In this research, the application of intelligent mobile agents to the management of distributed network environments is investigated. Intelligent mobile agents are programs which can move about network systems in a deterministic manner in carrying their execution state. These agents can be considered an application of distributed artificial intelligence where the (usually small) agent code is moved to the data and executed locally. The mobile agent paradigm offers potential advantages over many conventional mechanisms which move (often large) data to the code, thereby wasting available network bandwidth. The performance of agents in network routing and knowledge acquisition has been investigated and simulated. A working mobile agent system has also been designed and implemented in JDK 1.2.

The phenomenal growth of Information Technology requires us to elicit, store and maintain huge volumes of data. Analyzing this data for various purposes is becoming increasingly important. Data mining consists of applying data analysis and discovery algorithms that under acceptable computational efficiency limitations, produce a particular enumeration of patterns over the data. We present two techniques based on using Logic programming tools for data mining. Data mining analyzes data by extracting patterns which describe its structure and discovers co-relations in the form of rules. We distinguish analysis methods as visual and non-visual and present one application of each. We explain that our focus on the field of Logic Programming makes some of the very complex tasks related to Web based data mining and dynamic content generation, simple and easy to implement in a uniform framework.

Implementing a Prolog Runtime System in a language like Java which provides its own automatic memory management and safety features such as built--in index checking and array initialization requires a consistent approach to memory management based on a simple ultimate goal: minimizing total memory management time and extra space involved. The total memory management time for Jinni is made up of garbage collection time both for Java and Jinni itself. Extra space is usually requested at Jinni's garbage collection. This goal motivates us to find a simple and practical garbage collection algorithm and implementation for our Prolog engine. In this thesis we survey various algorithms already proposed and offer our own contribution to the study of garbage collection by improvements and optimizations for some classic algorithms. We implemented these algorithms based on the dynamic array algorithm for an all--dynamic Prolog engine (JINNI 2000). The comparisons of our implementations versus the originally proposed algorithm allow us to draw informative conclusions on their theoretical complexity model and their empirical effectiveness.

How do the content and writing style of people who drink alcohol beverages stand out from non-drinkers? How much information can we learn about a person's alcohol consumption behavior by reading text that they have authored? This thesis attempts to extend the methods deployed in authorship attribution and authorship profiling research into the domain of automatically identifying the human action of drinking alcohol beverages. I examine how a psycholinguistics dictionary (the Linguistics Inquiry and Word Count lexicon, developed by James Pennebaker), together with Kenneth Burke's concept of words as symbols of human action, and James Wertsch's concept of mediated action provide a framework for analyzing meaningful data patterns from the content of blogs written by consumers of alcohol beverages. The contributions of this thesis to the research field are twofold. First, I show that it is possible to automatically identify blog posts that have content related to the consumption of alcohol beverages. And second, I provide a framework and tools to model human behavior through text analysis of blog data.

Computational modeling is of fundamental significance in mapping possible disease spread, and designing strategies for its mitigation. Conventional contact networks implement the simulation of interactions as random occurrences, presenting public health bodies with a difficult trade off between a realistic model granularity and robust design of intervention strategies. Recently, researchers have been investigating the use of agent-based models (ABMs) to embrace the complexity of real world interactions. At the same time, theoretical approaches provide epidemiologists with general optimization models in which demographics are intrinsically simplified. The emerging study of affiliation networks and co-affiliation networks provide an alternative to such trade off. Co-affiliation networks maintain the realism innate to ABMs while reducing the complexity of contact networks into distinctively smaller k-partite graphs, were each partition represent a dimension of the social model. This dissertation studies the optimization of intervention strategies for infectious diseases, mainly distributed in school systems. First, concepts of synthetic populations and affiliation networks are extended to propose a modified algorithm for the synthetic reconstruction of populations. Second, the definition of multi-coaffiliation networks is presented as the main social model in which risk is quantified and evaluated, thereby obtaining vulnerability indications for each school in the system. Finally, maximization …

