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 18 of 18 for “"Genome rearrangements"”.
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Genome Rearrangements: Structural Inference and Functional Consequences
As genomes evolve over hundreds of millions years, the chromosomes become rearranged, with segments of some chromosomes inverted, while other chromosomes reciprocally exchange chunks from their ends. These rearrangements lead to the scrambling of the elements of one genome with respect to another …
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Plane Permutations and their Applications to Graph Embeddings and Genome Rearrangements
… a powerful framework to study less related genome rearrangement problems. As results, we refine and extend several existing results on enumeration of maps by counting plane permutations filtered by different criteria. In the spirit of the topological, graph theoretical study of graph …
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The double cut and join operation and its applications to genome rearrangements
… die evolutionäre Distanz zwischen zwei gegebenen Genomen zu schätzen. Wir präsentieren ein neues Modell für den Genomvergleich und wenden die Double-Cut-and-Join Operation auf dieses Genom-Modell an. Im Unterschied zum traditionellen sequenzbasierten Ansatz lässt sich Evolution auf Genomebene …
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The complete plastid genome sequence of Passiflora cincinnata: genome rearrangements, massive plastid gene losses and implications to genome-plastome incompatibility
The plastid genome (plastome) organization, gene content and order is well conserved in most angiosperms, but there are some exceptions. The Passiflora genus is one of those exceptions, because there are evidences of some unusual plastid gene losses to species of this genus. However, none plastome …
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Automatic discovery of descriptions of permutation statistics
… with connections to many other fields, such as genome rearrangements, computer science and physics. The definitions of these statistics can be something simple, like counting the occurrences of a classical pattern in permutations, or very complex, like describing how mutated a genome is. …
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The structure and evolution of breast cancer genomes
… among the most complex karyotyes of all cancers. Genome rearrangements are potentially an important source of mutation in breast cancer but little is known about how they might contribute to this disease. My first aim was to carry out a structural survey of breast cancer cell line genomes in order …
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Function-based Algorithms for Biological Sequences
… to operate on. Due to continuous progress in genome sequencing, genome rearrangements and construction of evolutionary genome graphs, which represent the relationships between genomes, become challenging tasks. Previous approaches are largely based on distance measure so that relationship …
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Genomic Discovery of recurrent CD44-SLC1A2 Gene Fusion in Gastric Cancer
… study, we aimed to identify genes affected by genome rearrangements in gastric cancer (GC), which is the second highest cause of global cancer mortality. We analyzed regions of genomic imbalance in a cohort of 133 primary GCs and cell lines, and discovered several GCs exhibiting recurrent …
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Magnaporthe Oryzae Telomeric Retrotransposon (moter) Relics Further Highlight Telomere Dynamics In A Rapidly Evolving Fungal Pathogen
… telomeres of M. oryzae can experience unique rearrangements within a single generation. These rearrangements are frequently attributed to the presence of two retrotransposons (MoTeR 1 and MoTeR 2) that are endemic to the telomeres. These rearrangements can leave footprints within the interior …
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Somatic evolution in normal human endometrium
… helped to establish a robust low DNA input whole-genome sequencing workflow for laser-capture micro-dissected cellular material. I then utilised this approach to explore the genomic and evolutionary landscapes of the normal human endometrium. In the first results chapter, I investigate the clonal …
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Sorting by Bounded Permutations
… choices of P, have applications in the study of genome rearrangements and in the design of interconnection networks. This dissertation considers generators that are swaps, reversals, or block-moves. Distance bounds on these generators are introduced and the corresponding problems are …
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The mechanism and function of pervasive noncoding transcription in the mammalian genome
The vast majority of the mammalian genome does not encode proteins. Only 2% of the genome is exonic, yet recent deep survey of human transcripitome suggested that 75% of the genome is transcribed, including half of the intergenic regions. Such pervasive transcription typically leads to short-lived, …
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Functional Analysis of the F-box protein Fbxl17
… have allowed detailed characterisation of cancer genomes and has highlighted the contribution of somatic structural variations to the mutational landscape of epithelial tumours. However, our understanding of the functional consequences of such genome rearrangements remains rudimentary. By …
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Dna Polymerase Θ (Polq) and The Cellular Defense Against Dna Damage
… that POLQ suppresses genomic instability and genome rearrangements originating at DNA double-strand breaks. This work clearly defines a role and mechanism for mammalian POLQ in an alternative end joining pathway (termed synthesis-dependent end joining) that suppresses the formation of …
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Structural characterization of G-Quadruplexes within duplex DNA
… rich DNA sequence that occurs throughout the genome. This specific DNA motif is capable of forming an alternative DNA secondary structure similar to a rectangular prism. The most common GQ motif consists of four sets of three guanine bases separated by varying intervening loops, typically …
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The impact of Terminal Inverted Repeat (TIR) transposable elements on plant genomes
<p>As major components in eukaryotic genomes, Transposable Elements (TEs) have been studied for decades. In the 1950s to 1990s, the predominant opinions considered TEs as “junk DNA” and “selfish elements”. However, subsequent studies showed that TEs are important players in genome dynamics. TEs are …
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Genome Rearrangement, Randic Index and Routing Number
… from discrete mathematics are studied:</p> <p>Genome rearrangements are to represent evolusion of genomes as signed or unsigned permutations of genes and compute their distances based on the minimum number of certain operations (evolutionary events) needed to transform one permutation into …