Computing and Information Systems - Theses

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Computational gene finding in the human malaria parasite Plasmodium vivax

Stivala, Alexander David ( 2006-10)

Different approaches to genome annotation are reviewed and compared with reference based annotation using GeneMapper in the human malaria parasite Plasmodium vivax. It is found that the latter approach does not achieve sensitivity and specificity as high as those for some ab initio techniques. Potential reasons for this are identified and discussed. As part of the process of using GeneMapper, codon substitution matrices are constructed and examined. This leads to the discovery of evidence from which we derive a conjecture regarding Plasmodium evolution.