Search results | J. Murrey Atkins Library

Title: Assessments of Indel Annotation Programs and Comparative Somatic Indel Analysis in Cancer Genomes
Author: Chen, Jing
Date Created: 2020
Subjects--Topical: Bioinformatics
Description: Insertions and deletions (indels) represent the second largest variation type in human genomes and have been implicated in the development of cancer. Accurate indel annotation is of paramount importance in variants analysis in both healthy and dis...

Title: Evolution and dynamics of transcriptional regulation in bacteria
Author: Li, Shan
Date Created: 2013
Subjects--Topical: Computer science, Statistics, Bioinformatics
Description: Although transcription is one of the most important biological functions of cells, our understanding of its regulation is still limited. In this dissertation, we have studied the transcriptional regulation in prokaryotes in three aspects. First, w...

Title: High Order H(div) Discontinuous Galerkin Methods for MHD Equations
Author: Wu, Jian
Date Created: 2016
Subjects--Topical: Mathematics
Description: In this dissertation, we investigate the divergence-free discontinuous Galerkin method using the $\mathcal{H}$(\textbf{div}) basis, to solve the nonlinear ideal magnetohydrodynamics (MHD) equations. This is a novel approach to ensure the divergenc...

Title: Next-Generation Sequencing Based Quantification of Microbial Communities and Gene Pathways
Author: Jones, Roshonda
Date Created: 2016
Subjects--Topical: Bioinformatics
Description: Humans act as a host to trillions of microorganisms. The collective of these microorganisms is called a host’s microbiota. There is a growing interest in the bacterial composition of the gut microbiome of humans (structure) and the role of the mic...

Title: On Compositionally Aware and Naïve Approaches to Normalization of 16S Microbiome Data
Author: Yerke, Aaron
Date Created: 2022
Subjects--Topical: Bioinformatics
Description: Compositional data refers to any data that represents parts of a whole, and DNA sequencing data is compositional in nature. This is due to the constraint on our current sequencing technologies that allow us to record a sample of the sequences rath...

Title: Prediction of Cis-regulatory Modules in Genomes
Author: Ni, Pengyu
Date Created: 2020
Subjects--Topical: Bioinformatics
Description: Annotating all cis-regulatory modules (CRMs) and constituent transcription factor (TF) binding sites (TFBSs) in genomes is essential to understand genome functions, however, the task remains highly challenging. In this dissertation, we first devel...

Title: THE ROLE OF XRCC1 AND POLYMERASE BETA IN GENOME INTEGRITY IN XENOPUS EGG EXTRACTS
Author: Cupello, Steven
Date Created: 2019
Subjects--Topical: Molecular biology, Biology, Cytology
Description: Cells of organisms are constantly exposed to genomic insults such as oxidative stress from endogenous sources or environmental agents. Oxidative stress induces oxidative DNA damage such as apurinic/apyrimidinic (AP) sites, single-strand breaks (SS...

Title: USING BIOINFORMATICS TO ANALYZE THE ROLE OF MICROBIAL TAXA IN COMPLEX ECOSYSTEMS
Author: Sanapareddy, Nina
Date Created: 2011
Subjects--Topical: Medicine, Bioinformatics, Information technology
Description: Microbes are abundant on earth and play a crucial role in the environment they inhabit. Before the dawn of metagenomics, the study of the effect of microorganisms on their environment was limited due to use of low throughput techniques that could ...