Parameters Estimation for Stochastic Genetic Evolution of Asexual Populations

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dc.contributor.advisorAzencott, Robert
dc.contributor.committeeMemberTörök, Andrew
dc.contributor.committeeMemberTimofeyev, Ilya
dc.contributor.committeeMemberAzevedo, Ricardo B. R.
dc.creatorSarkisov, Sergey S. 1986-
dc.date.accessioned2018-03-12T18:58:09Z
dc.date.available2018-03-12T18:58:09Z
dc.date.createdDecember 2017
dc.date.issued2017-12
dc.date.submittedDecember 2017
dc.date.updated2018-03-12T18:58:09Z
dc.description.abstractThe evolution of asexual microorganisms depends primarily on their selective advantages (fitnesses) and mutation rates. Previous attempts to estimate these parameters failed for realistic cases with multiple mutations. This work proposes a new method of extracting key parameter features. The prime goal is to develop and verify this method. The objectives are: to make a stochastic model; to extract parameters via fitting frequency curves; to find estimates for the parameters; to expand the methodology to multiple events; to evaluate the estimation quality. The fitting errors were of the order of 10^(-2). Depending on the number of runs per simulated experiment, ranging between 10^2 and 10^5, the successful prediction of the number of possible mutants was within 78% and 99.4%, respectively. Their selective advantage estimates had relative errors of 2%-8%. The estimation algorithm was consistent as it withstood different parameter alterations in experiment sizes, mutation rates, and transition probability distributions. The algorithm was verified for up to 6 possible genotypes. The now-verified method can be applied to the understanding of growth patterns of microorganisms (such as Escherichia coli). Further, it can be generalized so as be applied to more complex species.
dc.description.departmentMathematics, Department of
dc.format.digitalOriginborn digital
dc.format.mimetypeapplication/pdf
dc.identifier.urihttp://hdl.handle.net/10657/2883
dc.language.isoeng
dc.rightsThe author of this work is the copyright owner. UH Libraries and the Texas Digital Library have their permission to store and provide access to this work. Further transmission, reproduction, or presentation of this work is prohibited except with permission of the author(s).
dc.subjectStochastic
dc.subjectRandom processes
dc.subjectRare events
dc.subjectModeling
dc.subjectParameter estimation
dc.subjectAlgorithms
dc.subjectGenetics
dc.subjectAdaptive
dc.subjectEvolution
dc.subjectBiomath
dc.subjectMathematics
dc.subjectMutations
dc.subjectMutant
dc.subjectAsexual populations
dc.subjectE. coli
dc.subjectAntigens
dc.subjectBacteria
dc.titleParameters Estimation for Stochastic Genetic Evolution of Asexual Populations
dc.type.dcmiText
dc.type.genreThesis
local.embargo.lift2019-12-01
local.embargo.terms2019-12-01
thesis.degree.collegeCollege of Natural Sciences and Mathematics
thesis.degree.departmentMathematics, Department of
thesis.degree.disciplineMathematics
thesis.degree.grantorUniversity of Houston
thesis.degree.levelDoctoral
thesis.degree.nameDoctor of Philosophy

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