The widely used mobile phone, as well as its related technologies had opened opportunities for a complete change on how people interact and build relationship across geographic and time considerations. The convenience of instant communication by mobile phones that broke the barrier of space and time is evidently the key motivational point on why such technologies so important in people's life and daily activities. Mobile phones have become the most popular communication tools. Mobile phone technology is apparently changing our relationship to each other in our work and lives. The impact of new technologies on people's lives in social spaces gives us the chance to rethink the possibilities of technologies in social interaction. Accordingly, mobile phones are basically changing social relations in ways that are intricate to measure with any precision. In this dissertation I propose a socioscope model for social network, relationship and human behavior analysis based on mobile phone call detail records. Because of the diversities and complexities of human social behavior, one technique cannot detect different features of human social behaviors. Therefore I use multiple probability and statistical methods for quantifying social groups, relationships and communication patterns, for predicting social tie strengths and for detecting human behavior …

Researchers have speculated that global software teams have activity patterns that are dictated by work-place schedules or a client's need. Similar patterns have been suggested for individuals enrolled in distant learning projects that require students to post feedback in response to questions or assignments. Researchers tend to accept the notion that students' temporal patterns adjust to academic or social calendars and are a result of choices made within these constraints. Although there is some evidence that culture do have an impact on communication activity behavior, there is not a clear how each of these factors may relate to work done in online groups. This particular study represents a new approach to studying student-group communication activities and also pursues an alternative approach by using activity data from students participating in a global software development project to generate a variety of complex measures that capture patterns about when students work. Students work habits are also often determined by where they live and what they are working on. Moreover, students tend to work on group projects in cycles, which correspond to a start, middle, and end time period. Knowledge obtained from this study should provide insight into current empirical research on global software …

The presence of naturally occurring and man-made public health threats necessitate the design and implementation of mitigation strategies, such that adequate response is provided in a timely manner. Since multiple variables, such as geographic properties, resource constraints, and government mandated time-frames must be accounted for, computational methods provide the necessary tools to develop contingency response plans while respecting underlying data and assumptions. A typical response scenario involves the placement of points of dispensing (PODs) in the affected geographic region to supply vaccines or medications to the general public. Computational tools aid in the analysis of such response plans, as well as in the strategic placement of PODs, such that feasible response scenarios can be developed. Due to the sensitivity of bio-emergency response plans, geographic information, such as POD locations, must be kept confidential. The generation of synthetic geographic regions allows for the development of emergency response plans on non-sensitive data, as well as for the study of the effects of single geographic parameters. Further, synthetic representations of geographic regions allow for results to be published and evaluated by the scientific community. This dissertation presents methodology for the analysis of bio-emergency response plans, methods for plan optimization, as well as methodology …

Smart phones today have become increasingly popular with the general public for its diverse abilities like navigation, social networking, and multimedia facilities to name a few. These phones are equipped with high end processors, high resolution cameras, built-in sensors like accelerometer, orientation-sensor, light-sensor, and much more. According to comScore survey, 25.3% of US adults use smart phones in their daily lives. Motivated by the capability of smart phones and their extensive usage, I focused on utilizing them for bio-medical applications. In this thesis, I present a new application for a smart phone to quantify the vital signs such as heart rate, respiratory rate and blood pressure with the help of its built-in sensors. Using the camera and a microphone, I have shown how the blood pressure and heart rate can be determined for a subject. People sometimes encounter minor situations like fainting or fatal accidents like car crash at unexpected times and places. It would be useful to have a device which can measure all vital signs in such an event. The second part of this thesis demonstrates a new mode of communication for next generation 9-1-1 calls. In this new architecture, the call-taker will be able to control the …

Wireless sensor networks are composed of sensor nodes, which can monitor an environment and observe events of interest. These networks are applied in various fields including but not limited to environmental, industrial and habitat monitoring. In many applications, the exact location of the sensor nodes is unknown after deployment. Localization is a process used to find sensor node's positional coordinates, which is vital information. The localization is generally assisted by anchor nodes that are also sensor nodes but with known locations. Anchor nodes generally are expensive and need to be optimally placed for effective localization. Passive localization is one of the localization techniques where the sensor nodes silently listen to the global events like thunder sounds, seismic waves, lighting, etc. According to previous studies, the ideal location to place anchor nodes was on the perimeter of the sensor network. This may not be the case in passive localization, since the function of anchor nodes here is different than the anchor nodes used in other localization systems. I do extensive studies on positioning anchor nodes for effective localization. Several simulations are run in dense and sparse networks for proper positioning of anchor nodes. I show that, for effective passive localization, the …

