Published in Proteins on May 15, 2009
Improving physical realism, stereochemistry, and side-chain accuracy in homology modeling: Four approaches that performed well in CASP8. Proteins (2009) 4.27
Protein structure prediction: when is it useful? Curr Opin Struct Biol (2009) 2.52
SAM-T08, HMM-based protein structure prediction. Nucleic Acids Res (2009) 1.82
APOLLO: a quality assessment service for single and multiple protein models. Bioinformatics (2011) 1.26
Model quality assessment using distance constraints from alignments. Proteins (2009) 1.12
SMOQ: a tool for predicting the absolute residue-specific quality of a single protein model with support vector machines. BMC Bioinformatics (2014) 1.02
An iterative self-refining and self-evaluating approach for protein model quality estimation. Protein Sci (2011) 0.83
Applying Undertaker to quality assessment. Proteins (2009) 0.79
Pokefind: a novel topological filter for use with protein structure prediction. Bioinformatics (2009) 0.78
Protein Structure Classification and Loop Modeling Using Multiple Ramachandran Distributions. Comput Struct Biotechnol J (2017) 0.75
Scoring function for automated assessment of protein structure template quality. Proteins (2004) 10.99
LGA: A method for finding 3D similarities in protein structures. Nucleic Acids Res (2003) 9.44
A graph-theory algorithm for rapid protein side-chain prediction. Protein Sci (2003) 9.25
Template-based modeling and free modeling by I-TASSER in CASP7. Proteins (2007) 6.45
Automated server predictions in CASP7. Proteins (2007) 3.40
Combining local-structure, fold-recognition, and new fold methods for protein structure prediction. Proteins (2003) 2.67
Prediction of global and local model quality in CASP7 using Pcons and ProQ. Proteins (2007) 2.50
HMMSTR: a hidden Markov model for local sequence-structure correlations in proteins. J Mol Biol (2000) 2.26
Assessment of predictions in the model quality assessment category. Proteins (2007) 2.25
Hidden Markov models that use predicted local structure for fold recognition: alphabets of backbone geometry. Proteins (2003) 1.84
Benchmarking consensus model quality assessment for protein fold recognition. BMC Bioinformatics (2007) 1.63
New tools and expanded data analysis capabilities at the Protein Structure Prediction Center. Proteins (2007) 1.59
Ranking predicted protein structures with support vector regression. Proteins (2008) 1.41
Protein model quality assessment prediction by combining fragment comparisons and a consensus C(alpha) contact potential. Proteins (2008) 1.16
Evaluation of local structure alphabets based on residue burial. Proteins (2004) 1.15
Model quality assessment using distance constraints from alignments. Proteins (2009) 1.12
PREDICT-2ND: a tool for generalized protein local structure prediction. Bioinformatics (2008) 1.10
Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega. Mol Syst Biol (2011) 28.61
Automated forward and reverse ratcheting of DNA in a nanopore at 5-Å precision. Nat Biotechnol (2012) 5.71
Improving physical realism, stereochemistry, and side-chain accuracy in homology modeling: Four approaches that performed well in CASP8. Proteins (2009) 4.27
Classifying G-protein coupled receptors with support vector machines. Bioinformatics (2002) 2.54
Hidden Markov models that use predicted local structure for fold recognition: alphabets of backbone geometry. Proteins (2003) 1.84
Error rates for nanopore discrimination among cytosine, methylcytosine, and hydroxymethylcytosine along individual DNA strands. Proc Natl Acad Sci U S A (2013) 1.75
Contact prediction using mutual information and neural nets. Proteins (2007) 1.74
Identification and characterization of RbmA, a novel protein required for the development of rugose colony morphology and biofilm structure in Vibrio cholerae. J Bacteriol (2006) 1.74
Predicting reliable regions in protein sequence alignments. Bioinformatics (2002) 1.34
Evaluation of local structure alphabets based on residue burial. Proteins (2004) 1.15
Model quality assessment using distance constraints from alignments. Proteins (2009) 1.12
PREDICT-2ND: a tool for generalized protein local structure prediction. Bioinformatics (2008) 1.10
Information-theoretic dissection of pairwise contact potentials. Proteins (2002) 1.08
Improving protein secondary structure prediction using a simple k-mer model. Bioinformatics (2010) 0.93
Identification of prokaryotic small proteins using a comparative genomic approach. Bioinformatics (2011) 0.89
Complete genome sequence of Pyrobaculum oguniense. Stand Genomic Sci (2012) 0.87
Identification of a chemoreceptor zinc-binding domain common to cytoplasmic bacterial chemoreceptors. J Bacteriol (2011) 0.85
Applying Undertaker to quality assessment. Proteins (2009) 0.79
Pokefind: a novel topological filter for use with protein structure prediction. Bioinformatics (2009) 0.78
Methods of translating NMR proton distances into their corresponding heavy atom distances for protein structure prediction with limited experimental data. Protein Eng Des Sel (2005) 0.76