Computer Engineering Commons^™

Clustering And Classification Of Multi-Domain Proteins, Neethu Shah

Department of Computer Science and Engineering: Dissertations, Theses, and Student Research

Rapid development of next-generation sequencing technology has led to an unprecedented growth in protein sequence data repositories over the last decade. Majority of these proteins lack structural and functional characterization. This necessitates design and development of fast, efficient, and sensitive computational tools and algorithms that can classify these proteins into functionally coherent groups.

Domains are fundamental units of protein structure and function. Multi-domain proteins are extremely complex as opposed to proteins that have single or no domains. They exhibit network-like complex evolutionary events such as domain shuffling, domain loss, and domain gain. These events therefore, cannot be represented in the …

Solving The Search For Source Code, Kathryn T. Stolee

Department of Computer Science and Engineering: Dissertations, Theses, and Student Research

Programmers frequently search for source code to reuse using keyword searches. When effective and efficient, a code search can boost programmer productivity, however, the search effectiveness depends on the programmer's ability to specify a query that captures how the desired code may have been implemented. Further, the results often include many irrelevant matches that must be filtered manually. More semantic search approaches could address these limitations, yet existing approaches either do not scale, are not flexible enough to find approximate matches, or require complex specifications.

We propose a novel approach to semantic search that addresses some of these limitations and …

Energy-Efficient Failure Recovery In Hadoop Cluster, Weiyue Xu

Department of Computer Science and Engineering: Dissertations, Theses, and Student Research

Based on U.S. Environmental Protection Agency’s estimation, only in U.S., billions of dollars are spent on the electricity cost of data centers each year, and the cost is continually increasing very quickly. Energy efficiency is now used as an important metric for evaluating a computing system. However, saving energy is a big challenge due to many constraints. For example, in one of the most popular distributed processing frameworks, Hadoop, three replicas of each data block are randomly distributed in order to improve performance and fault tolerance, but such a mechanism limits the largest number of machine that can be turned …