Mobile phone advancements and ubiquitous internet connectivity are resulting in ever expanding possibilities in the application of smart phones. Users of mobile phones are now capable of hosting server applications from their personal devices. Whether providing services individually or in an ad hoc network setting the devices are currently not configured for defending against distributed denial of service (DDoS) attacks. These attacks, often launched from a botnet, have existed in the space of personal computing for decades but recently have begun showing up on mobile devices. Research is done first into the required steps to develop a potential botnet on the Android platform. This includes testing for the amount of malicious traffic an Android phone would be capable of generating for a DDoS attack. On the other end of the spectrum is the need of mobile devices running networked applications to develop security against DDoS attacks. For this mobile, phones are setup, with web servers running Apache to simulate users running internet connected applications for either local ad hoc networks or serving to the internet. Testing is done for the viability of using commonly available modules developed for Apache and intended for servers as well as finding baseline capabilities of …

Service-oriented architecture enables web services to operate in a loosely-coupled setting and provides an environment for dynamic discovery and use of services over a network using standards such as WSDL, SOAP, and UDDI. Web service has both functional and non-functional characteristics. This thesis work proposes to add QoS descriptions (non-functional properties) to WSDL and compose various services to form a business process. This composition of web services also considers QoS properties along with functional properties and the composed services can again be published as a new Web Service and can be part of any other composition using Composed WSDL.

Online/offline signature schemes are useful in many situations, and two such scenarios are considered in this dissertation: bursty server authentication and embedded device authentication. In this dissertation, new techniques for online/offline signing are introduced, those are applied in a variety of ways for creating online/offline signature schemes, and five different online/offline signature schemes that are proved secure under a variety of models and assumptions are proposed. Two of the proposed five schemes have the best offline or best online performance of any currently known technique, and are particularly well-suited for the scenarios that are considered in this dissertation. To determine if the proposed schemes provide the expected practical improvements, a series of experiments were conducted comparing the proposed schemes with each other and with other state-of-the-art schemes in this area, both on a desktop class computer, and under AVR Studio, a simulation platform for an 8-bit processor that is popular for embedded systems. Under AVR Studio, the proposed SGE scheme using a typical key size for the embedded device authentication scenario, can complete the offline phase in about 24 seconds and then produce a signature (the online phase) in 15 milliseconds, which is the best offline performance of any known …

POD (Point of Dispensing)-based emergency response plans involving mass prophylaxis may seem feasible when considering the choice of dispensing points within a region, overall population density, and estimated traffic demands. However, the plan may fail to serve particular vulnerable sub-populations, resulting in access disparities during emergency response. Federal authorities emphasize on the need to identify sub-populations that cannot avail regular services during an emergency due to their special needs to ensure effective response. Vulnerable individuals require the targeted allocation of appropriate resources to serve their special needs. Devising schemes to address the needs of vulnerable sub-populations is essential for the effectiveness of response plans. This research focuses on data-driven computational methods to quantify and address vulnerabilities in response plans that require the allocation of targeted resources. Data-driven methods to identify and quantify vulnerabilities in response plans are developed as part of this research. Addressing vulnerabilities requires the targeted allocation of appropriate resources to PODs. The problem of resource allocation to PODs during public health emergencies is introduced and the variants of the resource allocation problem such as the spatial allocation, spatio-temporal allocation and optimal resource subset variants are formulated. Generating optimal resource allocation and scheduling solutions can be computationally hard …

