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Scientific Software Communities [Guest Editor Introduction], Andy Terrel, Michael Tobis, George K. Thiruvathukal

Computer Science: Faculty Publications and Other Works

Guest editor introduction

Audit, Accountability And Commitment: School Business Officials' Perceptions Of An Audit Regime, Michael A. Torak

Dissertations - ALL

Prior research has suggested that models intended to explain the organizational commitment of public employees have not accounted for the substantial and often intense external controls imposed on public organizations. A public scandal involving corruption and mismanagement in a New York State public school district resulted in the state legislature implementing a program of reforms intended to increase the financial accountability of public school districts. The aim of this exploratory, multi-subject qualitative study is to gain insight about how financial managers in public school districts experienced the reform and think about external controls that feature an extensive regimen of auditing. …

Controlling Microbial Multicellular Behaviors With Saccharide Derivatives, Nischal Singh

Dissertations - ALL

Microbial multicellular behaviors like biofilm formation and swarming motility are known to increase their tolerance against antimicrobials. From microbial standpoint, nonmicrobicidal agents that do not impede growth are tolerable and therefore, there is a lower propensity to develop resistance against such agents as compared to microbicidal ones (antibiotics). This study describes a new antibiofilm approach of using nonmicrobicidal saccharide derivatives for controlling the multicellular behaviors of gram-negative bacteria, Pseudomonas aeruginosa and fungus, Candida albicans.

Pseudomonas aeruginosa is known to secrete rhamnolipids, a class of biosurfactants that plays an important role in maintaining the architecture of its biofilm and promoting its …

Development Of Improved Methodologies Toward The Formation Of C-C And C-N Bonds, Ijaz Ahmed

Dissertations - ALL

Organometallic chemistry provides valuable tools for the formation of carbon-carbon and carbon-heteroatom bonds that would otherwise require multiple steps and resources to achieve through conventional methods. Studies toward the regioselective and stereoselective formation these types of bonds using different organometallic methods will be presented. Three focal areas have been studied: C-N bond formation, C-H borylation, and silylvinylation of alkynes.

In Chapter 1, palladium-catalyzed amidation has been used to effectively form C-N bonds toward the synthesis of valuable imidazo[4,5-b]pyridines and imidazo[4,5-c]pyridines. The reaction conditions are tolerable for a variety of N-substituted-3-amino-2-chloropyridines. All current routes to expand the substrate scope in regards …

Change Point Detection And Estimation In Sequences Of Dependent Random Variables, Benjamin Cortese

Dissertations - ALL

Two change point detection and estimation procedures for sequences of dependent binary random variables are proposed and their asymptotic properties are explored. The two procedures are a dependent cumulative sum statistic (DCUSUM) and a dependent likelihood ratio test (LRT) statistic, which are generalizations of the independent CUSUM and LRT statistics.

A one step Markov dependence is assumed between consecutive variables in the sequence, and the performance of the DCUSUM and dependent LRT are shown to have substantially better size and power performance than their independent counterparts. In most cases, a comparison of the dependent procedures via simulation shows that the …

Modulation And Interactions Of Charged Biomimetic Membranes With Bivalent Ions, Adolphe Kazadi Badiambile

Dissertations - ALL

The biological membrane of an eukaryotic cell is a two-dimensional structure of mostly phospholipids with embedded proteins. This two-dimensional structure plays many key roles in the life of a cell. Transmembrane proteins, for example, play the role of a gate for different ions (such as Ca2+). Also found are peripheral proteins that are used as enzymes for different purposes in the inner leaflet of the plasma membrane. Phospholipids, in particular play three key roles. Firstly, some members of this group are used to store energy. Secondly, the hydrophobic and hydrophilic properties inherent to phospholipids enable them to be used as …

Mechanics, Shape, And Programmability In Soft Matter Systems: From Fluid Membranes To Spring And Droplet Networks, Tao Zhang

Dissertations - ALL

This thesis analyzes three different soft matter systems---membranes, polymers, and droplets---to answer questions about shape, mechanics, and programmability.

For membranes, my collaborators and I have developed a theoretical model of endocytosis in yeast. Endocytosis is the process by which a cell membrane deforms to surround extracellular material to draw it into the cell. Endocytosis in yeast involves clathrin, actin, and Bar proteins. Our model breaks up the process into three stages: (i) initiation, where clathrin interacts with the cell membrane via adaptor proteins, (ii) elongation, where the membrane is then further deformed by polymerizing actin filaments, followed by (iii) pinch-off. …

Students' Attitudes Towards Socially--But Not Scientifically--Controversial Subjects: Evaluating Ways In Which These Attitudes May Be Shifted, Benjamin Elijah Carter

