An Integrative Computational Framework Based on a Two-Step Random Forest Algorithm Improves Prediction of Zinc-Binding Sites in Proteins

TANGLE: Two-Level Support Vector Regression Approach for Protein Backbone Torsion Angle Prediction from Primary Sequences

(2012) Jiangning Song et al.   PLoS One

FunSAV: Predicting the Functional Effect of Single Amino Acid Variants Using a Two-Stage Random Forest Model

(2012) Mingjun Wang et al.   PLoS One

Structure-based de novo prediction of zinc-binding sites in proteins of unknown function

(2011) Wei Zhao et al.   BIOINFORMATICS

Predicting residue–residue contacts using random forest models

(2011) Yunqi Li et al.   BIOINFORMATICS

Sequence-based prediction of protein crystallization, purification and production propensity

(2011) Marcin J. Mizianty et al.   BIOINFORMATICS

Predicting disease-associated substitution of a single amino acid by analyzing residue interactions

(2011) Yizhou Li et al.   BMC BIOINFORMATICS

Predicting Metal-Binding Sites from Protein Sequence

(2011) A. Passerini et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Novel Feature for Catalytic Protein Residues Reflecting Interactions with Other Residues

(2011) Yizhou Li et al.   PLoS One

Predicting Residue-Residue Contacts and Helix-Helix Interactions in Transmembrane Proteins Using an Integrative Feature-Based Random Forest Approach

(2011) Xiao-Feng Wang et al.   PLoS One

DROP: an SVM domain linker predictor trained with optimal features selected by random forest

(2010) Teppei Ebina et al.   BIOINFORMATICS

Cascleave: towards more accurate prediction of caspase substrate cleavage sites

(2010) Jiangning Song et al.   BIOINFORMATICS

Identification of recurring protein structure microenvironments and discovery of novel functional sites around CYS residues

(2010) Shirley Wu et al.   BMC STRUCTURAL BIOLOGY

Metalloproteomes: A Bioinformatic Approach

(2009) Claudia Andreini et al.   ACCOUNTS OF CHEMICAL RESEARCH

Sequence-based prediction of protein interaction sites with an integrative method

(2009) Xue-wen Chen et al.   BIOINFORMATICS

Exploiting structural and topological information to improve prediction of RNA-protein binding sites

(2009) Stefan R Maetschke et al.   BMC BIOINFORMATICS

Prodepth: Predict Residue Depth by Support Vector Regression Approach from Protein Sequences Only

(2009) Jiangning Song et al.   PLoS One

Predicting small ligand binding sites in proteins using backbone structure

(2008) Andrew J. Bordner   BIOINFORMATICS

HSEpred: predict half-sphere exposure from protein sequences

(2008) Jiangning Song et al.   BIOINFORMATICS

Prediction of zinc-binding sites in proteins from sequence

(2008) Nanjiang Shu et al.   BIOINFORMATICS

Prediction of DNA-binding residues in proteins from amino acid sequences using a random forest model with a hybrid feature

(2008) Jiansheng Wu et al.   BIOINFORMATICS

Accurate sequence-based prediction of catalytic residues

(2008) Tuo Zhang et al.   BIOINFORMATICS

MetalDetector: a web server for predicting metal-binding sites and disulfide bridges in proteins from sequence

(2008) M. Lippi et al.   BIOINFORMATICS

Designed metal-binding sites in biomolecular and bioinorganic interactions

(2008) J MATTHEWS et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY