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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 7 of 7 for “"sequence similarity search"”.
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Community Classification of the Protein Universe
… to be performed by the community of protein sequence similarity search users. In the first chapter, I review the history of protein sequence and protein family databases, and how the abstract concept of a protein family is expressed as a computational model. I review in greater detail the …
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Algorithmic Developments for Sequence Analysis, Structure Modeling and Functional Prediction of Proteins
Sequence, structure and function, being the three most important properties of proteins, are interrelated through homology relationships. In this post-genome era, we are equipped with abundant sequence information. Homology inference is thus of great practical importance because of its ability to …
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Aromatic hydrocarbon metabolism by Rhodococcus sp. I24 : computational, biochemical and transcriptional analysis
… the Consensus Annotation by Phylogeny Anchored Sequence Alignment (CAPASA) program, a high throughput system for automated functional annotation assignment of DNA sequence similarity search results. CAPASA was validated by comparison to several methods of annotation, and the agreement to other …
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Entropy Measurements and Ball Cover Construction for Biological Sequences
… is making it easier to select or engineer DNA sequences that produce dangerous proteins, it is important to be able to predict whether a novel DNA sequence is potentially dangerous by determining its taxonomic identity and functional characteristics. These tasks can be facilitated by the ever …
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Novel Lineage Specific Genes Expressed in Cattle Placenta: Discovery, Functional Annotation and Evolution
… in various clades. The detailed analysis of gene sequence alignments allowed us to propose genetic mechanisms that may have resulted in the lineage-specificity of these genes. The approach relied on generating multi-species alignments of genomic regions spanning syntenic genes flanking the LSGs in …
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On the use of locality aware distributed hash tables for homology searches over voluminous biological sequence data
… challenges for frequently performed sequence analytics routines such as DNA and protein homology searches; these must also preferably be done in real-time. This thesis proposes a scalable and similarity-aware distributed storage framework, Mendel, that enables retrieval of …
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Exploring the Landscape of Big Data Analytics Through Domain-Aware Algorithm Design
… a tool iBLAST to perform an incremental sequence similarity search. Developing new statistics to combine search results over time makes incremental analysis feasible. iBLAST performs (1+δ)/δ times faster than NCBI BLAST, where δ represents the fraction of database growth. We also explored …