Carnegie Mellon University
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A Bayesian Approach to Protein Model Quality Assessment

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journal contribution
posted on 2002-12-01, 00:00 authored by Hetunandan Kamisetty, Christopher J. Langmead
Given multiple possible models b1; b2; : : : bn for a protein structure, a common sub-task in in-silico Protein Structure Prediction is ranking these models according to their qual- ity. Extant approaches use MLE estimates of parameters ri to obtain point estimates of the Model Quality. We describe a Bayesian alternative to assessing the quality of these models that builds an MRF over the parame- ters of each model and performs approximate inference to integrate over them. Hyper- parameters w are learnt by optimizing a list- wise loss function over training data. Our results indicate that our Bayesian approach can significantly outperform MLE estimates and that optimizing the hyper-parameters can further improve results.




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