Thesis (M.S.)--University of Delaware, 2006. / Principal faculty advisor: Hugh Frick, Dept. of Plant and Soil Science. Includes bibliographical references.

Thesis (Ph. D.)--University of Texas at Austin, 2007. / Vita. Includes bibliographical references.

Thesis (Ph. D.)--University of Texas at Dallas, 2007. / Includes vita. Includes bibliographical references (leaves 191-192)

No description available.

Bibliography: leaves 206-263. The aim of this project was to develop tools to assist in the construction of the ovine genome map so economic trait loci in sheep can be identified. (abstract)

Thesis (M.S.)--West Virginia University, 2001. / Title from document title page. Document formatted into pages; contains vi, 43 p. : ill. (some col.). Includes abstract. Includes bibliographical references (p. 37-43).

No description available.

La NEM1 est un syndrome cancéreux affectant de nombreuses glandes endocrines, qui résulte d’une prédisposition génétique liée à des mutations du gène MEN1. La Menin, protéine codée par MEN1 possède de nombreux partenaires qui interviennent dans la dynamique de la chromatine, la régulation de la transcription et de la stabilité du génome. Le besoin de mieux connaître les fonctions biochimiques de la Menin m’a conduit à tenter de produire la protéine purifiée en grande quantité. Ce faisant, j’ai pu apporter des informations sur la structure de la Menin. Sur un plan fonctionnel, j’ai étudié l’interaction entre Menin et l’oncosuppresseur p53, et montré que certaines modifications post-traductionnelles de p53 déterminantes pour son activité et sa stabilité en réponse à un stress génotoxique, n’affectent pas l’interaction, rendant possible que ce soient des modifications de la Menin qui y jouent un rôle déterminant. J’ai ainsi montré que la Menin pouvait être mono-ubiquitinée. La Menin interfère également avec un autre régulateur du cycle cellulaire, la protéine RB dont elle semble réguler le niveau de phosphorylation et peut-être même la quantité totale dans la cellule. / MEN1 is a cancer syndrome affecting many endocrine glands, which results from a genetic predisposition related to mutations of the MEN1 gene. Menin, the protein encoded by MEN1 has many partners that play a role in the dynamics of chromatin and in the regulation of the transcription and of genome stability. The need for knowing better the biochemical functions of Menin led me to try to produce the purified protein in great quantity. By doing this, I could bring information on the structure of Menin. On a functional level, I studied the interaction between Menin and the oncosuppressor p53, and showed that certain post-translational modifications of p53 crucial for its activity and its stability in response to a genotoxic stress, do not affect the interaction, making possible that modifications of Menin play a determining role there. I thus showed that Menin could be monoubiquitinylated. Menin also interferes with another regulator of the cell cycle, the protein RB of which it seems to control the level of phosphorylation and perhaps even the total amount in the cell.

Some current similarity measurement method include Normal Euclidean Distance, Pearson Product-Moment Correlation Coefficient, Spearman's rank correlation coefficient, Z-Score or standard score, Spearman's Footrule distance, Kendall tau rank coefficient, Jaccard similarity coefficient, Cayley's distance, hamming distance etc, since they cannot capture the similarity between genes with arbitrary time-delay and time-gap behavior, a novel algorithm, which enables time-delay alignment and time-gap alignment is proposed and integrated with some of those existing approaches which are local comparisons to fit into the underlying biological context. Time-delay behavior occurs when a gene's expression triggers a delayed expression in its co-regulated or anti-co-regulated peers. In addition, arbitrary time lag also might appear due to experiment error or measurement error. If any gene data has one or both of those condition, the similarity measurement using traditional methods will either under-estimate the similarity or completely miss such relationship. To align the gene data, an alignment algorithm that can be used to align time-delay as well as removing time-gap was developed. Because both Normal Euclidean Distance and Pearson Product-Moment Correlation Coefficient are local comparisons, the algorithm was able to integrate within those two approaches to accommodate the time-delay and time-gap behavior. All of the implementations are done through parallel programming of Message Passing Interface in C by splitting the work load dynamically from a master server to many slave servers in order to speed up the computation process. Synthetic and real microarray data are used to demonstrate the superior of our proposed method. The experimental results show that Normal Euclidean Distance and Pearson Product-Moment Correlation Coefficient with our alignment algorithm perform better in terms of capturing the similarity of more co-regulated or anti-regulated gene pairs. Some improvements such as isolation of experimental conditions, weighted averages and statistical analysis for threshold setting are proposed. Because such time-delay behavior in gene expression pattern is not unusual and usually play important roles in the cell system, the new approach will help scientists to discover important knowledge that otherwise will not be revealed. This approach is sensitive to capturing a wide spectrum of expression patterns, which tends to be ignored by traditional methods. Global comparison algorithms usually have a pre-step that normalize the entire dataset to achieve better result, thus the implemented time-delay and time-gap alignment algorithm will not be effective on the normalized data set. In order to cope with the intensive computing needs of large-scale microarray data, parallel code under message passing interface in C is developed with dynamic work load balancing strategy and executed at a Linux cluster.

Thesis (M.A.)--Boston University