Computer security attacks take place due to the presence of vulnerabilities and bugs in software applications. Bugs and vulnerabilities are the result of weak software architecture and lack of standard software development practices. Despite the fact that software companies are investing millions of dollars in the research and development of software designs security risks are still at large. In some cases software applications are found to carry vulnerabilities for many years before being identified. A recent such example is the popular Heart Bleed Bug in the Open SSL/TSL. In today’s world, where new software application are continuously being developed for a varied community of users; it’s highly unlikely to have software applications running without flaws. Attackers on computer system securities exploit these vulnerabilities and bugs and cause threat to privacy without leaving any trace. The most critical vulnerabilities are those which are related to the integrity of the software applications. Because integrity is directly linked to the credibility of software application and data it contains. Here I am giving solution of maintaining web applications integrity running on RADIUM by using daikon. Daikon generates invariants, these invariants are used to maintain the integrity of the web application and also check the …

Students often use the web as a source of help for problems that they encounter on programming assignments.In this work, we seek to understand how students use the web to search for help on their assignments.We used a mixed methods approach with 344 students who complete a survey and 41 students who participate in a focus group meetings and helped in recording data about their search habits.The survey reveals data about student reported search habits while the focus group uses a web browser plug-in to record actual search patterns.We examine the results collectively and as broken down by class year.Survey results show that at least 2/3 of the students from each class year rely on search engines to locate resources for help with their programming bugs in at least half of their assignments;search habits vary by class year;and the value of different types of resources such as tutorials and forums varies by class year.Focus group results exposes the high frequency web sites used by the students in solving their programming assignments.

Epidemiologists rely on human interaction networks for determining states and dynamics of disease propagations in populations. However, such networks are empirical snapshots of the past. It will greatly benefit if human interaction networks are statistically predicted and dynamically created while an epidemic is in progress. We develop an application framework for the generation of human interaction networks and running epidemiological processes utilizing research on human mobility patterns and agent-based modeling. The interaction networks are dynamically constructed by incorporating different types of Random Walks and human rules of engagements. We explore the characteristics of the created network and compare them with the known theoretical and empirical graphs. The dependencies of epidemic dynamics and their outcomes on patterns and parameters of human motion and motives are encountered and presented through this research. This work specifically describes how the types and parameters of random walks define properties of generated graphs. We show that some configurations of the system of agents in random walk can produce network topologies with properties similar to small-world networks. Our goal is to find sets of mobility patterns that lead to empirical-like networks. The possibility of phase transitions in the graphs due to changes in the parameterization of agent …

Environmental monitoring represents a major application domain for wireless sensor networks (WSN). However, despite significant advances in recent years, there are still many challenging issues to be addressed to exploit the full potential of the emerging WSN technology. In this dissertation, we introduce the design and implementation of low-power wireless sensor networks for long-term, autonomous, and near-real-time environmental monitoring applications. We have developed an out-of-box solution consisting of a suite of software, protocols and algorithms to provide reliable data collection with extremely low power consumption. Two wireless sensor networks based on the proposed solution have been deployed in remote field stations to monitor soil moisture along with other environmental parameters. As parts of the ever-growing environmental monitoring cyberinfrastructure, these networks have been integrated into the Texas Environmental Observatory system for long-term operation. Environmental measurement and network performance results are presented to demonstrate the capability, reliability and energy-efficiency of the network.

Extracting information from a stack of data is a tedious task and the scenario is no different in proteomics. Volumes of research papers are published about study of various proteins in several species, their interactions with other proteins and identification of protein(s) as possible biomarker in causing diseases. It is a challenging task for biologists to keep track of these developments manually by reading through the literatures. Several tools have been developed by computer linguists to assist identification, extraction and hypotheses generation of proteins and protein-protein interactions from biomedical publications and protein databases. However, they are confronted with the challenges of term variation, term ambiguity, access only to abstracts and inconsistencies in time-consuming manual curation of protein and protein-protein interaction repositories. This work attempts to attenuate the challenges by extracting protein-protein interactions in humans and elicit possible interactions using associative rule mining on full text, abstracts and captions from figures available from publicly available biomedical literature databases. Two such databases are used in our study: Directory of Open Access Journals (DOAJ) and PubMed Central (PMC). A corpus is built using articles based on search terms. A dataset of more than 38,000 protein-protein interactions from the Human Protein Reference Database (HPRD) …

With the advances in very large scale integration (VLSI) technology, hundreds of billions of transistors can be packed into a single chip. With the increased hardware budget, how to take advantage of available hardware resources becomes an important research area. Some researchers have shifted from control flow Von-Neumann architecture back to dataflow architecture again in order to explore scalable architectures leading to multi-core systems with several hundreds of processing elements. In this dissertation, I address how the performance of modern processing systems can be improved, while attempting to reduce hardware complexity and energy consumptions. My research described here tackles both central processing unit (CPU) performance and memory subsystem performance. More specifically I will describe my research related to the design of an innovative decoupled multithreaded architecture that can be used in multi-core processor implementations. I also address how memory management functions can be off-loaded from processing pipelines to further improve system performance and eliminate cache pollution caused by runtime management functions.

