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 12 of 12 for “"Ribo-seq"”.
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Representing translation: concepts, methods, and resources for protein coding loci representation and ribosome profiling data analysis
The advent of the ribosome profiling (Ribo-Seq) sequencing technique has led to the genome-wide characterisation of translatomic complexity across the tree of life. The understanding of the extent to which translation occurs outside of annotated protein coding regions has been greatly expanded, as …
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Interrogating annotated protein coding regions for hitherto undetected translation
Ribosome profiling (Ribo-seq) is a technique that allows to capture ribosome protected fragments and sequence them. This powerful method enables discovery of not yet annotated proteoforms and translated open reading frames (ORFs), even ones that are hidden in annotated protein coding regions. Here …
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Visualising ribosome profiling and using it for reading frame detection and exploration of eukaryotic translation initiation
Ribosome profiling (ribo-seq) is a recently developed technique that provides genomewide information on protein synthesis (GWIPS) in vivo. The high resolution of ribo-seq is one of the exciting properties of this technique. In Chapter 2, I present a computational method that utilises the sub-codon …
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Translational regulation in aggressive B-cell lymphomas
… factors. The advances in Next Generation Sequencing technologies have opened new possibilities to explore mechanisms of regulation beyond the level of transcription. Ribo-Seq is a technique combining ribosome footprinting with deep sequencing of mRNA fragments that allows to map the …
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Understanding Huntington's Disease pathogenesis using next generation sequencing analyses
… have developed a rich understanding of the consequences of loss of wildtype HTT function, gain of toxic mutant HTT function, and mutant HTT RNA toxicity. However, the mechanisms through which pathology develops are still largely ambiguous. Given the widespread involvement of HTT in cellular …
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The development of a ribosome profiling protocol to study translation in the yeast Yarrowia lipolytica
Ribosome Profiling is an emerging technique that provides a genome wide-view of translation in-vivo, allowing an in-depth analysis of translation within a cell. It offers significant advantages over other techniques such as RNA-sequencing for interpreting transcriptional data about cells. Ribosome …
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RNA G-quadruplexes and polyamines effects on translation: data analysis and development of software for ribosome pause prediction
Ribosome profiling (Ribo-seq) technique provides a global snapshot of actively translating ribosomes by capturing the ribosome protected mRNA fragments. Ribo-seq technique can be implemented to study various translation aspects such as differential gene expression at the translation level, …
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Comparative analysis of African and Asian/American Zika virus strains at the transcriptional and translational level
… that influence viral replication and subsequent ZIKV virulence, the differences between an African and an American ZIKV strain were studied at different levels. Firstly, RNA-Seq and ribosome profiling (Ribo-Seq) was performed on astrocytoma-glioblastoma cells (U251 cells) infected with an …
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Annotating and characterizing orphan gene in Zea mays via diverse RNA-Seq data
… the recently emerged young genes, which share no sequence similarity with proteins in any other species. In the last 20 years, thousands of orphan genes have been experimentally shown to play important roles in diverse species. However, there remain significant limitation in our knowledge about …
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INTEGRATED TRANSCRIPTOMIC AND TRANSLATIONAL PROFILING OF EIF6-SBDS IN SHWACHMAN-DIAMOND SYNDROM REVEALS DIFFERENT CELLULAR STATES SHAPED BY RIBOSOME COMPOSITION AND FIDELITY
Ribosome biogenesis is an essential and tightly regulated process that underpins cellular growth, proteostasis, and metabolic homeostasis. Disruptions in its final cytoplasmic maturation steps can profoundly alter translational output and lead to human disease. Shwachman–Diamond syndrome (SDS) …
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Translational defects in multiple tissues from the Smn2B/- mouse model of SMA.
… I took advantage of multiple cutting-edge and sequencing-based techniques (ribosome profiling and RNA-seq) coupled with biochemical and molecular biology-based assay (polysome profiling, co-sedimentation profiles, qPCR, and western blotting), which applied to study in molecular detail the …
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Functional study of miRNA-mRNA interactions in malaria mosquito An. gambiae
… of miRNAs in reproduction, I used small RNAs sequencing to monitor miRNAs expression and their association with Argonaute 1 (Ago1) and Argonaute 2 (Ago2) in the malaria mosquito Anopheles gambiae (An. gambiae) during the 72-h period immediately after blood feeding. I found the abundance and …