Open Access. Powered by Scholars. Published by Universities.®
Physical Sciences and Mathematics Commons™
Open Access. Powered by Scholars. Published by Universities.®
Articles 1 - 4 of 4
Full-Text Articles in Physical Sciences and Mathematics
Computational Methods For Oi-Modules, Michael Morrow
Computational Methods For Oi-Modules, Michael Morrow
Theses and Dissertations--Mathematics
Computational commutative algebra has become an increasingly popular area of research. Central to the theory is the notion of a Gröbner basis, which may be thought of as a nonlinear generalization of Gaussian elimination. In 2019, Nagel and Römer introduced FI- and OI-modules over FI- and OI-algebras, which provide a framework for studying sequences of related modules defined over sequences of related polynomial rings. In particular, they laid the foundations of a theory of Gröbner bases for certain classes of OI-modules. In this dissertation we develop an OI-analog of Buchberger's algorithm in order to compute such Gröbner bases, as well …
An Exploratory Statistical Method For Finding Interactions In A Large Dataset With An Application Toward Periodontal Diseases, Joshua Lambert
An Exploratory Statistical Method For Finding Interactions In A Large Dataset With An Application Toward Periodontal Diseases, Joshua Lambert
Theses and Dissertations--Epidemiology and Biostatistics
It is estimated that Periodontal Diseases effects up to 90% of the adult population. Given the complexity of the host environment, many factors contribute to expression of the disease. Age, Gender, Socioeconomic Status, Smoking Status, and Race/Ethnicity are all known risk factors, as well as a handful of known comorbidities. Certain vitamins and minerals have been shown to be protective for the disease, while some toxins and chemicals have been associated with an increased prevalence. The role of toxins, chemicals, vitamins, and minerals in relation to disease is believed to be complex and potentially modified by known risk factors. A …
Novel Computational Methods For Transcript Reconstruction And Quantification Using Rna-Seq Data, Yan Huang
Novel Computational Methods For Transcript Reconstruction And Quantification Using Rna-Seq Data, Yan Huang
Theses and Dissertations--Computer Science
The advent of RNA-seq technologies provides an unprecedented opportunity to precisely profile the mRNA transcriptome of a specific cell population. It helps reveal the characteristics of the cell under the particular condition such as a disease. It is now possible to discover mRNA transcripts not cataloged in existing database, in addition to assessing the identities and quantities of the known transcripts in a given sample or cell. However, the sequence reads obtained from an RNA-seq experiment is only a short fragment of the original transcript. How to recapitulate the mRNA transcriptome from short RNA-seq reads remains a challenging problem. We …
A Novel Computational Framework For Transcriptome Analysis With Rna-Seq Data, Yin Hu
A Novel Computational Framework For Transcriptome Analysis With Rna-Seq Data, Yin Hu
Theses and Dissertations--Computer Science
The advance of high-throughput sequencing technologies and their application on mRNA transcriptome sequencing (RNA-seq) have enabled comprehensive and unbiased profiling of the landscape of transcription in a cell. In order to address the current limitation of analyzing accuracy and scalability in transcriptome analysis, a novel computational framework has been developed on large-scale RNA-seq datasets with no dependence on transcript annotations. Directly from raw reads, a probabilistic approach is first applied to infer the best transcript fragment alignments from paired-end reads. Empowered by the identification of alternative splicing modules, this framework then performs precise and efficient differential analysis at automatically detected …