Search results | J. Murrey Atkins Library

Title: VIBRIO VULNIFICUS VIRULENCE AND SURVIVAL MECHANISMS REVEALED THROUGH COMPARATIVE MICROBIAL GENOMIC ANALYSIS
Author: Morrison, Shatavia
Date Created: 2013
Subjects--Topical: Bioinformatics
Description: A sound genome assembly and robust annotations are essential to the differential analysis of bacterial genomes. Using a case study data set of newly sequenced Vibrio vulnificus genomes, both the biology of these bacteria, and the bioinformatics pr...

Title: Understanding gene transcriptional regulation at single cell resolution
Author: Xu, Chen
Date Created: 2015
Subjects--Topical: Bioinformatics
Description: The recent advance of single-cell technologies has provided an unprecedented opportunity to bring new insights into many complex biological phenomena, such as the regulation of cell differentiation in a multi-cellular organism and cell-to-cell var...

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 ...

Title: UNDERSTANDING GENOME-WIDE GENE REGULATION IN PROKARYOTES USING OMICS DATA
Author: Seyedi Tabari, Seyed Ehsan
Date Created: 2016
Subjects--Topical: Bioinformatics, Information science, Biometry
Description: Gene annotation is a critical step for understanding functions of genomes and host organisms. However, accurately annotating thousands of sequenced genomes can be a challenging task. Further, although gene transcriptional regulation is crucial for...

Title: UNDERSTANDING BIAS IN NEXT-GENERATION SEQUENCING TECHNOLOGIES AND ANALYSES
Author: Price, Adam
Date Created: 2017
Subjects--Topical: Biology, Bioinformatics, Biophysics
Description: The problem of bias resulting from biological and technological sources is one that must be consistently reexamined alongside the development of new technologies and methods of analysis. This dissertation addresses the complexities of bias identif...

Title: Toward understanding protein-DNA interactions
Author: Lin, Maoxuan
Date Created: 2020
Subjects--Topical: Biology, Bioinformatics, Biochemistry
Description: Knowledge of protein-DNA interactions has important implications in understandingbiological activities and developing therapeutic drugs. Two types of protein-DNAinteractions exist: (1) interactions between double-stranded DNA-binding proteins(DSBs...

Title: The influence of wastewater treatment on community dynamics among antibiotic-resistant bacteria during treatment, stream release, and biosolids land application.
Author: Sorgen, Alicia
Date Created: 2020
Subjects--Topical: Microbiology, Bioinformatics, Ecology
Description: Wastewater treatment plants (WWTP) are a key link between anthropogenic activity and the environment, facilitating the development and horizontal transfer of antibiotic resistance among populations of commensal environmental microorganisms and cli...

Title: The in-vivo Evolution of Burkholderia multivorans in a Cystic Fibrosis patient
Author: Harrison, Sarah
Date Created: 2021
Subjects--Topical: Biology, Microbiology, Bioinformatics
Description: ABSTRACT Burkholderia multivorans is an opportunistic pathogen that poses a health risk to patients with cystic fibrosis (CF). The use of broad-range antibiotics to combat chronic bacterial lung infections has led to the evolution of antibiotic-re...

Title: The evolution of flavonoid pathway in legumes
Author: Safari, Sajedeh
Date Created: 2016
Subjects--Topical: Bioinformatics
Description: Considering the ever growing world population as well as climate change, it has become essential to improve crops in order to reach higher yields, more tolerance to pests and droughts, and better adaptation to different environments. The advanceme...

Title: The effect of structure in short regions of DNA on measurements on short-oligonucleotide microarray and Ion Torrent PGM sequencing platforms
Author: Khoshnevis, Saeed
Date Created: 2013
Subjects--Topical: Bioinformatics
Description: Single-stranded DNA in solution has been studied by biophysicists for many years, as complex structures, both stable and dynamic, form under normal experimental conditions. Stable intra-strand formations affect enzymatic technical processes such a...

Title: The Semantics of Diet and Health: Knowledge Based Discovery Through Data Integration, Text Mining, and Network Analysis
Author: Linchangco, Richard
Date Created: 2018
Subjects--Topical: Bioinformatics
Description: Consumption of fruits and vegetables has been linked to a reduced risk of cancer and other chronic diseases, but the molecular mechanisms supporting these connections remain largely unknown. A wealth of association data linking components of a pla...

Title: The Microbiota Multiverse: From Gut to Brain and Beyond
Author: Brown, Matthew
Date Created: 2019
Subjects--Topical: Microbiology, Bioinformatics
Description: This work explores the microbiomes of diverse biological contexts with various stakeholders and collaborators. It consists of six objectives: the first two relate to interaction between the gut microbiome and host health, the second two investigat...

Title: THERMODYNAMIC AND MECHANICAL EFFECTS OF DISULFIDE BONDS IN CXCL7 CHEMOKINE
Author: Singer, Christopher
Date Created: 2015
Subjects--Topical: Physics, Bioinformatics, Biophysics
Description: Chemokines are a family of signaling proteins mainly responsible for the chemotaxis of leukocytes, where their biological activity is modulated by their oligomerization state. Here, the dynamics and thermodynamic stability are characterized in mon...

Title: THE EFFECT OF TARGET SECONDARY STRUCTURE ON MICROARRAY DATA QUALITY
Author: Ratushna, Vladyslava
Date Created: 2010
Subjects--Topical: Bioinformatics, Biophysics
Description: DNA microarrays have become an invaluable high throughput biotechnology method, which allows a parallel investigation of thousands of cellular events in a single experiment. The principle behind the technology is very simple: fluorescently labeled...

Title: Systematic Analysis of Antibiotic Resistance Genes (ARGs) in Water and Environmental System
Author: Park, Sol
Date Created: 2021
Subjects--Topical: Environmental engineering, Bioinformatics, Water resources development--Management
Description: The global research community is aware of the prevalence and ubiquity of antibiotic resistant genes (ARGs) which is increasing over time due to human activities (Allen et al. 2010; Baquero, Martínez, and Cantón 2008; Bergeron et al. 2016; Di Cesar...

Title: Studies on the relationships between oligonucleotide probe properties and hybridization signal intensities
Author: Gharaibeh, Raad
Date Created: 2009
Subjects--Topical: Computer science, Statistics, Bioinformatics
Description: Microarray technology is a commonly used tool in biomedical research for assessing global gene expression, surveying DNA sequence variations, and studying alternative gene splicing. Given the wide range of applications of this technology, comprehe...

Title: Structural analysis of protein-DNA binding specificity and its application to protein-DNA docking assessment
Author: Corona de la Fuente, Rosario
Date Created: 2016
Subjects--Topical: Bioinformatics
Description: DNA-binding proteins are involved in essential biological processes including gene expression, DNA packaging and DNA repair. They bind to DNA target sequences with different degrees of binding specificity, ranging from highly specific to non-speci...

Title: Stability, resistance and change in mammalian microbiota and their associations with host health
Author: Spencer, Melanie
Date Created: 2011
Subjects--Topical: Biology, Microbiology, Bioinformatics
Description: What is the nature of a complex organism? Metagenomic research and its insights into biosystem function have fundamentally altered the answer to this question. High-throughput sequencing technology has revealed the multitude of microbes that live ...

Title: Sequencing and annotation of diploid oat genomes and the investigation of Avena-specific nutrients
Author: Walstead, Rachel
Date Created: 2019
Subjects--Topical: Bioinformatics, Genetics, Botany
Description: Cultivated hexaploid oat (Avena sativa) has held a significant place within the global crop community for centuries; although its cultivation has decreased over the past century, its nutritional benefits have garnered increased interest for human ...

Title: STUDIES ON CORRELATED MUTATIONS ALGORITHMS OF PROTEINS PROVIDING STRUCTURAL, SPATIAL, AND ALLOSTERY INFORMATION FROM MULTIPLE SEQUENCE ALIGNMENTS
Author: Kreth, Kyle
Date Created: 2013
Subjects--Topical: Bioinformatics
Description: Proteins provide innumerable cellular functions and benefits for all kingdoms in the domains of life. Advancements in the high throughput collection and analysis of proteins have led to ever-deeper understanding of biological pathways, evolution, ...