BindUP: a web server for non-homology-based prediction of DNA and RNA binding proteins

Identifying DNA-binding proteins by combining support vector machine and PSSM distance transformation

(2015) Ruifeng Xu et al.   BMC Systems Biology

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

(2015) Jing Yan et al.   BRIEFINGS IN BIOINFORMATICS

Computational Prediction of RNA-Binding Proteins and Binding Sites

(2015) Jingna Si et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Conserved mRNA-binding proteomes in eukaryotic organisms

(2015) Ana M Matia-González et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

I-TASSER server: new development for protein structure and function predictions

(2015) Jianyi Yang et al.   NUCLEIC ACIDS RESEARCH

Prediction of nucleic acid binding probability in proteins: a neighboring residue network based score

(2015) Z. Miao et al.   NUCLEIC ACIDS RESEARCH

The RNA-binding proteomes from yeast to man harbour conserved enigmRBPs

(2015) Benedikt M. Beckmann et al.   Nature Communications

Conserved mRNA-binding proteomes in eukaryotic organisms

(2015) Ana M Matia-González et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

A Large-Scale Assessment of Nucleic Acids Binding Site Prediction Programs

(2015) Zhichao Miao et al.   PLoS Computational Biology

Dynamics of WD-repeat containing proteins in SSU processome components

(2014) Kouko Wada et al.   Biochemistry and Cell Biology

Discovery of protein–RNA networks

(2014) Davide Cirillo et al.   Molecular BioSystems

Chromatin enrichment for proteomics

(2014) Georg Kustatscher et al.   Nature Protocols

A census of human RNA-binding proteins

(2014) Stefanie Gerstberger et al.   NATURE REVIEWS GENETICS

The structure, function and evolution of proteins that bind DNA and RNA

(2014) William H. Hudson et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

System-wide identification of RNA-binding proteins by interactome capture

(2013) Alfredo Castello et al.   Nature Protocols

The RNA-binding protein repertoire of embryonic stem cells

(2013) S Chul Kwon et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Crystal structure of the protein fromArabidopsis thalianagene At5g06450, a putative DnaQ-like exonuclease domain-containing protein with homohexameric assembly

(2013) David W. Smith et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Prediction and validation of the unexplored RNA-binding protein atlas of the human proteome

(2013) Huiying Zhao et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Insights into RNA Biology from an Atlas of Mammalian mRNA-Binding Proteins

(2012) Alfredo Castello et al.   CELL

The mRNA-Bound Proteome and Its Global Occupancy Profile on Protein-Coding Transcripts

(2012) Alexander G. Baltz et al.   MOLECULAR CELL

Global analysis of yeast mRNPs

(2012) Sarah F Mitchell et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

From face to interface recognition: a differential geometric approach to distinguish DNA from RNA binding surfaces

(2011) Shula Shazman et al.   NUCLEIC ACIDS RESEARCH

Predicting nucleic acid binding interfaces from structural models of proteins

(2011) Iris Dror et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Analysis of electric moments of RNA-binding proteins: implications for mechanism and prediction

(2011) Shandar Ahmad et al.   BMC STRUCTURAL BIOLOGY

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

SVM based prediction of RNA-binding proteins using binding residues and evolutionary information

(2010) Manish Kumar et al.   JOURNAL OF MOLECULAR RECOGNITION

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

(2010) H. Zhao et al.   NUCLEIC ACIDS RESEARCH

Identification of DNA-binding Proteins Using Structural, Electrostatic and Evolutionary Features

(2009) Guy Nimrod et al.   JOURNAL OF MOLECULAR BIOLOGY

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

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

Rapid and systematic analysis of the RNA recognition specificities of RNA-binding proteins

(2009) Debashish Ray et al.   NATURE BIOTECHNOLOGY

A census of human transcription factors: function, expression and evolution

(2009) Juan M. Vaquerizas et al.   NATURE REVIEWS GENETICS

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

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

(2008) Mu Gao et al.   NUCLEIC ACIDS RESEARCH

The CATH classification revisited--architectures reviewed and new ways to characterize structural divergence in superfamilies

(2008) A. L. Cuff et al.   NUCLEIC ACIDS RESEARCH

Classifying RNA-Binding Proteins Based on Electrostatic Properties

(2008) Shula Shazman et al.   PLoS Computational Biology