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Spring 2019
Many real-world problems can be formulated as combinatorial optimization problems, thus making it very important to find efficient methods to solve them, both theoretically and practically. In this thesis, we consider several NP-hard combinatorial optimization problems, consisting of some...
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Fall 2015
How to evaluate the performance of an algorithm is a very important subject in computer science, for understanding its applicability, for understanding the problem which it is applied to, and for the development of new ideas that help to improve the existing algorithms. There are two main...
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Fall 2009
This work focuses on the evaluation of a bagging EB method in terms of its ability to select a subset of QTL-related markers for accurate EBV prediction. Experiments were performed on several simulated and real datasets consisting of SNP genotypes and phenotypes. The simulated datasets modeled...
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Spring 2011
In this thesis, we present our work on two combinatorial optimization problems. The first problem is the Bandpass problem, and we designed a linear time exact algorithm for the 3-column case. The other work is on the Complementary Maximal Strip Recovery problem, for which we designed a...
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Machine learning classification of plant genotypes grown under different light conditions through the integration of multi-scale time-series data
DownloadFall 2023
In order to mitigate the effects of a changing climate, agriculture requires more effective evaluation, selection, and production of crop cultivars in order to accelerate genotype-to-phenotype connections and the selection of beneficial traits. Critically, plant growth and development are highly...
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Fall 2011
High-throughput single nucleotide polymorphism (SNP) genotyping technologies conveniently produce large SNP genotype datasets for genome-wide linkage and association studies. Various factors, from array design and hybridization, can give rise to a certain percentage of missing calls, and the...
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Fall 2024
The COVID-19 pandemic accelerated the development of mRNA vaccines, yet iden- tifying the optimal mRNA sequence for human use, particularly for the SARS-CoV- 2 spike protein, remains challenging. This thesis focuses on optimizing the open reading frame (ORF), a crucial mRNA component composed of...
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Fall 2017
In this dissertation, I focus on the study of genotype imputation in population data. Genotype imputation is a process of inferring missing values for genotype data and has been extended to predicting “untyped” genotypes for samples in low-density chips with a reference population assayed using...