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  Partner: UNT Libraries
 Department: Department of Computer Science and Engineering
 Collection: UNT Theses and Dissertations
Elicitation of Protein-Protein Interactions from Biomedical Literature Using Association Rule Discovery

Elicitation of Protein-Protein Interactions from Biomedical Literature Using Association Rule Discovery

Date: August 2010
Creator: Samuel, Jarvie John
Description: 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) ...
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An Empirical Evaluation of Communication and Coordination Effectiveness in Autonomous Reactive Multiagent Systems

An Empirical Evaluation of Communication and Coordination Effectiveness in Autonomous Reactive Multiagent Systems

Date: May 2005
Creator: Hurt, David
Description: This thesis describes experiments designed to measure the effect of collaborative communication on task performance of a multiagent system. A discrete event simulation was developed to model a multi-agent system completing a task to find and collect food resources, with the ability to substitute various communication and coordination methods. Experiments were conducted to find the effects of the various communication methods on completion of the task to find and harvest the food resources. Results show that communication decreases the time required to complete the task. However, all communication methods do not fare equally well. In particular, results indicate that the communication model of the bee is a particularly effective method of agent communication and collaboration. Furthermore, results indicate that direct communication with additional information content provides better completion results. Cost-benefit models show some conflicting information, indicating that the increased performance may not offset the additional cost of achieving that performance.
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End of Insertion Detection in Colonoscopy Videos

End of Insertion Detection in Colonoscopy Videos

Date: August 2009
Creator: Malik, Avnish Rajbal
Description: Colorectal cancer is the second leading cause of cancer-related deaths behind lung cancer in the United States. Colonoscopy is the preferred screening method for detection of diseases like Colorectal Cancer. In the year 2006, American Society for Gastrointestinal Endoscopy (ASGE) and American College of Gastroenterology (ACG) issued guidelines for quality colonoscopy. The guidelines suggest that on average the withdrawal phase during a screening colonoscopy should last a minimum of 6 minutes. My aim is to classify the colonoscopy video into insertion and withdrawal phase. The problem is that currently existing shot detection techniques cannot be applied because colonoscopy is a single camera shot from start to end. An algorithm to detect phase boundary has already been developed by the MIGLAB team. Existing method has acceptable levels of accuracy but the main issue is dependency on MPEG (Moving Pictures Expert Group) 1/2. I implemented exhaustive search for motion estimation to reduce the execution time and improve the accuracy. I took advantages of the C/C++ programming languages with multithreading which helped us get even better performances in terms of execution time. I propose a method for improving the current method of colonoscopy video analysis and also an extension for the same to ...
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Energy-Aware Time Synchronization in Wireless Sensor Networks

Energy-Aware Time Synchronization in Wireless Sensor Networks

Date: December 2006
Creator: Saravanos, Yanos
Description: I present a time synchronization algorithm for wireless sensor networks that aims to conserve sensor battery power. The proposed method creates a hierarchical tree by flooding the sensor network from a designated source point. It then uses a hybrid algorithm derived from the timing-sync protocol for sensor networks (TSPN) and the reference broadcast synchronization method (RBS) to periodically synchronize sensor clocks by minimizing energy consumption. In multi-hop ad-hoc networks, a depleted sensor will drop information from all other sensors that route data through it, decreasing the physical area being monitored by the network. The proposed method uses several techniques and thresholds to maintain network connectivity. A new root sensor is chosen when the current one's battery power decreases to a designated value. I implement this new synchronization technique using Matlab and show that it can provide significant power savings over both TPSN and RBS.
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The enhancement of machine translation for low-density languages using Web-gathered parallel texts.

The enhancement of machine translation for low-density languages using Web-gathered parallel texts.

Date: December 2007
Creator: Mohler, Michael Augustine Gaylord
Description: The majority of the world's languages are poorly represented in informational media like radio, television, newspapers, and the Internet. Translation into and out of these languages may offer a way for speakers of these languages to interact with the wider world, but current statistical machine translation models are only effective with a large corpus of parallel texts - texts in two languages that are translations of one another - which most languages lack. This thesis describes the Babylon project which attempts to alleviate this shortage by supplementing existing parallel texts with texts gathered automatically from the Web -- specifically targeting pages that contain text in a pair of languages. Results indicate that parallel texts gathered from the Web can be effectively used as a source of training data for machine translation and can significantly improve the translation quality for text in a similar domain. However, the small quantity of high-quality low-density language parallel texts on the Web remains a significant obstacle.
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E‐Shape Analysis

E‐Shape Analysis

Date: December 2009
Creator: Sroufe, Paul
Description: The motivation of this work is to understand E-shape analysis and how it can be applied to various classification tasks. It has a powerful feature to not only look at what information is contained, but rather how that information looks. This new technique gives E-shape analysis the ability to be language independent and to some extent size independent. In this thesis, I present a new mechanism to characterize an email without using content or context called E-shape analysis for email. I explore the applications of the email shape by carrying out a case study; botnet detection and two possible applications: spam filtering and social-context based finger printing. The second part of this thesis takes what I apply E-shape analysis to activity recognition of humans. Using the Android platform and a T-Mobile G1 phone I collect data from the triaxial accelerometer and use it to classify the motion behavior of a subject.
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Evaluating Appropriateness of Emg and Flex Sensors for Classifying Hand Gestures

