Global ETD Search
Search theses and dissertations gathered from participating repositories worldwide. Every result links back to the library that holds it. No account is needed.
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Showing 1 to 20 of 229 for “"High throughput sequencing"”.
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High Throughput Sequencing of SARS-CoV-2
… in the Nebraska region. Here, we streamlined a sequencing pipeline by optimizing several factors at each step of the process including initial sample quality, RNA isolation method, and sequencing platforms which all contribute to quality sequencing results. We experimentally determined that the …
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Improving quality of high-throughput sequencing reads
Rapid advances in high-throughput sequencing (HTS) technologies have led to an exponential increase in the amount of sequencing data. HTS sequencing reads, however, contain far more errors than does data collected through traditional sequencing methods. Errors in HTS reads degrade the quality of …
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Bayesian Spatial Analysis of High Throughput Sequencing Data
… has witnessed the development and wide use of high-throughput sequencing data in biology. The recent advancement of RNA Sequencing (RNA-Seq) coupled with other molecular technologies such as methylated RNA immunoprecipitation (MeRIP) and spatial barcoding has delivered more specialized platform …
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Understanding Inflammatory Bowel Disease using High-Throughput Sequencing
… Now, with the advent of next-generation sequencing technology, we are able to interrogate rare and low frequency variation in a high throughput manner for the first time. This provides an exciting opportunity to investigate the role of rarer variation in complex disease risk on a …
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Examination of mammalian microRNAs by high-throughput sequencing
… understanding miRNA gene regulation. Advances in high-throughput sequencing technology have led to discoveries of novel small RNA genes and identifications of their properties. We describe a method for construction of small-RNA library for Illumina sequencing platform that improves upon previous …
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High-throughput sequencing to understand pathogen carriage and transmission
Genomic sequencing is a powerful technology in the study of pathogen biology and pathogen transmission. In this thesis I have studied the human nasal carriage of *Staphylococcus aureus* and, in response to the SARS-CoV-2 pandemic, I examine the transmission of SARS-CoV-2, two critically important …
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Comprehensive evaluation of error correction methods for high-throughput sequencing data
The advent of DNA and RNA sequencing has significantly revolutionized the study of genomics and molecular biology. Development of high-throughput sequencing technologies have brought about a quick and cheaper way to sequence genomes. Different technologies use different underlying methods for …
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Molecular characterization of novel soybean-associated viruses identified by high-throughput sequencing
High-throughput sequencing of mRNA from soybean leaf samples collected from North Dakota and Illinois soybean fields revealed the presence of two novel soybean-associated viruses. The first virus has a single-stranded positive-sense RNA genome consisting of 8,693 nt that contains two large open …
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Transcription Factor Dynamics Investigated through Single-Molecule Imaging, High-Throughput Sequencing, and Neural Networks
The general metadata -- e.g., title, author, abstract, subject headings, etc. -- is publicly available, but access to the submitted files is restricted to UT Southwestern campus access and/or authorized UT Southwestern users.
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Predicting protein-DNA interactions using statistical modeling and biophysical representations of high-throughput sequencing data
… with DNA by applying statistical modeling on high-throughput sequencing data. First, we investigate the action of DNA methyltransferases in a yeast species naturally free of DNA methylation. Using bisulfite-seq and RNA-seq, we measure DNA methylation rates and the impact of induced methylation …
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Antarctic biodiversity surveys using high throughput sequencing: understanding landscape and communities of the Prince Charles Mountains.
… long history of isolation is responsible for a high degree of endemism. Of major concern is the establishment of non-indigenous species facilitated by human-mediated climate change and increased human activity, threatening the highly specialised endemic species. A lack of baseline information on …
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Development of new tools and applications for high-throughput sequencing of microbiomes in environmental or clinical samples
Novel sequencing technologies are rapidly advancing studies of microbial community structure and diversity. Sequencing platforms like the Illumina Genome Analyzer II (GAI1) and the Applied Biosystems SOLiD enable experiments that were previously too expensive or time-consuming by providing a very …
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High-throughput sequencing of RNA 5'- and 3'-termini yields insights into viral and vertebrate gene expression
Next-generation sequencing techniques are unparalleled in their resolution and dynamic range, but are limited by read depletion at transcript ends. Protocols that specifically target these ends overcome this limitation and enable the study of biological phenomena that would otherwise prove …
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Cell Fate Specification and the Regulation of RNA-dependent DNA Methylation in the Arabidopsis Root Meristem
… thesis takes advantage of the versatility of high-throughput sequencing to address two independent questions about the root meristem. Although a lot of information is known regarding the cell fate decisions that occur at the RAM, cortex specification and differentiation remain poorly …
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Selective Enrichment Through Capture (SEC): A Technology for Retrieving Specific DNA Sequences from Complex Mixtures
… require PCR, or cannot be combined with high-throughput sequencing. The work presented here developed a protocol referred to as selected enrichment through capture (SEC) that uses a biotinylated “capture primer” to target and concentrate specific DNA sequences at high efficiencies, …
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Fusion genes in breast cancer
… particular, breast cancers often have complex, highly rearranged karyotypes which have proved difficult to analyse using classical cytogenetic techniques. The aim of this project was to search for fusion genes in breast cancer by using high-resolution mapping of chromosome rearrangements in …
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Sample Collection and DNA Extraction Methods for Environmental DNA Metabarcoding in Headwater Streams
… to local taxa richness. With the advent of high throughput sequencing and the proliferation of sequence data in public repositories, insights to the biodiversity of communities at the molecular level have been possible. Thus, this study compared commonly used DNA capture (water precipitation …
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Identification of RNA editing in the human exome and development of DARNED DatabaseSF
… computational pipelines on available ESTs and high-throughput sequencing data, and by using chemical methods. However, the functions of only a small number of cases have been studied thoroughly. RNA editing instances have been found to have roles in peptide variants synthesis by non-synonymous …
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Information theoretic and machine learning techniques for emerging genomic data analysis
… a new era for scientists. Through advanced high-throughput sequencing technologies, we now have access to a large amount of genomic data and we can use it to answer key biological questions, such as the factors contributing to the development of cancer. Large data sets and rapidly advancing …
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