Dissertations - ALL

Chapter1: Numerous anti-science bills introduced into state legislatures reference the "strengths and weaknesses" of scientific subjects, but the subjects they target, most commonly evolution and global climate change, are not topics of contention within the scientific community. This brief work provides a researched rebuttal to the notion that evolution and climate change have strengths and weaknesses of the form implied by anti-science legislation while providing examples of actual scientific disagreement about these subjects. The disagreement is not, of course, about whether or not evolution or climate change are factual occurrences, but rather over ideas such as the finer points of …

Comparison Of Cost Function Against Positional Analysis For Automated Tracking Of Three-Cell Interactions, Ye He

Dissertations - ALL

Localization and tracking of cells generates raw digital information from microscopy images, including images of stained nuclei and highly precise determination of central positions of cells, which can be analyzed for investigation of cell motility. In a previous study by this group, an algorithm termed automated contour-based tracking for in vitro environments (ACTIVE) was established for tracking large cell populations for long periods of time. For the two-cell interaction events on which ACTIVE was initially focused, error rate was reduced as much as 43% compared to a traditional positional analysis algorithm by Kilfoil and colleagues. In the present thesis, we …

Essays On Local Political Economy In Brazil And The United States, Evan Andrews

Dissertations - ALL

This dissertation covers different aspects of political institutions and fiscal policy in local governments. The first essay examines the political consequences of an increase in the district magnitude (the number of open seats) for legislatures. The second essay studies how the size of a local legislature affects the size and composition of public spending. The third essay develops and tests a theory of how transaction costs might affect the use of earmarked revenues by local budgeting authorities. The last essay compares the relative impacts of factors that might make a local government more likely to adopt own-source revenues. These questions …

Geometry Dependence Of The Sign Problem In Quantum Monte Carlo Simulations, V. Iglovikov, Ehsan Khatami, R. Scalettar

Faculty Publications

The sign problem is the fundamental limitation to quantum Monte Carlo simulations of the statistical mechanics of interacting fermions. Determinant quantum Monte Carlo (DQMC) is one of the leading methods to study lattice fermions, such as the Hubbard Hamiltonian, which describe strongly correlated phenomena including magnetism, metal-insulator transitions, and possibly exotic superconductivity. Here, we provide a comprehensive dataset on the geometry dependence of the DQMC sign problem for different densities, interaction strengths, temperatures, and spatial lattice sizes. We supplement these data with several observations concerning general trends in the data, including the dependence on spatial volume and how this can …

Finite-Temperature Superconducting Correlations Of The Hubbard Model, Ehsan Khatami, Richard Scalettar, Rajiv Singh

Faculty Publications

We utilize numerical linked-cluster expansions (NLCEs) and the determinantal quantum Monte Carlo algorithm to study pairing correlations in the square-lattice Hubbard model. To benchmark the NLCE, we first locate the finite-temperature phase transition of the attractive model to a superconducting state away from half filling. We then explore the superconducting properties of the repulsive model for the d-wave and extended s-wave pairing symmetries. The pairing structure factor shows a strong tendency to d-wave pairing and peaks at an interaction strength comparable to the bandwidth. The extended s-wave structure factor and correlation length are larger at higher temperatures but clearly saturate …

Spectroscopic Confirmation Of The Existence Of Large, Diffuse Galaxies In The Coma Cluster, Pieter Van Dokkum, Aaron Romanowsky, Roberto Abraham, Jean Brodie, Charlie Conroy, Marla Geha, Allison Merritt, Alexa Villaume, Jielai Zhang

Faculty Publications

No abstract provided.

The Scientist, 2015, San Jose State University, College Of Science

The Scientist (College of Science)

No abstract provided.

Identification And Exploitation Of Inadvertent Spectral Artifacts In Digital Audio, N. C. Donnangelo, W. S. Kuklinski, R. Szabo, R. A. Coury, G. R. Hamshar

Journal of Digital Forensics, Security and Law

We show that modulation products from local oscillators in a variety of commercial camcorders are coupled into the recorded audio track, creating narrow band time invariant spectral features. These spectral features, left largely intact by transcoding, compression and other forms of audiovisual post processing, can encode characteristics of specific camcorders used to capture the audio files, including the make and model. Using data sets both downloaded from YouTube and collected under controlled laboratory conditions we demonstrate an average probability of detection (Pd) approaching 0.95 for identification of a specific camcorder in a population of thousands of similar recordings, with a …

Computer Forensic Projects For Accountants, Grover S. Kearns

Journal of Digital Forensics, Security and Law

Digital attacks on organizations are becoming more common and more sophisticated. Firms are interested in providing data security and having an effective means to respond to attacks. Accountants possess important investigative and analytical skills that serve to uncover fraud in forensic investigations. Some accounting students take courses in forensic accounting but few colleges offer a course in computer forensics for accountants. Educators wishing to develop such a course may find developing the curriculum daunting. A major element of such a course is the use of forensic software. This paper argues the importance of computer forensics to accounting students and offers …

Data Loss Prevention Management And Control: Inside Activity Incident Monitoring, Identification, And Tracking In Healthcare Enterprise Environments, Manghui Tu, Kimberly Spoa-Harty, Liangliang Xiao

Journal of Digital Forensics, Security and Law

As healthcare data are pushed online, consumers have raised big concerns on the breach of their personal information. Law and regulations have placed businesses and public organizations under obligations to take actions to prevent data breach. Among various threats, insider threats have been identified to be a major threat on data loss. Thus, effective mechanisms to control insider threats on data loss are urgently needed. The objective of this research is to address data loss prevention challenges in healthcare enterprise environment. First, a novel approach is provided to model internal threat, specifically inside activities. With inside activities modeling, data …

Rules Of Professional Responsibility In Digital Forensics: A Comparative Analysis, Filipo Sharevski

Journal of Digital Forensics, Security and Law

The consolidation of the rules of professional responsibility as recommended by the Committee on Identifying the Needs of Forensic Sciences Community (2009) accents the establishment of an uniform code of ethics emphasizing the importance of enforceability in strengthening the role the forensic science plays within the criminal justice system. Equally pertinent for the domain of digital forensics, this imperative entails a research commitment in comparing and contrasting the respective codes of ethics to illustrate their “variety, specificity and enforceability” in order to inform the discussion on the regulative aspects of the digital forensic discipline. Accordingly, this paper reviews the professional …

On The Network Performance Of Digital Evidence Acquisition Of Small Scale Devices Over Public Networks, Irvin Homem, Spyridon Dosis

Journal of Digital Forensics, Security and Law

While cybercrime proliferates – becoming more complex and surreptitious on the Internet – the tools and techniques used in performing digital investigations are still largely lagging behind, effectively slowing down law enforcement agencies at large. Real-time remote acquisition of digital evidence over the Internet is still an elusive ideal in the combat against cybercrime. In this paper we briefly describe the architecture of a comprehensive proactive digital investigation system that is termed as the Live Evidence Information Aggregator (LEIA). This system aims at collecting digital evidence from potentially any device in real time over the Internet. Particular focus is made …

The "Bring Your Own Device" Conundrum For Organizations And Investigators: An Examination Of The Policy And Legal Concerns In Light Of Investigatory Challenges, Carla J. Utter, Alan Rea

Journal of Digital Forensics, Security and Law

In recent years, with the expansion of technology and the desire to downsize costs within the corporate culture, the technology trend has steered towards the integration of personally owned mobile devices (i.e. smartphones) within the corporate and enterprise environment. The movement, known as “Bring Your Own Device” (hereinafter referred to as “BYOD”), seeks to minimize or eliminate the need for two separate and distinct mobile devices for one employee. While taken at face value this trend seems favorable, the corporate policy and legal implications of the implementation of BYOD are further complicated by significant investigatory issues that far outweigh the …

Plc Forensics Based On Control Program Logic Change Detection, Ken Yau, Kam-Pui Chow

Journal of Digital Forensics, Security and Law

Supervisory Control and Data Acquisition (SCADA) system is an industrial control automated system. It is built with multiple Programmable Logic Controllers (PLCs). PLC is a special form of microprocessor-based controller with proprietary operating system. Due to the unique architecture of PLC, traditional digital forensic tools are difficult to be applied. In this paper, we propose a program called Control Program Logic Change Detector (CPLCD), it works with a set of Detection Rules (DRs) to detect and record undesired incidents on interfering normal operations of PLC. In order to prove the feasibility of our solution, we set up two experiments for …

Factors Influencing Digital Forensic Investigations: Empirical Evaluation Of 12 Years Of Dubai Police Cases, Ibtesam Alawadhi, Janet C. Read, Andrew Marrington, Virginia N. L. Franqueira

Journal of Digital Forensics, Security and Law

In Digital Forensics, the number of person-hours spent on investigation is a key factor which needs to be kept to a minimum whilst also paying close attention to the authenticity of the evidence. The literature describes challenges behind increasing person-hours and identifies several factors which contribute to this phenomenon. This paper reviews these factors and demonstrates that they do not wholly account for increases in investigation time. Using real case records from the Dubai Police, an extensive study explains the contribution of other factors to the increase in person-hours. We conclude this work by emphasizing on several factors affecting the …

Cyber Black Box/Event Data Recorder: Legal And Ethical Perspectives And Challenges With Digital Forensics, Michael Losavio, Pavel Pastukov, Svetlana Polyakova

