Improving prediction of secondary structure, local backbone angles and solvent accessible surface area of proteins by iterative deep learning

Context-Based Features Enhance Protein Secondary Structure Prediction Accuracy

(2014) Ashraf Yaseen et al.   Journal of Chemical Information and Modeling

Predicting backbone Cα angles and dihedrals from protein sequences by stacked sparse auto-encoder deep neural network

(2014) James Lyons et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Protein threading using context-specific alignment potential

(2013) J. Ma et al.   BIOINFORMATICS

DNdisorder: predicting protein disorder using boosting and deep networks

(2013) Jesse Eickholt et al.   BMC BIOINFORMATICS

i3Drefine Software for Protein 3D Structure Refinement and Its Assessment in CASP10

(2013) Debswapna Bhattacharya et al.   PLoS One

Interplay of I-TASSER and QUARK for template-based and ab initio protein structure prediction in CASP10

(2013) Yang Zhang   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Deep architectures for protein contact map prediction

(2012) Pietro Di Lena et al.   BIOINFORMATICS

A Unified Multitask Architecture for Predicting Local Protein Properties

(2012) Yanjun Qi et al.   PLoS One

Improving protein fold recognition and template-based modeling by employing probabilistic-based matching between predicted one-dimensional structural properties of query and corresponding native properties of templates

(2011) Y. Yang et al.   BIOINFORMATICS

SPINE X: Improving protein secondary structure prediction by multistep learning coupled with prediction of solvent accessible surface area and backbone torsion angles

(2011) Eshel Faraggi et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Template-based protein structure modeling using TASSERVMT

(2011) Hongyi Zhou et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

I-TASSER: a unified platform for automated protein structure and function prediction

(2010) Ambrish Roy et al.   Nature Protocols

Trends in template/fragment-free protein structure prediction

(2010) Yaoqi Zhou et al.   THEORETICAL CHEMISTRY ACCOUNTS

Predicting Continuous Local Structure and the Effect of Its Substitution for Secondary Structure in Fragment-Free Protein Structure Prediction

(2009) Eshel Faraggi et al.   STRUCTURE

Real-value prediction of backbone torsion angles

(2008) Bin Xue et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Alternating evolutionary pressure in a genetic algorithm facilitates protein model selection

(2008) Marc N Offman et al.   BMC STRUCTURAL BIOLOGY

Assessing secondary structure assignment of protein structures by using pairwise sequence-alignment benchmarks

(2007) Wei Zhang et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS