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 196 for “"Amplicon"”.
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High-throughput Amplicon Sequencing Optimization for Downstream Prediction Purposes
… involves the optimization of a high-throughput amplicon sequencing assay targeting ~2,000 SNPs associated with pigmentation, facial morphology, and ancestry. Over 400 samples were processed through a genotyping pipeline involving DNA extraction, library preparation with a modified version of a …
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Forest soil bacterial community analysis using high-throughput amplicon sequencing
Muldade rikkalike mikroobikoosluste uurimist on siiani palju takistanud tõsiasi, et enamik mulla mikroobe on kultiveerimatud. Seda kitsaskohta aitab leevendada lähenemine nimega metagenoomika, mis tähistab uurimistööd otse keskkonnaproovidest eraldatud geneetilise materjaliga. Selliste andmete …
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Alignments and beyond: A versatile swarm-based framework for de novo amplicon clustering
… sequencing and the resulting massive amplicon data sets have become an essential element of research in the life sciences. While they provide the basis for new insights in various disciplines, the continuously increasing size of the data sets challenges the involved bioinformatics …
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Vergleichende Analyse herpesviraler Amplicon-Vektoren am Beispiel von Antigenen des Humanen Papillomvirus-16
… VERPACKUNGSSYSTEME FÜR HERPESVIRALE AMPLICON-VEKTOREN AM BEISPIEL VON ANTIGENEN DES HUMANEN PAPILLOMVIRUS-16 Amplicon-Vektoren sind aufgrund ihrer (i) enormen Transgenkapazität von bis zu 152 kbp, (ii) ihres breiten Wirtsspektrums und (iii) der hohen Toleranz des natürlichen Wirts …
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Metagenomic amplicon sequencing as a rapid and high-throughput tool for aquatic biodiversity surveys
… system management. In particular, metagenomics amplicon sequencing of environmental DNA (eDNA) can characterize hundreds to thousands of species within a single sample in a timely and cost effective manner, and allow hundreds of samples to be sequenced in a single reaction. This PhD thesis aims …
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Evaluation of bacterial sampling methods for use with the bacterial tag-encoded flexible (FLX) amplicon pyrosequencing (bTEFAP) technique
… former, Bacillus atrophaeus. Tag-encoded FLX amplicon pyrosequencing analyses utilized Roche 454 FLX instrument with DNA extraction, massively parallel bTEFAP and bacterial identification data analysis was performed at the Research and Testing Laboratory (Lubbock, TX). Results: From an initial …
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Design and characterization of novel immunogens for AIDS vaccine development and evaluation of a sample inference method for NGS Illumina amplicon data
… neutralizing epitopes.</p> <p>Illumina amplicon sequencing is an important tool for the identification and quantification of species or variants in metagenomics studies, but sequencing errors make it challenging to correctly identify the authentic differences. Many denoising algorithms …
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Profiling Bacterial Community Dynamics For Wildlife Ecology and Geological Mineral Exploration
… environments. Bacterial community 16S rRNA gene amplicon sequencing is an approach to microbiome exploration that profiles community composition, structure, and dynamics across environmental conditions. In this thesis, 16S rRNA gene amplicon sequencing is used to investigate the bacterial …
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Characterisation of diverse microbial communities and application of novel detection techniques
… structure. We applied 16S rRNA and ITS gene amplicon sequencing method with 454 sequencing technology to form a detailed taxonomic description of studied communities. The produced sequence data was further utilised in designing probes for a new padlock probe based ligation detection reaction …
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Seafloor Sediment Bacterial Community Profiling for Baselines and Environmental Effects Monitoring at a Deep-Sea Oil Production Site Offshore Nova Scotia, Canada
… were used to generate 51 bacterial 16S rRNA gene amplicon libraries (V3-V4 region) to form a DNA baseline. A 300-day-long mock oil spill experiment using Scotian Slope sediment identified potential bacterial bioindicators of pristine and contaminated conditions, relative to baseline, underpinning …
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The effects of natural selection on human Y chromosome amplicons
… genes. However, these studies bypassed the amplicons-large, highly identical segmental duplications-which are a prominent feature of mammalian Y chromosomes and contain many genes crucial for spermatogenesis. In this thesis, we present evidence that natural selection acts on the ampliconic …
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Advancing RNA Virus Discovery and Biology with Whole Genome Sequencing
… this specific gap, I developed a versatile amplicon-based whole-genome sequencing (WGS) approach to identify viral genomes of hantaviruses and severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) within reservoir and spillover hosts.</p> <p>In my research studies, I used the …
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Genetic diversity of Anopheles mosquitoes
… with a specific focus on inversions. The ANOSPP amplicon panel is a genus-wide targeted sequencing panel to facilitate large-scale monitoring of Anopheles species diversity. Combining information from the 62 nuclear amplicons present in the ANOSPP panel allows for a more sensitive and specific …
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The gut microbiota in immune-mediated disorders
… associated with health and disease status. Amplicon and metagenomic whole genome shotgun (mWGS) sequencing were employed along with extensive meta-data analyses. Using robust and rigorous statistical approaches on the amplicon dataset, I identified a set of key taxa that are differentially …
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Identification of morphologically similar species of necrophagous flies (diptera: calliphoridae) in Oklahoma : reliability and application of techniques in a forensic setting.
… of the coast of New Hampshire. A 308 basepair amplicon within the cytochrome oxidase I gene of mitochondrial DNA was obtained for twenty-four specimens. An additional genomic location was targeted to support the robustness of laboratory analyses. A 330 basepair amplicon within the 28S large …
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Developmental regulation of DNA replication initiation in Drosophila
… from these origins. The Drosophila Follicle Cell Amplicon at the cytological location 62D, DAFC-62D, is uniquely regulated, with two separate rounds of amplification in developmental stages 10 and 13 of egg chamber development. We investigated mechanisms that control the unusual timing of DAFC-62D …
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The Role of Acidic Fibroblast Growth Factor and Fibroblast Growth Factor Receptor 4 In High Grade Serous Carcinoma
… grade serous ovarian carcinoma. Although the amplicon contains over 50 genes, it is notable for the presence of several members of the fibroblast growth factor signaling axis. In particular acidic fibroblast growth factor (<em>FGF1</em>) has been demonstrated to be one of the driving genes in …
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DNA profiling of single sperm cells and single skin flakes in forensics using micromanipulation and whole genome amplification.
… mock mixed DNA evidence. Additionally, a small amplicon-based NGS method was tested on single skin flakes. Compared to the PCR and CE approach, the small amplicon-based NGS method improved DNA profiling of single skin flakes, giving a significant increase in allele recovery. In conclusion, this …
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Malignant hyperthermia: allele specific expression and mutation screening of the ryanodine receptor 1 : a dissertation presented to Massey University in partial fulfilment of the requirements for the degree of Doctor of Philosophy in Biochemistry
… RYR1 mRNA stabilities. Secondly, high-throughput amplicon sequencing was employed for the quantification of both the T4826I and H4833Y causative MH mutations in heterozygous MHS samples. With the exception of one, all detected H4833Y and T4826I mutation frequencies were about 50%. This included a …
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Microbial transformation of arsenic in Bengal floodplain
… in Bangladesh. In the present study, 16S rRNA amplicon sequencing and metagenomics (Illumina), alongside chemical analysis in paddy and nonpaddy soils, from Holocene and Pleistocene regions, of Bangladesh to investigate microbial composition and functional diversity of arsenic metabolism genes …
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