A comprehensive comparative review of sequence-based predictors of DNA- and RNA-binding residues

Identification of protein-interacting nucleotides in a RNA sequence using composition profile of tri-nucleotides

(2015) Bharat Panwar et al.   GENOMICS

UniProt: a hub for protein information

(2014)   NUCLEIC ACIDS RESEARCH

Predicting protein-binding RNA nucleotides using the feature-based removal of data redundancy and the interaction propensity of nucleotide triplets

(2013) Sungwook Choi et al.   COMPUTERS IN BIOLOGY AND MEDICINE

Prediction of RNA binding proteins comes of age from low resolution to high resolution

(2013) Huiying Zhao et al.   Molecular BioSystems

Novel approach for selecting the best predictor for identifying the binding sites in DNA binding proteins

(2013) R. Nagarajan et al.   NUCLEIC ACIDS RESEARCH

RefSeq: an update on mammalian reference sequences

(2013) Kim D. Pruitt et al.   NUCLEIC ACIDS RESEARCH

Protein-RNA interface residue prediction using machine learning: an assessment of the state of the art

(2012) Rasna R Walia et al.   BMC BIOINFORMATICS

Atomistic modeling of protein–DNA interaction specificity: progress and applications

(2012) Limin Angela Liu et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Sequence-Based Prediction of DNA-Binding Residues in Proteins with Conservation and Correlation Information

(2012) Xin Ma et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

MetaDBSite: a meta approach to improve protein DNA-binding sites prediction

(2011) Jingna Si et al.   BMC Systems Biology

Analysis and Prediction of RNA-Binding Residues Using Sequence, Evolutionary Conservation, and Predicted Secondary Structure and Solvent Accessibility

(2011) Tuo Zhang et al.   CURRENT PROTEIN & PEPTIDE SCIENCE

Structural Protein Descriptors in 1-Dimension and their Sequence-Based Predictions

(2011) Lukasz Kurgan et al.   CURRENT PROTEIN & PEPTIDE SCIENCE

Computational methods for prediction of protein–RNA interactions

(2011) Tomasz Puton et al.   JOURNAL OF STRUCTURAL BIOLOGY

Highly accurate and high-resolution function prediction of RNA binding proteins by fold recognition and binding affinity prediction

(2011) Huiying Zhao et al.   RNA Biology

A Critical Comparative Assessment of Predictions of Protein-Binding Sites for Biologically Relevant Organic Compounds

(2011) Ke Chen et al.   STRUCTURE

Computational tools for protein-DNA interactions

(2011) Christopher Kauffman et al.   Wiley Interdisciplinary Reviews-Data Mining and Knowledge Discovery

Identification of RNA-binding sites in proteins by integrating various sequence information

(2010) Cui-cui Wang et al.   AMINO ACIDS

CD-HIT Suite: a web server for clustering and comparing biological sequences

(2010) Ying Huang et al.   BIOINFORMATICS

Predicting RNA-binding residues from evolutionary information and sequence conservation

(2010) Yu-Feng Huang et al.   BMC GENOMICS

BindN+ for accurate prediction of DNA and RNA-binding residues from protein sequence features

(2010) Liangjiang Wang et al.   BMC Systems Biology

PiRaNhA: a server for the computational prediction of RNA-binding residues in protein sequences

(2010) Y. Murakami et al.   NUCLEIC ACIDS RESEARCH

Genomic repertoires of DNA-binding transcription factors across the tree of life

(2010) Varodom Charoensawan et al.   NUCLEIC ACIDS RESEARCH

NAPS: a residue-level nucleic acid-binding prediction server

(2010) Matthew B. Carson et al.   NUCLEIC ACIDS RESEARCH

Prediction of RNA-binding residues in proteins from primary sequence using an enriched random forest model with a novel hybrid feature

(2010) Xin Ma et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

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

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

Prediction of DNA-binding residues from protein sequence information using random forests

(2009) Liangjiang Wang et al.   BMC GENOMICS

ProteDNA: a sequence-based predictor of sequence-specific DNA-binding residues in transcription factors

(2009) Wen-Yi Chu et al.   NUCLEIC ACIDS RESEARCH

A Threading-Based Method for the Prediction of DNA-Binding Proteins with Application to the Human Genome

(2009) Mu Gao et al.   PLoS Computational Biology

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

(2008) Y. Wang et al.   AMINO ACIDS

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

A three-state prediction of single point mutations on protein stability changes

(2008) Emidio Capriotti et al.   BMC BIOINFORMATICS

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-binding proteins and post-transcriptional gene regulation

(2008) Tina Glisovic et al.   FEBS LETTERS

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

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