Large scale data mining challenge: Contact map prediction
Bhattacharya, Abhishek (2013) Large scale data mining challenge: Contact map prediction. [Dissertation (University of Nottingham only)]
Proteins are considered to be the most important molecules that perform a variety of functions within living organisms. Proteins are made of amino acid sequences that tend to transform into a variety of three dimensional structures that determine the functions performed by them. Protein structure prediction (PSP) is pursued by bioinformatics that involves the prediction of these 3D structures which is one of the key unsolved problems. The PSP problems are approached by addressing simpler sub-problems through a divide and conquer strategy. The rationale behind this strategy is to develop methods for predicting some structural characteristics of the protein like protein secondary structure which is the most successful sub-problems addressed by bioinformatics. A crucial stepping stone for PSP is contact map predictions that help predict if two residues are in contact or not which determine the shape of a protein. PSP is a very challenging task addressed by machine learning methods where many sources of information are mixed to predict contacts between residues without a clear understanding of the contribution of each source in the prediction process.
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