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 48 for “"Transcriptome Sequencing"”.
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Characterisation of Epicoccum spp. secondary metabolism genes through de novo genome and transcriptome sequencing
… differential expression analysis by mRNA sequencing allowed the identification of the epn gene cluster for epipyrone synthesis, which was strongly upregulated in epipyrone-inducing conditions. The cluster contains six genes, including expected genes for a highly reducing PKS (epnA) and …
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Accurate Estimation of Isoform and Gene Expression Levels from Next Generation Sequencing Data
<p>Massively parallel transcriptome sequencing is quickly replacing microarrays as the technology of choice for performing gene expression profiling due to its wider dynamic range and digital quantitation capabilities. However, accurate estimation of expression levels from sequencing data remains …
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Determining patterns of cancer drug resistance from autopsy patients
… The dataset of whole-exome, whole genome and transcriptome sequencing data from advanced cancer samples uniquely captures genomic and transcriptomic information from multiple lesions of the same patient for advanced study of how resistance develops on the systemic level. Additionally, …
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Scalable methods for storage, processing and analysis of sequencing datasets
Massive amounts of next-generation sequencing (NGS) reads generated from sequencing machines around the world have revolutionized biotechnology enabling wide-scale disease and variation studies, personalized medicine and helping us understand our evolutionary history. However, the amount of …
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Delineating metastasis in MSS colorectal cancer by single - cell RNA sequencing
… In this study, we used single-cell RNA transcriptome sequencing to characterize the cellular and molecular features of primary CRC and colorectal liver metastases (CRLM). Analysis of 130 samples revealed significant heterogeneity in the tumor microenvironment (TME) characterized by a …
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Mechanism of transcranial focused ultrasound regulating the neuronal activity of the retrosplenial cortex
… neurons in RSC. Subsequently, I performed transcriptome sequencing based on Egr1-GFP cells activated by tFUS. Transient receptor potential cation channel subfamily C member 4 (Trpc4) was selected according to the transcriptome sequencing data. Combined with calcium imaging, patch-clamp …
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Identifying Novel Contributors to RNA Interference in Aedes aegypti
… abilities, were enriched over five generations. Transcriptome sequencing and analyses were performed from pools of individuals from each enriched phenotype, revealing potential RNAi contributors. 1,120 transcripts were significantly different (FDR<0.0001) among the extreme phenotypes. Four genes …
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Delineating the Upc2A Regulon in Candida glabrata
… its target genes involved in FLU resistance. Transcriptome sequencing (RNA-seq) analysis was used to compare gene expression profiles of: a) wild-type (WT) strains with and without UPC2A under non-stressed conditions; b) those same strains treated with three sterol biosynthesis inhibitors …
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Approaches to Study Small Molecule Inhibitors and Their Targets
… multiple drug resistant clones are isolated and transcriptome sequencing is used to find mutations in each clone. Further analysis of mutations common to more than one drug-resistant clone can identify a drug's physiological target and indirect resistance mechanisms. In proof-of-concept studies I …
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De novo sequencing, assembly and analysis of the genome and transcriptome of the nematode Panagrolaimus superbus
… make it an interesting candidate for genome and transcriptome sequencing using second generation high through- put methods. In this project the transcriptome of P. superbus was sequenced using the 454 (Roche) platform. To enrich for stress-related genes, nema- todes were exposed to one of the …
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Examination of the expression of genes and proteins controlling M. longissimus thoracis et lumborum growth in steers
… RNAseq, a highly sensitive approach to transcriptome sequencing, was used to conduct the transcriptional sequencing analysis in chapter 7. During the differential feeding period, gene pathways relating to lipid metabolism were significantly different between the two treatments and …
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An exploration of phosphorylases for the synthesis of carbohydrate polymers
… the sequence of this enzyme we obtained de novo transcriptome sequencing data from this alga, which has revealed unexpected metabolic diversity. Aside from complex carbohydrate metabolism, there are also many surprising features, including novel enzyme architectures, antioxidants only previously …
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Consequences of Plk4 overexpression in mouse pancreatic organoids
… in Plk4OE +dox organoids. I then used whole-transcriptome sequencing to investigate the consequences of Plk4 overexpression on gene expression. Results revealed differential gene expression between control and +dox Plk4OE organoids, with enrichment for genes with centrosome, cilia, cell …
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Gene expression changes during mammalian male meiotic initiation
… and leptotene spermatocytes. Following transcriptome sequencing, data analysis showed several different patterns of gene expression during meiotic initiation, but the largest groups of genes showed either increased or decreased expression across the time course. While the genes whose …
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Computational Methods for Accelerated Discovery and Characterization of Genes in Emerging Model Organisms
… genome using whole-genome and whole-transcriptome methodologies to identify human ciliopathy genes. Towards this end, we first develop a genefinder training method for <italic>Chlamydomonas</italic> that does not require whole gene annotations and demonstrate that this traning method …
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LncRNA discovery in the Listeria monocytogenes infection model
… identified by high-throughput nextgeneration transcriptome sequencing technologies, set a precedence for further investigation and characterization of lncRNAs in infection biology. Importantly, lncRNAs may serve as important diagnostic markers of infection as well as therapeutic targets. These …
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Discovery, characterization, and rational design of the enzymes involved in monoterpene indole alkaloid biosynthesis in Madagascar periwinkle
… be known. Using the recently released C. roseus transcriptome sequencing data along with co-expression analysis, this thesis describes the functional characterization of a new P450 gene involved in metabolizing a key intermediate in the biosynthesis of bioactive bisindole alkaloids. With the …
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Regulation of PAX6: DNA methylation and MicroRNAs
… and then repressed. Using targeted bisulfite sequencing and methylation-specific PCR it is revealed that the PAX6 gene is differentially methylated in a region-specific and differentiation stagedependent manner. Promoter CpG islands and 5'located exons remain predominantly non-methylated, …
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Dynamic Shuttling of AGO2 to the Nucleus Relieves MicroRNA Repression
… transcriptomics approach. We combined AGO2-eCLIP-sequencing, small-RNA-sequencing, and whole transcriptome sequencing to identify candidate gene targets bound by AGO2 that may be regulated by the most abundant microRNA families. We observed that the majority of AGO2-bound cytoplasmic 3'UTR miRISC …
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Intersexuality and Endocrine Disruption in the Amphipod Echinogammarus marinus – From Genes to Physiology
… groups into three separate patches. The de novo transcriptome sequencing was carried out on E. marinus gonadal tissue, by<br/>9<br/>employing Roche 454 pyrosequencing producing one of the largest cDNA libraries for a crustacean species. A total of 12,645 gonadal contigs were assembled from …
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