L1pred: A Sequence-Based Prediction Tool for Catalytic Residues in Enzymes with the L1-logreg Classifier

Prediction of catalytic residues based on an overlapping amino acid classification

(2010) Yongchao Dou et al.   AMINO ACIDS

Metric learning for enzyme active-site search

(2010) Tsuyoshi Kato et al.   BIOINFORMATICS

Prediction of protein–RNA binding sites by a random forest method with combined features

(2010) Zhi-Ping Liu et al.   BIOINFORMATICS

Active site prediction using evolutionary and structural information

(2010) Sriram Sankararaman et al.   BIOINFORMATICS

Automatic prediction of catalytic residues by modeling residue structural neighborhood

(2010) Elisa Cilia et al.   BMC BIOINFORMATICS

Networks of High Mutual Information Define the Structural Proximity of Catalytic Sites: Implications for Catalytic Residue Identification

(2010) Cristina Marino Buslje et al.   PLoS Computational Biology

ResBoost: characterizing and predicting catalytic residues in enzymes

(2009) Ron Alterovitz et al.   BMC BIOINFORMATICS

Several appropriate background distributions for entropy-based protein sequence conservation measures

(2009) Yongchao Dou et al.   JOURNAL OF THEORETICAL BIOLOGY

Prediction of Catalytic Residues Using the Variation of Stereochemical Properties

(2009) Yongchao Dou et al.   PROTEIN JOURNAL

Partial Order Optimum Likelihood (POOL): Maximum Likelihood Prediction of Protein Active Site Residues Using 3D Structure and Sequence Properties

(2009) Wenxu Tong et al.   PLoS Computational Biology

Robustness of the residue conservation score reflecting both frequencies and physicochemistries

(2008) X.-S. Liu et al.   AMINO ACIDS

High-dimensional generalized linear models and the lasso

(2008) Sara A. van de Geer   ANNALS OF STATISTICS

INTREPID—INformation-theoretic TREe traversal for Protein functional site IDentification

(2008) Sriram Sankararaman et al.   BIOINFORMATICS

Tracing evolutionary pressure

(2008) Kai Ye et al.   BIOINFORMATICS

Improving position-specific predictions of protein functional sites using phylogenetic motifs

(2008) K. C. Dukka Bahadur et al.   BIOINFORMATICS

Accurate sequence-based prediction of catalytic residues

(2008) Tuo Zhang et al.   BIOINFORMATICS

Prediction of protein functional residues from sequence by probability density estimation

(2008) J. D. Fischer et al.   BIOINFORMATICS

StAR: a simple tool for the statistical comparison of ROC curves

(2008) Ismael A Vergara et al.   BMC BIOINFORMATICS

An improved prediction of catalytic residues in enzyme structures

(2008) Y.-R. Tang et al.   PROTEIN ENGINEERING DESIGN & SELECTION

Discarding Functional Residues from the Substitution Table Improves Predictions of Active Sites within Three-Dimensional Structures

(2008) Sungsam Gong et al.   PLoS Computational Biology