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 86 for “"RNA-seq analysis"”.
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Automated, highly scalable RNA-seq analysis
RNA-sequencing is a sensitive method for inferring gene expression and provides additional information regarding splice variants, polymorphisms and novel genes and isoforms. Using this extra information greatly increases the complexity of an analysis and prevents novice investigators from analyzing …
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Single cell RNA-seq analysis uncovers transcription regulation mechanisms in mouse germline cells
Submission published under a 24 month embargo labeled 'U of I Access', the embargo will last until 2025-08-01
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Investigation of Endogenous Retroviruses in the Pathogenesis of Sporadic Amyotrophic Lateral Sclerosis (ALS) by
… cortex cohort. Using the modified ERVMap RNA-Seq method used by Jones et.al. (2021) we were able to analyse a number of publicly available datasets covering Cerebellum, Frontal Cortex, Motor Cortex and Peripheral Blood Mononuclear Cells. Within these datasets a number of novel HERVs were …
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An in vivo study of GTF2IRD1 function and its contribution to the physical features of Williams Beuren Syndrome
… using direct physiological and cellular analysis methods. A detailed analysis of Gtf2ird1 expression in the inner ear and the skin was conducted. A comprehensive analysis of hearing capacity in Gtf2ird1 knockout mice was carried out by examining the auditory brainstem response (ABR) and …
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Identifying the Origin of Zebrafish (Danio rerio) Renal Progenitor Cells
… Gene expression profiling of these cells by RNA-Seq analysis showed early-acting renal genes (such as pax2a and pax8) in both single RPCs and cluster RPCs. Later acting renal genes (such as hnf1ba) were predominantly expressed in the cluster RPCs, supporting the concept that these cells are …
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THE MECHANISTIC TARGET OF RAPAMYCIN (mTOR) AND ITS COMPLEX 1 ASSOCIATED PROTEIN RPTOR ARE GERM CELL-AUTONOMOUSLY REQUIRED FOR SPERMATOGONIAL DEVELOPMENT & CHAPTER IV: INVESTIGATING CHANGES IN THE TESTICULAR TRANSCRIPTOME DURING THE PROSPERMATOGONIAL TRANSITION
… 3, I present the results from an unbiased RNA-seq analysis of testicular gene expression in the fetal and neonatal mouse testis prior to establishment of the spermatogonial pool.
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Oxidative Phosphorylation: A Critical Feature and Novel Therapeutic Target In Melanoma Brain Metastases
<p>We recently showed via RNA-sequencing (RNA-seq) analysis of clinical samples that melanoma brain metastases (MBMs) have higher expression of oxidative phosphorylation (OXPHOS) genes (including <em>PPARGC1A</em> or <em>PGC1α</em>) than patient-matched extracranial metastases (ECMs). <strong>Thus, …
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Understanding the Impact of Plant Nutrition on Plant-Oomycete Interactions
… related genes as a systemic acquired response. RNA-seq analysis on Phytophthora-infected Arabidopsis suggested that sulfur transport, assimilation, and metabolism play an important role in plant-oomycete interactions. A second project used RNA-seq analysis on P. nic infected N. b, to identify …
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Transcriptional profiles of differentiating periocular neural crest cells and the function of Nephronectin during chick corneal development
… one of the major causes of blindness. Alternative treatments are developed because of the limitation of traditional corneal transplantation. These treatments benefit from the study of the molecular basis of corneal development and regeneration. However, corneal development is not fully …
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Transcriptional profiling of Drosophila larval ventral nervous system hemilineages
… similar neurons makes this system tractable to RNA-seq analysis, since one can genetically label and isolate many cells per animal, which are predicted to share similar gene expression profiles. Our primary focus is to examine hemilineages with similar targets (e.g. leg neuropil) to identify …
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Comparison of different differential expression analysis tools for rna-seq data
In molecular biology research, RNA-seq is a relatively new method for transcriptome profiling. It utilizes the next generation sequencing technology to provide huge amount information about the variety and abundance of RNA present in an organism of interest at a specific state and a given time. One …
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Exploring Genome Structure and Gene Regulation Related to Virulence in Fungal Phytopathogens Using Next Generation Sequencing Techniques
… enabled by the development of next-generation sequencing (NGS) techniques. Applications of NGS include studies of entire genomes, characterization of the entire transcriptome (RNA-Seq), and detection of protein-DNA binding sites (ChIP-Seq). The cost of sequencing a fungal genome, for example, …
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PU.1-ACTIVATED GENOMIC REGIONS DEFINE LOW-RISK MDS SUBSETS CHARACTERIZED BY IMMUNE DYSREGULATION AND DISEASE PROGRESSION
… transcriptional impact through H3K27ac ChIP-seq and RNA-seq analysis on CD34+ bone marrow progenitors cells isolated from a prospective cohort of 357 patients. Our analysis revealed distinct patterns of genomic region activation and transcriptional regulation across different disease stages …
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Analysis of ASCL1 in Neuroendocrine Lung Cancer
… transcriptional targets of ASCL1, whole-genome RNA-sequencing (RNA-seq) analysis combined with chromatin immunoprecipitation-sequencing (ChIP-seq) were performed with a series of lung cancer cell lines. We discovered the gene SCNN1A, which encodes the alpha subunit of the epithelial sodium …
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Placental co-transcriptional activator Vestigial-like 1 (VGLL1) drives tumorigenesis via increasing transcription of proliferation and invasion genes
… in cellular invasion and proliferation, and ChIP-seq and RNA-seq assays were performed to identify VGLL1 target genes and potential impact using pathway analysis. ChIP-seq analysis identified eight transcription factors with a VGLL1-binding motif that were common between all three cell types, …
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Understanding the biochemical basis of temperature induced lipid pathway adjustments in plants
… molecular approaches including lipidomics and RNA-seq analysis. In Arabidopsis thaliana, a 16:3 plant, low temperature induces an augmented prokaryotic pathway, whereas high temperature enhances the eukaryotic pathway. Atriplex lentiformis reduces its overall lipid desaturation at high …
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Investigation into the molecular mechanisms underlying circadian rhythm disruption and human cancer
… preventing MDM2-mediated ubiquitination and subsequent proteasomal degradation, promoting p53 stability. Critically, one p53 mutation, Y220C (YC), is a hotspot in cancer and uniquely lies at the binding site of PER2 within p53, distant from the interface binding to DNA. We hypothesized that an …
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Flower Isoforms Increase Expression in Response to Cellular Stress and Modulate S100 Expression in Cutaneous Squamous Cell Carcinoma Cells
… no significant cell competition was observed. RNA-seq analysis revealed that transcript and protein expression of S100A7, S100A8, and S100A9 were decreased in hFWE3 and hFWE4 over-expressing cells. Transcripts for these S100 isoforms were strikingly increased in human cSCC compared to normal …
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Ocean acidification: physiological response from fish to cell
… environment was established by a comprehensive analysis not only at the intestinal level but also at the whole-body level. Moreover, the intestinal transcriptome was analysed to gain insights into the underlying cellular and molecular mechanisms present in the observed phenotype. RNA-Seq …
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Characterizing Populations of Non-Coding RNAs in <i>Karenia brevis</i> at Different Times of the Diel Cycle
… transcripts (NATs) as well as double-stranded RNA (dsRNA) molecules exist within the transcriptome of <em>K. brevis</em>. I hypothesize that the non-coding NATs, similar to microRNAs (miRNAs) in other organisms play a role in regulating gene expression. To test this prediction, I extracted …
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