Journal of Digital Forensics, Security and Law

With ubiquitous computing and the growth of the Internet of Things, there is vast expansion in the deployment and use of event data recording systems in a variety of environments. From the ships’ logs of antiquity through the evolution of personal devices for recording personal and environmental activities, these devices offer rich forensic and evidentiary opportunities that smash against rights of privacy and personality. The technical configurations of these devices provide for greater scope of sensing, interconnection options for local, near, and cloud storage of data, and the possibility of powerful analytics. This creates the unique situation of near-total data …

Two Challenges Of Stealthy Hypervisors Detection: Time Cheating And Data Fluctuations, Igor Korkin

Journal of Digital Forensics, Security and Law

Hardware virtualization technologies play a significant role in cyber security. On the one hand these technologies enhance security levels, by designing a trusted operating system. On the other hand these technologies can be taken up into modern malware which is rather hard to detect. None of the existing methods is able to efficiently detect a hypervisor in the face of countermeasures such as time cheating, temporary self uninstalling, memory hiding etc. New hypervisor detection methods which will be described in this paper can detect a hypervisor under these countermeasures and even count several nested ones. These novel approaches rely on …

Data Extraction On Mtk-Based Android Mobile Phone Forensics, Joe Kong

Journal of Digital Forensics, Security and Law

In conducting criminal investigations it is quite common that forensic examiners need to recover evidentiary data from smartphones used by offenders. However, examiners encountered difficulties in acquiring complete memory dump from MTK Android phones, a popular brand of smartphones, due to a lack of technical knowledge on the phone architecture and that system manuals are not always available. This research will perform tests to capture data from MTK Android phone by applying selected forensic tools and compare their effectiveness by analyzing the extracted results. It is anticipated that a generic extraction tool, once identified, can be used on different brands …

Exploring The Use Of Plc Debugging Tools For Digital Forensic Investigations On Scada Systems, Tina Wu, Jason R.C. Nurse

Journal of Digital Forensics, Security and Law

The Stuxnet malware attack has provided strong evidence for the development of a forensic capability to aid in thorough post-incident investigations. Current live forensic tools are typically used to acquire and examine memory from computers running either Windows or Unix. This makes them incompatible with embedded devices found on SCADA systems that have their own bespoke operating system. Currently, only a limited number of forensics tools have been developed for SCADA systems, with no development of tools to acquire the program code from PLCs. In this paper, we explore this problem with two main hypotheses in mind. Our first hypothesis …

Forensic Acquisition Of Imvu: A Case Study, Robert Van Voorst, M-Tahar Kechadi, Nhien-An Le-Khac

Journal of Digital Forensics, Security and Law

There are many applications available for personal computers and mobile devices that facilitate users in meeting potential partners. There is, however, a risk associated with the level of anonymity on using instant message applications, because there exists the potential for predators to attract and lure vulnerable users. Today Instant Messaging within a Virtual Universe (IMVU) combines custom avatars, chat or instant message (IM), community, content creation, commerce, and anonymity. IMVU is also being exploited by criminals to commit a wide variety of offenses. However, there are very few researches on digital forensic acquisition of IMVU applications. In this paper, we …

Tracking And Taxonomy Of Cyberlocker Link Sharers Based On Behavior Analysis, Xiao-Xi Fan, Kam-Pui Chow

Journal of Digital Forensics, Security and Law

The growing popularity of cyberlocker service has led to significant impact on the Internet that it is considered as one of the biggest contributors to the global Internet traffic estimated to be illegally traded content. Due to the anonymity property of cyberlocker, it is difficult for investigators to track user identity directly on cyberlocker site. In order to find the potential relationships between cyberlocker users, we propose a framework to collect cyberlocker related data from public forums where cyberlocker users usually distribute cyberlocker links for others to download and identity information can be gathered easily. Different kinds of sharing behaviors …

A Survey Of Botnet Detection Techniques By Command And Control Infrastructure, Thomas S. Hyslip, Jason M. Pittman

Journal of Digital Forensics, Security and Law

Botnets have evolved to become one of the most serious threats to the Internet and there is substantial research on both botnets and botnet detection techniques. This survey reviewed the history of botnets and botnet detection techniques. The survey showed traditional botnet detection techniques rely on passive techniques, primarily honeypots, and that honeypots are not effective at detecting peer-to-peer and other decentralized botnets. Furthermore, the detection techniques aimed at decentralized and peer-to-peer botnets focus on detecting communications between the infected bots. Recent research has shown hierarchical clustering of flow data and machine learning are effective techniques for detecting botnet peer-to-peer …

Multidimensional Metrics For Estimating Phage Abundance, Distribution, Gene Density, And Sequence Coverage In Metagenomes, Ramy Aziz, Bhakti Dwivedi, Sajia Akhter, Mya Breitbart, Robert Edwards

Marine Science Faculty Publications

No abstract provided.