Real value prediction of protein solvent accessibility using enhanced PSSM features
نویسندگان
چکیده
منابع مشابه
Real value prediction of solvent accessibility in proteins using multiple sequence alignment and secondary structure.
The present study is an attempt to develop a neural network-based method for predicting the real value of solvent accessibility from the sequence using evolutionary information in the form of multiple sequence alignment. In this method, two feed-forward networks with a single hidden layer have been trained with standard back-propagation as a learning algorithm. The Pearson's correlation coeffic...
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A Support Vector Machine learning system has been trained to predict protein solvent accessibility from the primary structure. Different kernel functions and sliding window sizes have been explored to find how they affect the prediction performance. Using a cut-off threshold of 15% that splits the dataset evenly (an equal number of exposed and buried residues), this method was able to achieve a...
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UNLABELLED PredAcc is a tool for predicting the solvent accessibility of protein residues from the sequence at different relative accessibility levels (0-55%). The prediction rate varies between 70. 7% (for 25% relative accessibility) and 85.7% (for 0% relative accessibility). Amino acids are predicted in four categories: almost certainly hidden and almost certainly exposed with a given a poste...
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The prediction of residue solvent accessibility from protein sequences has been studied by various methods. The direct comparison of these methods is impossible due to the variety of datasets used and the difference in structure definition. In this paper we choose 5 classification approaches (decision tree (DT), Support Vector Machine (SVM), Bayesian Statistics (BS) , Neural Network (NN) and Mu...
متن کاملCombining sequence and structural profiles for protein solvent accessibility prediction.
Solvent accessibility is an important structural feature for a protein. We propose a new method for solvent accessibility prediction that uses known structure and sequence information more efficiently. We first estimate the relative solvent accessibility of the query protein using fuzzy mean operator from the solvent accessibilities of known structure fragments that have similar sequences to th...
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ژورنال
عنوان ژورنال: BMC Bioinformatics
سال: 2008
ISSN: 1471-2105
DOI: 10.1186/1471-2105-9-s12-s12