Protein threading using context-specific alignment potential

A conditional neural fields model for protein threading

(2012) Jianzhu Ma et al.   BIOINFORMATICS

A Position-Specific Distance-Dependent Statistical Potential for Protein Structure and Functional Study

(2012) Feng Zhao et al.   STRUCTURE

Sequence Alignment as Hypothesis Testing

(2011) Lu Meng et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Protein 8-class secondary structure prediction using conditional neural fields

(2011) Zhiyong Wang et al.   PROTEOMICS

A Novel Side-Chain Orientation Dependent Potential Derived from Random-Walk Reference State for Protein Fold Selection and Structure Prediction

(2010) Jian Zhang et al.   PLoS One

Sequence context-specific profiles for homology searching

(2009) A. Biegert et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Matt: Local Flexibility Aids Protein Multiple Structure Alignment

(2008) Matthew Menke et al.   PLoS Computational Biology

Distance-scaled, finite ideal-gas reference state improves structure-derived potentials of mean force for structure selection and stability prediction

(2002) Hongyi Zhou et al.   PROTEIN SCIENCE