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Mathematical methods for protein structural motif recognition

Author(s)
Bradley, Philip H. (Philip Harlan), 1973-
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Massachusetts Institute of Technology. Dept. of Mathematics.
Advisor
Bonnie Berger.
Terms of use
M.I.T. theses are protected by copyright. They may be viewed from this source for any purpose, but reproduction or distribution in any format is prohibited without written permission. See provided URL for inquiries about permission. http://dspace.mit.edu/handle/1721.1/7582
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Abstract
In this thesis, two algorithms for protein structural motif recognition are presented. A program is described which successfully recognizes the occurrence of the right-handed parallel 8-helix fold from protein sequence data alone. When run on sequences of unknown structure the program identifies the fold in a significant number of microbial outer membrane and cell-surface proteins implicated in infectious disease. A search algorithm is introduced for unsupervised discovery of protein sequence patterns that are significantly correlated with structural motifs. The algorithm identifies known, biologically relevant patterns as well as several potentially novel motifs. It is hoped that both algorithms may contribute to a better understanding of the connection between protein sequence and structure.
Description
Thesis (Ph. D.)--Massachusetts Institute of Technology, Dept. of Mathematics, 2001.
 
Includes bibliographical references (leaves 129-137).
 
Date issued
2001
URI
http://hdl.handle.net/1721.1/8641
Department
Massachusetts Institute of Technology. Dept. of Mathematics.
Publisher
Massachusetts Institute of Technology
Keywords
Mathematics.

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  • Mathematics - Ph.D. / Sc.D.
  • Mathematics - Ph.D. / Sc.D.

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