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DOE EPSCoR Initiative in Structural and computational Biology/Bioinformatics

Description: The overall goal of the DOE EPSCoR Initiative in Structural and Computational Biology was to enhance the competiveness of Vermont research in these scientific areas. To develop self-sustaining infrastructure, we increased the critical mass of faculty, developed shared resources that made junior researchers more competitive for federal research grants, implemented programs to train graduate and undergraduate students who participated in these research areas and provided seed money for research projects. During the time period funded by this DOE initiative: (1) four new faculty were recruited to the University of Vermont using DOE resources, three in Computational Biology and one in Structural Biology; (2) technical support was provided for the Computational and Structural Biology facilities; (3) twenty-two graduate students were directly funded by fellowships; (4) fifteen undergraduate students were supported during the summer; and (5) twenty-eight pilot projects were supported. Taken together these dollars resulted in a plethora of published papers, many in high profile journals in the fields and directly impacted competitive extramural funding based on structural or computational biology resulting in 49 million dollars awarded in grants (Appendix I), a 600% return on investment by DOE, the State and University.
Date: February 21, 2008
Creator: Wallace, Susan S.
Partner: UNT Libraries Government Documents Department

Structure/Function Analysis of DNA-glycosylases That Repair Oxidized Purines and Pyrimidines and the Influence of Surrounding DNA Sequence on Their Interactions

Description: The overall goal of this project was to elucidate the structure/function relationships between oxidized DNA bases and the DNA repair enzymes that recognize and remove them. The NMR solution structure of formamidopyrimidine DNA glycosylase (Fpg) that recognizes oxidized DNA purines was to be determined. Furthermore, the solution structures of DNA molecules containing specific lesions recognized by Fpg was to be determined in sequence contexts that either facilitate or hinder this recognition. These objectives were in keeping with the long-term goals of the Principal Investigator's laboratory, that is, to understand the basic mechanisms that underpin base excision repair processing of oxidative DNA lesions and to elucidate the interactions of unrepaired lesions with DNA polymerases. The results of these two DNA transactions can ultimately determine the fate of the cell. These objectives were also in keeping with the goals of our collaborator, Dr. Michael Kennedy, who is studying the repair and recognition of damaged DNA. Overall the goals of this project were congruent with those of the Department of Energy's Health Effects and Life Sciences Research Program, especially to the Structural Biology, the Human Genome and the Health Effects Programs. The mission of the latter Program includes understanding the biological effects and consequences of DNA damages produced by toxic agents in the many DOE waste sites so that cleanup can be accomplished in a safe, effective and timely manner.
Date: August 22, 2005
Creator: Wallace, Susan S.
Partner: UNT Libraries Government Documents Department

CT3 as an Index of Knowledge Domain Structure: Distributions for Order Analysis and Information Hierarchies

Description: The problem with which this study is concerned is articulating all possible CT3 and KR21 reliability measures for every case of a 5x5 binary matrix (32,996,500 possible matrices). The study has three purposes. The first purpose is to calculate CT3 for every matrix and compare the results to the proposed optimum range of .3 to .5. The second purpose is to compare the results from the calculation of KR21 and CT3 reliability measures. The third purpose is to calculate CT3 and KR21 on every strand of a class test whose item set has been reduced using the difficulty strata identified by Order Analysis. The study was conducted by writing a computer program to articulate all possible 5 x 5 matrices. The program also calculated CT3 and KR21 reliability measures for each matrix. The nonparametric technique of Order Analysis was applied to two sections of test items to stratify the items into difficulty levels. The difficulty levels were used to reduce the item set from 22 to 9 items. All possible strands or chains of these items were identified so that both reliability measures (CT3 and KR21) could be calculated. One major finding of this study indicates that .3 to .5 is a desirable range for CT3 (cumulative p=.86 to p=.98) if cumulative frequencies are measured. A second major finding is that the KR21 reliability measure produced an invalid result more than half the time. The last major finding is that CT3, rescaled to range between 0 and 1, supports De Vellis' guidelines for reliability measures. The major conclusion is that CT3 is a better measure of reliability since it considers both inter- and intra-item variances.
Date: December 2002
Creator: Swartz Horn, Rebecca
Partner: UNT Libraries

A Comparison of Two Methods of Training Naive Users in the Use of a Microcomputer System

Description: The problem addressed in this study is the need for efficient and economic methods to train naive college students to operate microcomputers as a necessary step in their acquisition of computer proficiency. Two methods of training were compared. These were training by live demonstration and training by videotape. These methods were considered economically viable because each could be presented in a classroom and neither required a one-to-one student-to-computer or student-to-tutor ratio. Four sections of an introductory computer science class were used in the study. Two classes were presented each treatment. The effectiveness of the presentations was measured by means of a written quiz administered immediately after the presentation and by the number of microcomputer system operation tasks successfully completed during an individual laboratory session. The computer anxiety level of each participant was measured prior to the presentation to determine if anxiety was a factor in finding the best training method. When scores of naive users who saw the videotape were compared with the scores of naive users who saw the live demonstration, no significant differences were found. However, when novice users (those who had some previous experience with operating or programming a microcomputer) were included, the group that saw the videotape scored significantly higher on the written quiz than the group that saw the live demonstration. A two by two analysis of variance showed no significant interactions between anxiety and treatment. User satisfaction was found to be significantly higher for the videotape group than for the live demonstration group. This study concluded with the recommendation that the Computer Science Department of North Texas State University utilize videotapes to train students in introductory classes to use a microcomputer system. This recommendation was based on the superior test results for naive and novice users who saw the videotape, the user satisfaction scores ...
Date: May 1986
Creator: Wallace, Susan Ree Heil
Partner: UNT Libraries