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 65 for “"Fine mapping"”.
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Allele-Specic QTL fine-mapping with PLASMA
We introduce PLASMA (PopuLation Allele-Specic MApping), a statistical ne- mapping method that leverages allele-specic (AS) genomic data to improve detection of quantitative trait loci (QTLs) with causal effects on molecular traits. In simulations, PLASMA accurately prioritizes causal QTL variants …
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Fine Mapping and Candidate Gene Discovery at the Rsv3 Locus
… was used to design molecular markers for fine mapping Rsv3 to a ~150 kb genomic region containing four coiled-coil nucleotide-binding leucine-rich repeat proteins. In a related study a large population segregating at the Rsv3 locus was screened for resistance to facilitate future …
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Initial Fine Mapping of the Spinach Downy Mildew Resistance Locus RPF1
… In the current study, efforts were initiated to fine-map the Dm-1 marker relative to the <em>RPF1</em> locus. To address this objective, a spinach BAC library that was previously developed from line NIL1 containing Dm-1 and <em>RPF1 </em> was evaluated. Southern blot hybridizations identified 19 …
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Fine Mapping and Evolution of a QTL Region on Cattle Chromosome 3
… haplotypes of offspring were then used to define linkage disequilibrium (LD) within the QTL critical region. There were 15 LD blocks found to be shared among all three sires, covering 0.5 Mbp within the 9.7 Mbp region. These regions may contain QTL alleles carried by all three sires. Fst …
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Fine mapping and characterization of genes involved in maize nitrogen utilization efficiency
… Lines (IBMRIL) X Illinois High Protein (IHP) mapping population. Previous QTL mapping experiments using this population have identified 9 robust genomic regions associated with NUtE and associated traits. In order to identify candidate genes in additional QTL from the IBMRIL X IHP mapping …
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Variation in Recombination Rate on BTA23: Fine Mapping and Construction of a YAC Contig
To estimate the actual physical distance and to identify the putative DNA sequences responsible for variation in $\Theta$, a partial YAC contig was constructed for the D23S22-D23S23 interval. Primary screening of a YAC library yielded 17 YAC clones (sized from 180-2200 kb). For all YACs, YAC-end …
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Fine mapping studies of quantitative trait loci for baseline platelet count in mice and humans
… number. The aim of this project has been to fine map quantitative trait loci previously identified in a murine F2 cross, of which two (Pltct1 and Pltct2) had been found to reach genome-wide statistical significance. Fine mapping was attempted by three independent approaches. First, a human …
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Linkage fine-mapping, GWAS and QTLs affecting morpho-agronomic traits of a common bean RIL population
… is the DNA marker-assisted selection. Linkage mapping (LM) is the most common approach to detect molecular markers associated to quantitative trait loci (QTL). The abundance of molecular markers in the genome of the species made of association mapping (AM) a new methodology to QTLs detection. …
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Fine-Mapping Tools : an interactive framework for dissecting disease-associated genetic loci with functional genomics data
Fine mapping causal SNPs from GWAS summary statistics is hard. Although many frame- works exist to support fine mapping, some of which leverage epigenomic contexts to increase predictive power, they fail to provide interactivity. Here, we introduce Fine-Mapping Tools (fm-tools), a framework for …
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Context-Driven Prior Distributions in Genome–Wide Association Studies, Medical Device Adaptive Clinical Trials, and Genetic Fine-Mapping
Present research has gravitated towards making inferences from high-dimensional data, the scenario when we have considerably more variables than the number of observations we have to estimate their effects on a given outcome, and standard statistical methodology cannot be used here. Models assuming …
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Fine mapping of the protein QTL cqSeed protein-001 from PI 407788A and genome-wide association mapping in the soyNAM populations using DNA cytosine methylation
… can be improved without sacrificing yield. The fine mapping and further characterization of the QTL cqSeed protein-001, an important QTL that impacts protein and oil concentration, can facilitate such improvement in soybean. In addition, the contribution of epigenetic variation to phenotypic …
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Variable selection for generalized linear mixed models and non-Gaussian Genome-wide associated study data
… BG2 and IBG3 have two steps: screening step and fine-mapping step. In the screening step, BG2 and IBG3, like SMA method, only have one SNP in one model and screen to obtain a subset of most associated SNPs. In the fine-mapping step, BG2 and IBG3 consider all possible combinations of screened …
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Massively parallel analysis of the functional effects of mutations
… with modern mutagenesis techniques allows for fine mapping of the link between genotype and phenotype. In this dissertation, I first discuss the current state of the field of using massively parallel assays and analysis to study the functional effects of mutations on both coding and non-coding …
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Statistical methods to improve understanding of the genetic basis of complex diseases
… Following this, identified regions can be fine-mapped with the aim of deducing the specific sequence variants that are causal for the disease of interest. Functional genomic data is now routinely generated from high-throughput experiments. This data can reveal clues relating to disease …
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Improvement of soybean breeding via high throughput phenotyping and disease resistance
… variation in conferring resistance is not well defined. The repeat number ranges from one to 10 and there are three variant repeat sequence types [PI 88788-'Fayette' type (F), 'Peking' type (P) and Williams 82 type (W)] across diverse soybean germplasm. We developed populations segregating for …
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GENETIC DISSECTION OF MATURITY DATE IN PEACH AND APRICOT REVEAL A ROLE FOR CONSERVED GENE NETWORKS
… approached by numerous studies. Usage of QTL mapping led to the identification of stable loci, both in peach, with qMD4.1 and in apricot that yet show several limitation, such as the scarcity of large segregating populations and high heterozygosity, hindering clear-cut identification of …
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Understanding the genetic and physiological control of pre-harvest sprouting and pre-maturity amylase in UK wheat
… the effects of these QTL, as well as to fine-map the QTL with the most significant effect. To achieve these aims, isogenic materials were developed to independently study these QTL effects. Physiological characterisation of these QTL showed that they exert their effects by affecting the …
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Gene polymorphisms in SLE
… candidate genes identified. During this thesis I fine mapped IL18 as it had previously been reported to be associated with SLE, SNP rs360719. After fine mapping and subphenotype analysis in UK and African American cohorts, I was unable to replicate the published association. Although genetic data …
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Identifying and dissecting novel QTL regulating seed fatty acid composition in Arabidopsis thaliana for the improvement of rapeseed oil
… the NG population for 18:2/18:1 was chosen for fine mapping and the region containing the causative locus for the QTL was narrowed down to 2Mb. Seven candidate genes within that region were identified which could be targeted in further fine mapping in the future. In addition, a comparative …
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Statistical Techniques to Fine Map the Related Genetic Aetiology of Autoimmune Diseases
… design; one of these extensions also enables fine mapping in the case of shared variants. My analysis of four autoimmune diseases identified 90 regions associated with at least one disease, 33 of which were associated with 2 or more disorders; 14 of these had evidence of distinct causal …
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