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 9 of 9 for “"Genome alignment"”.
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Exact genome alignment
… data due to the decrease in the cost of whole genome sequencing techniques has opened up new avenues of research in the field of Bioinformatics, like comparative genomics and evolutionary dynamics. The fundamental task in these studies is to align the genome sequences accurately. Sequence …
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Two Problems in Computational Genomics
… of computational genomics. The first is whole genome alignment and the second is inferring horizontal gene transfer using posets. We define these two problems and present algorithmic approaches for solving them. For the whole genome alignment, we define alignment graphs for representing …
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Structure-based realignment of non-coding RNAs in multiple whole genome alignments
Whole genome alignments have become a central tool in biological sequence analysis. A major application is the de novo prediction of non-coding RNAs (ncRNAs) from structural conservation visible in the alignment. However, current methods for constructing genome alignments do so by explicitly …
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Whole Genome Analysis of Escherichia coli and Pseudomonas aeruginosa Mixed Culture Biofilms Grown for 117 Days in Spaceflight
… isolates were chosen to undergo whole genome sequencing to be compared to the ancestral strain genomes. Illumina and Nanopore reads were used obtain draft genomes via a hybrid assembly. Whole genome alignment was used to identify differences, including SNPs, amongst the spaceflight …
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Establishing a Trustworthy First Approximation for Evolutionary Distances
… have generated a large number of complete genomes. Traditionally, phylogenetic analysis relies on alignments of orthologs, but defining orthologs and separating them from paralogs is a complex task that may not always be suited to the large datasets of the future. An alternative to …
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New insights into Transposable Elements from high quality genome sequences across diverse animals
New high quality genomes, together with faster whole genome alignment methods, have opened the possibility of identifying new transposable element (TE) families by their polymorphic character in different haplotypes, in contrast to previous methods based on repetitiveness, homology and structural …
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Characterisation of vaginal Prevotella strains from a cohort of South African adolescent girls and young women with and without bacterial women with and without bacterial vaginosis
… (35 P. bivia and 1 P. melaninogenica) were whole genome sequenced using Illumina MiSeq technology. Genomes of these isolates, and of published sequences on the NCBI RefSeq database, were annotated and screened for antimicrobial resistance and virulence genes, as well as for the presence of …
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Algorithms for pre-microrna classification and a GPU program for whole genome comparison
… with pre-miRNA-like hairpin can be found in genomes. It is a challenge to distinguish the real pre-miRNAs from other hairpin sequences with similar stem-loops (referred to as pseudo pre-miRNAs). The first part of this dissertation presents a new method, called MirID, for identifying and …
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Tiger: tiled iterative genome assembler and approximate multi-genome aligner
Sequence assembly and alignments are two important stepping stones for comparative genomics. With the fast adoption of the next-generation sequencing (NGS) technologies and the coming of the third-generation sequencing (TGS) technologies, genomics has provided us with an unprecedented opportunity …