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The genetic material of all organisms (DNA) is structurally and functionally equivalent. If two organisms share similar properties (phenotypes), these properties often derive from a common ancestor and are encoded similarly in the DNA. Comparative genomics is a molecular biological discipline searching for such similarities between DNA sequences as an indication of common ancestry and hence, a hint of similar function. The number of similarities between DNA sequences may be enormous and chaotically distributed. Besides, on large scale, individual similarities might be negligible small, but can be part of a much larger similarity.
This Master project tries to create visual order in a set of similarities between DNA sequences on a large (chromosome) scale. The result is an overview of dense locations of similarities, which current tools have problems to visualize. The overview of similarities can interactively be manipulated using the interactive DNAVis2 genomebrowser. The development and research process is documented in this report containing requirements, solutions, design decisions, evaluation and necessary background information
Project: Interactive visualization in large scale comparative genomics
Description
The genetic material of all organisms (DNA) is structurally and functionally equivalent. If two organisms share similar properties (phenotypes), these properties often derive from a common ancestor and are encoded similarly in the DNA. Comparative genomics is a molecular biological discipline searching for such similarities between DNA sequences as an indication of common ancestry and hence, a hint of similar function. The number of similarities between DNA sequences may be enormous and chaotically distributed. Besides, on large scale, individual similarities might be negligible small, but can be part of a much larger similarity.
This Master project tries to create visual order in a set of similarities between DNA sequences on a large (chromosome) scale. The result is an overview of dense locations of similarities, which current tools have problems to visualize. The overview of similarities can interactively be manipulated using the interactive DNAVis2 genomebrowser. The development and research process is documented in this report containing requirements, solutions, design decisions, evaluation and necessary background information
Details
- Student
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NWNiels Willems
- Supervisor
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Huub van de Wetering
- Link
- Thesis