RNA Bioinformatics

Free Energy Minimization to Predict RNA Secondary Structures and Computational RNA Design.- RNA Secondary Structure Prediction from Multi-aligned Sequences.- A Simple Protocol for the Inference of RNA Global Pairwise Alignments.- De Novo Secondary Structure Motif Discovery Using RNAProfile.- Drawing and Editing the Secondary Structure(s) of RNA.- Modeling and Predicting RNA Three-dimensional Structures.- Fast Prediction of RNA-RNA Interaction Using Heuristic Algorithm.- Quality Control of RNA-Seq Experiments.- Accurate Mapping of RNA-seq Data.- Quantifying Entire Transcriptomes by Aligned RNA-Seq Data.- Transcriptome Assembly and Alternative Splicing Analysis.- Detection of Post-transcriptional RNA Editing Events.- Prediction of miRNA Targets.- Using Deep Sequencing Data for Identification of Editing Sites in Mature miRNAs.- NGS-Trex: An Automatic Analysis Workflow for RNA-Seq Data.- e-DNA Meta-barcoding: From NGS Raw Data to Taxonomic Profiling.- Deciphering Metatranscriptomic Data.- RIP-Seq Data Analysis to Determine RNA-protein Associations.- The ViennaRNA Web Services.- Exploring the RNA Editing Potential of RNA-Seq Data by ExpEdit.- A Guideline for the Annotation of UTR Regulatory Elements in the UTRsite Collection.- Rfam: Annotating Families of Non-coding RNA Sequences.- ASPicDB: A Database Web Tool for Alternative Splicing Analysis.- Analysis of Alternative Splicing Events in Custom Gene Datasets by AStalavista.- Computational Design of Artificial RNA Molecules ForGene Regulation.