Reduced alphabet of amino acids and its application to alternative splicing detection [microform]
- Bib ID:
- 5036247
- Format:
- Book and Microform
- Author:
- Park, Minsoo
- Online Version:
- http://gateway.proquest.com/openurl?url_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:dissertation&res_dat=xri:pqdiss&rft_dat=xri:pqdiss:3382000
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- Description:
- 112 p.
- ISBN:
- 9781109433159
- Summary:
-
Many biological functions are performed by proteins, which are sequences of amino acids. Bioinformatics assist in analyzing patterns of amino acid sequences for protein structures and interactions among proteins. There are 20 known amino acids in genetic codes. When 20 amino acids are grouped into an alphabet of a smaller number of letters, analysis of amino acid patterns can be simplified. It can further aid in modeling and design of proteins and finding consensus sequences. We propose a reduced alphabet of 15. The alphabet is formulated by Complementary Tree. The tree is constructed by preserving amino acidic properties of being non-polar, polar, basic, and acidic. They are grouped by base-paring features of nucleotides and physical properties of codons. The validity of resulting alphabet of 15 letters is tested for the detection of alternative splicing patterns in Arabidopsis thaliana.
When compared to the previous study using the full amino acidic letters, the reduced alphabet is shown to provide comparable detection capabilities for alternative splicing, except for two chromosomes. The lower detection rates in the two chromosomes are further analyzed by developing Improved Algorithm with Weighed Factors.
- Notes:
-
- (UMI)AAI3382000
- Source: Dissertation Abstracts International, Volume: 70-10, Section: B, page: 6352.
- Adviser: Byung G. Kim.
- Thesis (Ph.D.)--University of Massachusetts Lowell, 2009.
- Reproduction:
- Microfiche. Ann Arbor, Mich. : University Microfilms International.
- Subject:
- Computer Science
- Other authors/contributors:
- University of Massachusetts Lowell
- Copyright:
-
In Copyright
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Copyright status was determined using the following information:
- Material type:
- Literary Dramatic Musical
- Published status:
- Unpublished
- Creation date:
- 2009
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