Advances in both experimental and computational approaches to genome-wide analysis of RNA transcripts have dramatically expanded our understanding of the ubiquitous and diverse roles of regulatory non-coding RNAs. This conference session includes presentations exploring computational approaches for detecting regulatory RNAs in RNA-Seq data, for analyzing in vivo CLIP data on RNA-protein interactions, and for predicting interfacial residues involved in RNA-protein recognition in RNA–protein complexes and interaction networks.