Deterministic Parallel Global Parameter Estimation for a Model of the Budding Yeast Cell Cycle

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dc.contributor.authorPanning, Thomas D.en
dc.contributor.committeechairWatson, Layne T.en
dc.contributor.committeememberTyson, John J.en
dc.contributor.committeememberShaffer, Clifford A.en
dc.contributor.departmentComputer Scienceen
dc.date.accessioned2014-03-14T20:39:06Zen
dc.date.adate2006-08-18en
dc.date.available2014-03-14T20:39:06Zen
dc.date.issued2006-05-25en
dc.date.rdate2006-08-18en
dc.date.sdate2006-05-31en
dc.description.abstractTwo parallel deterministic direct search algorithms are combined to find improved parameters for a system of differential equations designed to simulate the cell cycle of budding yeast. Comparing the model simulation results to experimental data is difficult because most of the experimental data is qualitative rather than quantitative. An algorithm to convert simulation results to mutant phenotypes is presented. Vectors of the 143 parameters defining the differential equation model are rated by a discontinuous objective function. Parallel results on a 2200 processor supercomputer are presented for a global optimization algorithm, DIRECT, a local optimization algorithm, MADS, and a hybrid of the two. A second formulation is presented that uses a system of smooth inequalities to evaluate the phenotype of a mutant. Preliminary results of this formulation are given.en
dc.description.degreeMaster of Scienceen
dc.identifier.otheretd-05312006-175717en
dc.identifier.sourceurlhttp://scholar.lib.vt.edu/theses/available/etd-05312006-175717/en
dc.identifier.urihttp://hdl.handle.net/10919/33360en
dc.publisherVirginia Techen
dc.relation.haspartthesis.pdfen
dc.rightsIn Copyrighten
dc.rights.urihttp://rightsstatements.org/vocab/InC/1.0/en
dc.subjectcomputational biologyen
dc.subjectMADS algorithmen
dc.subjectdirect searchen
dc.subjectDIRECT algorithmen
dc.titleDeterministic Parallel Global Parameter Estimation for a Model of the Budding Yeast Cell Cycleen
dc.typeThesisen
thesis.degree.disciplineComputer Scienceen
thesis.degree.grantorVirginia Polytechnic Institute and State Universityen
thesis.degree.levelmastersen
thesis.degree.nameMaster of Scienceen

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