Predictions of protein-RNA interactions

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

(2012) Alfredo Castello et al.   CELL

Three-dimensional RNA structure refinement by hydroxyl radical probing

(2012) Feng Ding et al.   NATURE METHODS

RNA-Puzzles: A CASP-like evaluation of RNA three-dimensional structure prediction

(2012) J. A. Cruz et al.   RNA

Accurate prediction of protein structural class using auto covariance transformation of PSI-BLAST profiles

(2011) Taigang Liu et al.   AMINO ACIDS

Prediction of dinucleotide-specific RNA-binding sites in proteins

(2011) Michael Fernandez et al.   BMC BIOINFORMATICS

Predicting RNA-Protein Interactions Using Only Sequence Information

(2011) Usha K Muppirala et al.   BMC BIOINFORMATICS

Molecular Mechanisms of Long Noncoding RNAs

(2011) Kevin C. Wang et al.   MOLECULAR CELL

Predicting protein associations with long noncoding RNAs

(2011) Matteo Bellucci et al.   NATURE METHODS

SMART 7: recent updates to the protein domain annotation resource

(2011) I. Letunic et al.   NUCLEIC ACIDS RESEARCH

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

RNA–protein interactions in human health and disease

(2011) Ahmad M. Khalil et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Six Rossmannoid folds, including the Class I aminoacyl-tRNA synthetases, share a partial core with the anti-codon-binding domain of a Class II aminoacyl-tRNA synthetase

(2010) S. Cammer et al.   BIOINFORMATICS

Advances in RNA structure analysis by chemical probing

(2010) Kevin M Weeks   CURRENT OPINION IN STRUCTURAL BIOLOGY

Struct-NB: predicting protein-RNA binding sites using structural features

(2010) Fadi Towfic et al.   International Journal of Data Mining and Bioinformatics

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

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

Structural characterization of proteins and complexes using small-angle X-ray solution scattering

(2010) Haydyn D.T. Mertens et al.   JOURNAL OF STRUCTURAL BIOLOGY

Inhibition of gene expression by RNase P

(2010) Eirik Wasmuth Lundblad et al.   New Biotechnology

Enlarged representative set of protein structures

(2010) Uwe Hobohm et al.   PROTEIN SCIENCE

Docking and scoring protein interactions: CAPRI 2009

(2010) Marc F. Lensink et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Long Noncoding RNA as Modular Scaffold of Histone Modification Complexes

(2010) M.-C. Tsai et al.   SCIENCE

PAR-CliP - A Method to Identify Transcriptome-wide the Binding Sites of RNA Binding Proteins

(2010) Markus Hafner et al.   Jove-Journal of Visualized Experiments

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

(2009) Stefan R Maetschke et al.   BMC BIOINFORMATICS

Protein–Precursor tRNA Contact Leads to Sequence-Specific Recognition of 5′ Leaders by Bacterial Ribonuclease P

(2009) Kristin S. Koutmou et al.   JOURNAL OF MOLECULAR BIOLOGY

Native-like RNA Tertiary Structures Using a Sequence-Encoded Cleavage Agent and Refinement by Discrete Molecular Dynamics

(2009) Costin M. Gherghe et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression

(2009) Ahmad M. Khalil et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Detailed close-ups and the big picture of spliceosomes

(2008) Melissa S Jurica   CURRENT OPINION IN STRUCTURAL BIOLOGY

RNA-binding proteins and post-transcriptional gene regulation

(2008) Tina Glisovic et al.   FEBS LETTERS

The Vienna RNA Websuite

(2008) A. R. Gruber et al.   NUCLEIC ACIDS RESEARCH

Structural inference of native and partially folded RNA by high-throughput contact mapping

(2008) R. Das et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Classifying RNA-Binding Proteins Based on Electrostatic Properties

(2008) Shula Shazman et al.   PLoS Computational Biology