Structure-based prediction of RNA-binding domains and RNA-binding sites and application to structural genomics targets

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

(2010) Zhi-Ping Liu et al.   BIOINFORMATICS

Structure-based prediction of DNA-binding proteins by structural alignment and a volume-fraction corrected DFIRE-based energy function

(2010) H. Zhao et al.   BIOINFORMATICS

Improve the Prediction of RNA-Binding Residues Using Structural Neighbours

(2010) Quan Li et al.   PROTEIN AND PEPTIDE LETTERS

Protein function annotation from sequence: prediction of residues interacting with RNA

(2009) R. V. Spriggs et al.   BIOINFORMATICS

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

(2009) Stefan R Maetschke et al.   BMC BIOINFORMATICS

Predicting DNA- and RNA-binding proteins from sequences with kernel methods

(2009) Xiaojian Shao et al.   JOURNAL OF THEORETICAL BIOLOGY

An all-atom knowledge-based energy function for protein-DNA threading, docking decoy discrimination, and prediction of transcription-factor binding profiles

(2009) Beisi Xu et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Optimal protein-RNA area, OPRA: A propensity-based method to identify RNA-binding sites on proteins

(2009) Laura Pérez-Cano et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

PRINTR: Prediction of RNA binding sites in proteins using SVM and profiles

(2008) Y. Wang et al.   AMINO ACIDS

RISP: A web-based server for prediction of RNA-binding sites in proteins

(2008) Jing Tong et al.   COMPUTER METHODS AND PROGRAMS IN BIOMEDICINE

RNA recognition motifs: boring? Not quite

(2008) Antoine Cléry et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

RNA-binding proteins and post-transcriptional gene regulation

(2008) Tina Glisovic et al.   FEBS LETTERS

DBD-Hunter: a knowledge-based method for the prediction of DNA–protein interactions

(2008) Mu Gao et al.   NUCLEIC ACIDS RESEARCH

Predicting RNA-binding sites from the protein structure based on electrostatics, evolution and geometry

(2008) Yao Chi Chen et al.   NUCLEIC ACIDS RESEARCH

Ab initio folding of terminal segments with secondary structures reveals the fine difference between two closely related all-atom statistical energy functions

(2008) Yuedong Yang et al.   PROTEIN SCIENCE

Specific interactions for ab initio folding of protein terminal regions with secondary structures

(2008) Yuedong Yang et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

RNA-binding proteins in human genetic disease

(2008) Kiven E. Lukong et al.   TRENDS IN GENETICS

Classifying RNA-Binding Proteins Based on Electrostatic Properties

(2008) Shula Shazman et al.   PLoS Computational Biology

Prediction of RNA binding sites in a protein using SVM and PSSM profile

(2007) Manish Kumar et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Distance-scaled, finite ideal-gas reference state improves structure-derived potentials of mean force for structure selection and stability prediction

(2002) Hongyi Zhou et al.   PROTEIN SCIENCE