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 20 for “"Genomic signatures"”.
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Graph-based genomic signatures
… to regions of conserved or divergent gene order. Genomic signatures work by capturing one or more such features efficiently into a compact mathematical structure. This work examines the unique manner in which oligonucleotides fit together to comprise a genome, within a graph-theoretic setting. A …
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Hard-wired for success? Unravelling genomic signatures in pollinators
… the evolutionary process and are detectable as genomic signatures unique to the subgenus when compared with other subgenera.<br/>Twenty-four bumblebee species, representing all 15 subgenera and including 6 Pyrobombus species, were compared. <br/>The first study investigated genomic inversions …
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Genomic signatures of sex, selection and speciation in the microbial world
… I develop two new metrics, selective signatures and slow:fast, for detecting deviations from the expected rate of evolution in 'core' proteins (present in single copy in most species). Because they rely on empirical distributions of evolutionary rates across species, these methods …
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Genomic signatures of recent selection at HIV host susceptibility genes in a Central African human population
… residing outside the range of P. t. troglodytes. Genomic regions showing signatures of selection were compared to the genomic locations of AIDS restriction genes (ARGs), genes with known variants that affect HIV-1 infection or AIDS progression. In the Biaka, a strong signal of selection was …
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Computational Approaches to Detect Pathogens in the Presence of Complex Backgrounds
… examine a sample for the presence of pre-defined genomic signatures: short pathogen-specific DNA and/or RNA fragments. Identification of such signatures however, represents significant computational challenges. To be pathogen specific, each signature (or combination of signatures) must be present …
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PU.1-ACTIVATED GENOMIC REGIONS DEFINE LOW-RISK MDS SUBSETS CHARACTERIZED BY IMMUNE DYSREGULATION AND DISEASE PROGRESSION
… leukemia (sAML). This study investigates the genomic signatures associated to disease progression in MDS. To this end, we profiled active genomic regulatory regions and their transcriptional impact through H3K27ac ChIP-seq and RNA-seq analysis on CD34+ bone marrow progenitors cells isolated …
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EVIDENCE EVALUATION IN BIOMEDICAL KNOWLEDGE GRAPHS FOR PHARMACEUTICAL DISCOVERY
… LINCS (Library of integrated network-based cell signatures), i.e. genomic signatures, and IDG (Illuminating the druggable genome) to generate and evaluate hypotheses for novel drug targets from gene expression profiles. TIGA processes data from the NHGRI-EBI GWAS Catalog to aggregate experimental …
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Genomic evidence of long-term asexuality at the northern range limit of wetland plant, Decodon verticillatus (Lythraceae)
… if range-edge, asexual populations show genomic signatures of long-term asexuality consistent with the AEH. Asexual genotypes exhibited higher heterozygosity, fewer unique homozygous SNPs (doubletons), and a breakdown of isolation by distance, supporting the AEH. Asexual genotypes also …
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Epigenetic & transcriptomic alterations associated with childhood maltreatment, major depressive disorder, and post-traumatic stress disorder
… and PTSD during adulthood is characterized by genomic signatures that are largely distinct from those associated with early life adversity. Taken together, these studies contribute to our current understanding of the biologic impact of childhood maltreatment, MDD, and PTSD on DNA methylation …
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The Role of Histone Deacetylase 6 Inhibition on Systemic Lupus Erythematosus
… by using RNAseq to evaluate the transcriptomic signatures of splenocytes from treated and untreated mice coupled with applied computational cellular and pathway analysis. In addition, we sought to bridge between the transcriptomic data obtained from the HDAC6 treated mice and human gene …
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Spatiotemporal population genomics of marine species : invasion, expansion, and connectivity
… In this dissertation, population genetic and genomic tools are used to approach complex and previously intractable fundamental questions pertaining to the non-equilibrium dynamics of species invasions and rapid range expansions in two invasive marine species: the lionfish, Pterois volitans; …
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Spationtemporal population genomics of marine species : invasion, expansion, and connectivity
… In this dissertation, population genetic and genomic tools are used to approach complex and previously intractable fundamental questions pertaining to the non-equilibrium dynamics of species invasions and rapid range expansions in two invasive marine species: the lionfish, Pterois volitans; …
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The Microsatellite Instability High Endometrial Tumor Microenvironment and Identifying Predictive Biomarkers of Response to Pembrolizumab
… (TME) and identify transcriptomic signatures associated with response/resistance to pembrolizumab. Methods: Archival tumor samples from MSI-H endometrial cancer patients treated at MD Anderson Cancer Center were obtained. Tissue samples originating from patients who did not receive …
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Signatures of chromosomal instability in human cancers
… at increasing resolution, revealing an extreme genomic complexity which we are only beginning to understand. As such, CIN has become a hallmark of cancer. Despite its major influence in cancer evolution, fundamental questions as to the frequency of CIN across human cancers, the number of …
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Population genomics and domestication of the Black Soldier Fly (Hermetia illucens L.)
… illucens*. I developed a suite of high-quality genomic resources for this novel agricultural system and used this to investigate the genomic landscape of an inbred *H. illucens* population. I obtained whole-genome sequences for a total of 54 *H. illucens* and an outgroup taxon, *Ptecticus …
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Tumour evolution in ovarian cancer using high-throughput genomics technologies
… ovarian carcinoma (HGSOC) is characterised by genomic instability, ubiquitous TP53 loss, widespread disease at diagnosis and the frequent emergence of platinum resistance. This thesis explores the use of high-throughput genomics technologies to understand if resistance could be explained by the …
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Taxonomic classification of genomic sequences : from whole genomes to environmental genomic fragments
… develop a classifier for assigning environmental genomic fragments to the closest known source organism. This has been achieved by the development of a novel method for the TAxonomic COmposition Analysis - TACOA - of environmental genomic fragments using a kernelized nearest neighbor approach. A …
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Adaptation and hybridization in Helicoverpa crop pests
… In Chapter 1, I assess the utility of population genomics for the study of invasive species in general, specifically considering the use of whole-genome resequencing data. In Chapter 2, I apply these principles to a study of native H. zea in North America. I reveal genomic signatures of selection …
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Omics-driven and constraint-based modelling of microbial community metabolism
… at the intersection of microbial ecology, metagenomics, and metabolic modelling. More specifically, this thesis outlines the development and applications of omics-driven metabolic modelling approaches to understand microbial community metabolism in diverse ecological contexts. I begin by …
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Molecular Signatures of Adaptation: MHC Evolution and Natural Selection in European Rabbits
… Complex (MHC) is a multi-gene family, covering a genomically complex region that plays a pivotal role in immune surveillance and pathogen recognition. Within this region, only a subset of MHC class I (MHC-I) genes encodes classical molecules that present peptides to CD8+ T cells. These molecules …