Improving fragment quality for de novo structure prediction

Efficient Sampling in Fragment-Based Protein Structure Prediction Using an Estimation of Distribution Algorithm

(2013) David Simoncini et al.   PLoS One

Toward optimal fragment generations forab initioprotein structure assembly

(2013) Dong Xu et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Error-estimation-guided rebuilding ofde novomodels increases the success rate ofab initiophasing

(2012) Rojan Shrestha et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Role of the Biomolecular Energy Gap in Protein Design, Structure, and Evolution

(2012) Sarel J. Fleishman et al.   CELL

A Probabilistic Fragment-Based Protein Structure Prediction Algorithm

(2012) David Simoncini et al.   PLoS One

Acceleratingab initiophasing withde novomodels

(2011) Rojan Shrestha et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

HHfrag: HMM-based fragment detection using HHpred

(2011) Ivan Kalev et al.   BIOINFORMATICS

Entropy-accelerated exact clustering of protein decoys

(2011) F. Berenger et al.   BIOINFORMATICS

Four Small Puzzles That Rosetta Doesn't Solve

(2011) Rhiju Das   PLoS One

Generalized Fragment Picking in Rosetta: Design, Protocols and Applications

(2011) Dominik Gront et al.   PLoS One

Automated protein structure modeling in CASP9 by I-TASSER pipeline combined with QUARK-based ab initio folding and FG-MD-based structure refinement

(2011) Dong Xu et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Alternate States of Proteins Revealed by Detailed Energy Landscape Mapping

(2010) Michael D. Tyka et al.   JOURNAL OF MOLECULAR BIOLOGY

Prospects forde novophasing withde novoprotein models

(2009) Rhiju Das et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Sampling Bottlenecks in De novo Protein Structure Prediction

(2009) David E. Kim et al.   JOURNAL OF MOLECULAR BIOLOGY

Restriction versus guidance in protein structure prediction

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

Computational techniques for efficient conformational sampling of proteins

(2008) Adam Liwo et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Fragment-HMM: A new approach to protein structure prediction

(2008) Shuai Cheng Li et al.   PROTEIN SCIENCE