Evaluating Appropriateness of Emg and Flex Sensors for Classifying Hand Gestures

Date: May 2013
Creator: Akumalla, Sarath Chandra
Description: Hand and arm gestures are a great way of communication when you don't want to be heard, quieter and often more reliable than whispering into a radio mike. In recent years hand gesture identification became a major active area of research due its use in various applications. The objective of my work is to develop an integrated sensor system, which will enable tactical squads and SWAT teams to communicate when there is absence of a Line of Sight or in the presence of any obstacles. The gesture set involved in this work is the standardized hand signals for close range engagement operations used by military and SWAT teams. The gesture sets involved in this work are broadly divided into finger movements and arm movements. The core components of the integrated sensor system are: Surface EMG sensors, Flex sensors and accelerometers. Surface EMG is the electrical activity produced by muscle contractions and measured by sensors directly attached to the skin. Bend Sensors use a piezo resistive material to detect the bend. The sensor output is determined by both the angle between the ends of the sensor as well as the flex radius. Accelerometers sense the dynamic acceleration and inclination in 3 ...
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Evaluating the Scalability of SDF Single-chip Multiprocessor Architecture Using Automatically Parallelizing Code

Evaluating the Scalability of SDF Single-chip Multiprocessor Architecture Using Automatically Parallelizing Code

Date: December 2004
Creator: Zhang, Yuhua
Description: Advances in integrated circuit technology continue to provide more and more transistors on a chip. Computer architects are faced with the challenge of finding the best way to translate these resources into high performance. The challenge in the design of next generation CPU (central processing unit) lies not on trying to use up the silicon area, but on finding smart ways to make use of the wealth of transistors now available. In addition, the next generation architecture should offer high throughout performance, scalability, modularity, and low energy consumption, instead of an architecture that is suitable for only one class of applications or users, or only emphasize faster clock rate. A program exhibits different types of parallelism: instruction level parallelism (ILP), thread level parallelism (TLP), or data level parallelism (DLP). Likewise, architectures can be designed to exploit one or more of these types of parallelism. It is generally not possible to design architectures that can take advantage of all three types of parallelism without using very complex hardware structures and complex compiler optimizations. We present the state-of-art architecture SDF (scheduled data flowed) which explores the TLP parallelism as much as that is supplied by that application. We implement a SDF single-chip ...
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Exploring Memristor Based Analog Design in Simscape

Exploring Memristor Based Analog Design in Simscape

Date: May 2013
Creator: Gautam, Mahesh
Description: With conventional CMOS technologies approaching their scaling limits, researchers are actively investigating alternative technologies for ever increasing computing and mobile demand. A number of different technologies are currently being studied by different research groups. In the last decade, one-dimensional (1D) carbon nanotubes (CNT), graphene, which is a two-dimensional (2D) natural occurring carbon rolled in tubular form, and zero-dimensional (0D) fullerenes have been the subject of intensive research. In 2008, HP Labs announced a ground-breaking fabrication of memristors, the fourth fundamental element postulated by Chua at the University of California, Berkeley in 1971. In the last few years, the memristor has gained a lot of attention from the research community. In-depth studies of the memristor and its analog behavior have convinced the community that it has the potential in future nano-architectures for optimization of high-density memory and neuromorphic computing architectures. The objective of this thesis is to explore memristors for analog and mixed-signal system design using Simscape. This thesis presents a memristor model in the Simscape language. Simscape has been used as it has the potential for modeling large systems. A memristor based programmable oscillator is also presented with simulation results and characterization. In addition, simulation results of different memristor models ...
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Exploring Privacy in Location-based Services Using Cryptographic Protocols

Exploring Privacy in Location-based Services Using Cryptographic Protocols

Date: May 2011
Creator: Vishwanathan, Roopa
Description: Location-based services (LBS) are available on a variety of mobile platforms like cell phones, PDA's, etc. and an increasing number of users subscribe to and use these services. Two of the popular models of information flow in LBS are the client-server model and the peer-to-peer model, in both of which, existing approaches do not always provide privacy for all parties concerned. In this work, I study the feasibility of applying cryptographic protocols to design privacy-preserving solutions for LBS from an experimental and theoretical standpoint. In the client-server model, I construct a two-phase framework for processing nearest neighbor queries using combinations of cryptographic protocols such as oblivious transfer and private information retrieval. In the peer-to-peer model, I present privacy preserving solutions for processing group nearest neighbor queries in the semi-honest and dishonest adversarial models. I apply concepts from secure multi-party computation to realize our constructions and also leverage the capabilities of trusted computing technology, specifically TPM chips. My solution for the dishonest adversarial model is also of independent cryptographic interest. I prove my constructions secure under standard cryptographic assumptions and design experiments for testing the feasibility or practicability of our constructions and benchmark key operations. My experiments show that the proposed ...
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