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Thesis (M.Ch.E.)--University of Delaware, 2007. / Principal faculty advisors: Dionisios G. Vlachos and Babatunde Ogunnaike, Dept. of Chemical Engineering. Includes bibliographical references.

Thesis (Ph. D.)--Oregon State University, 2005. / Printout. Includes bibliographical references (leaves 100-102). Also available on the World Wide Web.

Thesis (M.Sc. (Computing Sc.)) - Simon Fraser University, 2004. / Theses (School of Computing Science) / Simon Fraser University. Also available on the World Wide Web.

Thesis (Ph.D)--Biomedical Engineering, Georgia Institute of Technology, 2010. / Committee Chair: Voit, Eberhard O.; Committee Member: Butera, Robert; Committee Member: Chen, Rachel; Committee Member: Kemp, Melissa; Committee Member: Neves, Ana Rute. Part of the SMARTech Electronic Thesis and Dissertation Collection.

Thesis (Ph. D.)--Washington State University, December 2006. / Includes bibliographical references.

Thesis (Ph. D.)--University of Texas at Austin, 2005. / Supervisor: Edward M. Marcotte. Vita. Includes bibliographical references.

The objective of this investigation has been to develop and evaluate techniques which are appropriate to the modelling and simulation of biological reaction system behaviour. The model used as the basis for analysis of modelling and simulation techniques is a reduced version of the biological model proposed by the IAWPRC Task Group for mathematical modell ing in wastewater treatment design. This limited model has the advantage of being easily manageable in terms of analysis and presentation of the simulation techniQues whilst at the same time incorporating a range of features encountered with biological growth applications in general. Because a model may incorporate a number of different components and large number of biological conversion processes, a convenient method of presentation was found to be a matrix format. The matrix representation ensures clarity as to what compounds, processes and react ion terms are to be incorporated and allows easy comparison of different models. In addition, it facilitates transforming the model into a computer program. Simulation of the system response first involves specifying the reactor configuration and flow patterns. With this information fixed, mass balances for each compound in each reactor can be completed. These mass balances constitute a set of simultaneous non-linear differential and algebraic eQuations which, when solved, characterise the system behaviour.

Understanding the mechanisms that structure biological systems is a primary goal of biology. My research shows that the biological structure is constrained in important ways by general variables such as the number of base pairs in a genome and the number of individuals and species in a community. I used a combination of macroecology, bioinformatics, statistics, mathematics, and advanced computing to pursue my research and published several peer-reviewed scientific manuscripts and open-source software as a result.I was funded through a combination of fellowships and scholarships awarded by the Utah State University School of Graduate Studies, College of Science, and Department of Biology, as well as teaching assistantships awarded through the Department of Biology at Utah State University, and research assistantships funded through a CAREER grant from the U.S. National Science Foundation (DEB-0953694) awarded to my advisor, Dr. Ethan White. With the help of my advisor, I also obtained a computing grant from Amazon Web Services in the amount of $7,500. Altogether, funding for my research and education totaled approximately $123,500. Using over 9000 communities of plants, animals, fungi, and microorganisms, I demonstrated that the forms of empirical species abundance distributions (SADs) are constrained by total abundance and species richness. Using over 300 microbial genomes, I demonstrate that nucleotide aggregation is constrained by genome length and differs between regions of coding and noncoding DNA. General state variables of genomes and ecological communities (i.e. genome length, total abundance and species richness) constrain simple structural properties of each system.

Thesis (Ph.D.)--Tufts University, 2005. / Adviser: J. Michael Reed. Submitted to the Dept. of Biology. Includes bibliographical references (leaves 126-135). Access restricted to members of the Tufts University community. Also available via the World Wide Web;