Multi-Regional Analysis of Contact Maps for Protein Structure Prediction

dc.contributor.authorAhmed, Hazem Radwan A.en
dc.contributor.departmentComputingen
dc.contributor.supervisorGlasgow, Janice I.en
dc.date2009-04-23 22:01:04.528
dc.date.accessioned2009-04-24T21:23:35Z
dc.date.available2009-04-24T21:23:35Z
dc.date.issued2009-04-24T21:23:35Z
dc.degree.grantorQueen's University at Kingstonen
dc.descriptionThesis (Master, Computing) -- Queen's University, 2009-04-23 22:01:04.528en
dc.description.abstract1D protein sequences, 2D contact maps and 3D structures are three different representational levels of detail for proteins. Predicting protein 3D structures from their 1D sequences remains one of the complex challenges of bioinformatics. The "Divide and Conquer" principle is applied in our research to handle this challenge, by dividing it into two separate yet dependent subproblems, using a Case-Based Reasoning (CBR) approach. Firstly, 2D contact maps are predicted from their 1D protein sequences; secondly, 3D protein structures are then predicted from their predicted 2D contact maps. We focus on the problem of identifying common substructural patterns of protein contact maps, which could potentially be used as building blocks for a bottom-up approach for protein structure prediction. We further demonstrate how to improve identifying these patterns by combining both protein sequence and structural information. We assess the consistency and the efficiency of identifying common substructural patterns by conducting statistical analyses on several subsets of the experimental results with different sequence and structural information.en
dc.description.degreeM.Sc.en
dc.format.extent2789816 bytes
dc.format.mimetypeapplication/pdf
dc.identifier.urihttp://hdl.handle.net/1974/1789
dc.language.isoengen
dc.relation.ispartofseriesCanadian thesesen
dc.rightsThis publication is made available by the authority of the copyright owner solely for the purpose of private study and research and may not be copied or reproduced except as permitted by the copyright laws without written authority from the copyright owner.en
dc.subjectProtein Structureen
dc.subjectContact Mapen
dc.subjectSequence Similarityen
dc.subjectProtein Homologyen
dc.titleMulti-Regional Analysis of Contact Maps for Protein Structure Predictionen
dc.typethesisen
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