experiments on public real-life data showcase the …

Indexable Bayesian Personalized Ranking For Efficient Top-K Recommendation, Dung D. Le, Hady W. Lauw

Research Collection School Of Computing and Information Systems

Top-k recommendation seeks to deliver a personalized recommendation list of k items to a user. The dual objectives are (1) accuracy in identifying the items a user is likely to prefer, and (2) efficiency in constructing the recommendation list in real time. One direction towards retrieval efficiency is to formulate retrieval as approximate k nearest neighbor (kNN) search aided by indexing schemes, such as locality-sensitive hashing, spatial trees, and inverted index. These schemes, applied on the output representations of recommendation algorithms, speed up the retrieval process by automatically discarding a large number of potentially irrelevant items when given a user …

Answerbot: Automated Generation Of Answer Summary To Developers’ Technical Questions, Bowen Xu, Zhenchang Xing, Xin Xia, David Lo

Research Collection School Of Computing and Information Systems

The prevalence of questions and answers on domain-specific Q&A sites like Stack Overflow constitutes a core knowledge asset for software engineering domain. Although search engines can return a list of questions relevant to a user query of some technical question, the abundance of relevant posts and the sheer amount of information in them makes it difficult for developers to digest them and find the most needed answers to their questions. In this work, we aim to help developers who want to quickly capture the key points of several answer posts relevant to a technical question before they read the details …

A Fast Trajectory Outlier Detection Approach Via Driving Behavior Modeling, Hao Wu, Weiwei Sun, Baihua Zheng

Research Collection School Of Computing and Information Systems

Trajectory outlier detection is a fundamental building block for many location-based service (LBS) applications, with a large application base. We dedicate this paper on detecting the outliers from vehicle trajectories efficiently and effectively. In addition, we want our solution to be able to issue an alarm early when an outlier trajectory is only partially observed (i.e., the trajectory has not yet reached the destination). Most existing works study the problem on general Euclidean trajectories and require accesses to the historical trajectory database or computations on the distance metric that are very expensive. Furthermore, few of existing works consider some specific …

Distributed Evolution Of Spiking Neuron Models On Apache Mahout For Time Series Analysis, Andrew Palumbo

Annual Symposium on Biomathematics and Ecology Education and Research

No abstract provided.

Visual Sentiment Analysis For Review Images With Item-Oriented And User-Oriented Cnn, Quoc Tuan Truong, Hady W. Lauw

Research Collection School Of Computing and Information Systems

Online reviews are prevalent. When recounting their experience with a product, service, or venue, in addition to textual narration, a reviewer frequently includes images as photographic record. While textual sentiment analysis has been widely studied, in this paper we are interested in visual sentiment analysis to infer whether a given image included as part of a review expresses the overall positive or negative sentiment of that review. Visual sentiment analysis can be formulated as image classification using deep learning methods such as Convolutional Neural Networks or CNN. However, we observe that the sentiment captured within an image may be affected …

On Negative Results When Using Sentiment Analysis Tools For Software Engineering Research, Robbert Jongeling, Proshanta Sarkar, Subhajit Datta, Alexander Serebrenik

Research Collection School Of Computing and Information Systems

Recent years have seen an increasing attention to social aspects of software engineering, including studies of emotions and sentiments experienced and expressed by the software developers. Most of these studies reuse existing sentiment analysis tools such as SentiStrength and NLTK. However, these tools have been trained on product reviews and movie reviews and, therefore, their results might not be applicable in the software engineering domain. In this paper we study whether the sentiment analysis tools agree with the sentiment recognized by human evaluators (as reported in an earlier study) as well as with each other. Furthermore, we evaluate the impact …

A Conceptual Framework For Analyzing Students' Feedback, Venky Shankararaman, Swapna Gottipati, Sandy Gan

Research Collection School Of Computing and Information Systems

In academic institutions it is normal practice that at the end of each term,students are required to complete a questionnaire that is designed to gather students’perceptions of the instructor and their learning experience in the course. This questionnaire comprises of Likert-scale questions and qualitative questions.One of the important goals of this exercise is to enable the instructor and the senior management to examine the feedback and then enhance students’ learning experience. In most universities, including our own, a lot of attention is paid to the quantitative feedback, which is summarized and statistical comparisons are computed, analysed and presented. However, the …

Systematic Analysis Of Enterprise Perception Towards Cloud Adoption In The African States: The Nigerian Perspective, George A. Oguntala, Prof. Raed A. Abd-Alhameed, Dr. Janet O. Odeyemi

The African Journal of Information Systems

The desirous benefits of cloud computing such as high return on investment through efficient resource management, high application throughput and on-demand capabilities have resulted in the unprecedented global acceptance of the computing paradigm. However, research on cloud adoption indicates that fewer organisations in the African states are adopting cloud services. Thus, the purview of the paper is to examine the factors responsible for the poor adoption of cloud computing in most African enterprises using Nigeria as a case study. The study focus on the perception of IT and non-IT employees towards cloud computing. Moreover, the paper reviews the literature on …

Graphh: High Performance Big Graph Analytics In Small Clusters, Peng Sun, Yonggang Wen, Nguyen Binh Duong Ta, Xiaokui Xiao

Research Collection School Of Computing and Information Systems

It is common for real-world applications to analyze big graphs using distributed graph processing systems. Popular in-memory systems require an enormous amount of resources to handle big graphs. While several out-of-core approaches have been proposed for processing big graphs on disk, the high disk I/O overhead could significantly reduce performance. In this paper, we propose GraphH to enable highperformance big graph analytics in small clusters. Specifically, we design a two-stage graph partition scheme to evenly divide the input graph into partitions, and propose a GAB (GatherApply-Broadcast) computation model to make each worker process a partition in memory at a time. …

Machine Learning Approach To Retrieving Physical Variables From Remotely Sensed Data, Fazlul Shahriar

Dissertations, Theses, and Capstone Projects

Scientists from all over the world make use of remotely sensed data from hundreds of satellites to better understand the Earth. However, physical measurements from an instrument is sometimes missing either because the instrument hasn't been launched yet or the design of the instrument omitted a particular spectral band. Measurements received from the instrument may also be corrupt due to malfunction in the detectors on the instrument. Fortunately, there are machine learning techniques to estimate the missing or corrupt data. Using these techniques we can make use of the available data to its full potential.

We present work on four …