RAIN: RNA-protein Association and Interaction Networks

Alexander Junge, Jan Christian Refsgaard, Christian Garde, Xiaoyong Pan, Alberto Santos Delgado, Ferhat Alkan, Christian Anthon, Christian von Mering, Christopher Workman, Lars Juhl Jensen, Jan Gorodkin

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Abstract

Protein association networks can be inferred from a range of resources including experimental data, literature mining and computational predictions. These types of evidence are emerging for non-coding RNAs (ncRNAs) as well. However, integration of ncRNAs into protein association networks is challenging due to data heterogeneity. Here, we present a database of ncRNA-RNA and ncRNA-protein interactions and its integration with the STRING database of protein-protein interactions. These ncRNA associations cover four organisms and have been established from curated examples, experimental data, interaction predictions and automatic literature mining. RAIN uses an integrative scoring scheme to assign a confidence score to each interaction. We demonstrate that RAIN outperforms the underlying microRNA-target predictions in inferring ncRNA interactions. RAIN can be operated through an easily accessible web interface and all interaction data can be downloaded.
Original languageEnglish
Article numberbaw167
JournalDatabase: The Journal of Biological Databases and Curation
Volume2017
Pages (from-to)1-9
Number of pages9
ISSN1758-0463
DOIs
Publication statusPublished - 2017

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