An increasingly promising and widespread topic of research in distributed computing is the mobile agent paradigm: code travelling and performing computations on remote hosts in an autonomous manner. One of the biggest challenges faced by this new paradigm is security. The issue of protecting sensitive code and data carried by a mobile agent against tampering from a malicious host is particularly hard but important. Based on secure multi-party computation, a recent research direction shows the feasibility of a software-only solution to this problem, which had been deemed impossible by some researchers previously. The best result prior to this dissertation is a single-agent protocol which requires the participation of a trusted third party. Our research employs multi-agent protocols to eliminate the trusted third party, resulting in a protocol with minimum trust assumptions. This dissertation presents one of the first formal definitions of secure mobile agent computation, in which the privacy and integrity of the agent code and data as well as the data provided by the host are all protected. We present secure protocols for mobile agent computation against static, semi-honest or malicious adversaries without relying on any third party or trusting any specific participant in the system. The security of …

Dynamic memory management required by allocation-intensive (i.e., Object Oriented and linked data structured) applications has led to a large number of research trends. Memory performance due to the cache misses in these applications continues to lag in terms of execution cycles as ever increasing CPU-Memory speed gap continues to grow. Sophisticated prefetcing techniques, data relocations, and multithreaded architectures have tried to address memory latency. These techniques are not completely successful since they require either extra hardware/software in the system or special properties in the applications. Software needed for prefetching and data relocation strategies, aimed to improve cache performance, pollutes the cache so that the technique itself becomes counter-productive. On the other hand, extra hardware complexity needed in multithreaded architectures decelerates CPU's clock, since "Simpler is Faster." This dissertation, directed to seek the cause of poor locality behavior of allocation--intensive applications, studies allocators and their impact on the cache performance of these applications. Our study concludes that service functions, in general, and memory management functions, in particular, entangle with application's code and become the major cause of cache pollution. In this dissertation, we present a novel technique that transfers the allocation and de-allocation functions entirely to a separate processor residing in …

Peptide mass fingerprinting (PMF) was the first automated method for protein identification in proteomics, and it remains in common usage today because of its simplicity and the low equipment costs for generating fingerprints. However, one of the problems with PMF is its limited specificity and sensitivity in protein identification. Here I present a method that shows potential to significantly enhance the accuracy of peptide mass fingerprinting, using a machine learning approach based on a hidden Markov model (HMM). This method is applied to improve differentiation of real protein matches from those that occur by chance. The system was trained using 300 examples of combined real and false-positive protein identification results, and 10-fold cross-validation applied to assess model discrimination. The model can achieve 93% accuracy in distinguishing correct and real protein identification results versus false-positive matches. The receiver operating characteristic (ROC) curve area for the best model was 0.833.

The electronic voting machine (EVM) plays a very important role in a country where government officials are elected into office. Throughout the world, a specific operating system that tends to the specific requirement of the EVM does not exist. Existing EVM technology depends upon the various operating systems currently available, thus ignoring the basic needs of the system. There is a compromise over the basic requirements in order to develop the systems on the basis on an already available operating system, thus having a lot of scope for error. It is necessary to know the specific details of the particular device for which the operating system is being developed. In this document, I evaluate existing EVMs and identify flaws and shortcomings. I propose a solution for a new operating system that meets the specific requirements of the EVM, calling it Voting Operating System (VOS, pronounced 'voice'). The identification technique can be simplified by using the fingerprint technology that determines the identity of a person based on two fingerprints. I also discuss the various parts of the operating system that have to be implemented that can tend to all the basic requirements of an EVM, including implementation of the memory manager, …