EuRBPDB: a comprehensive resource for annotation, functional and oncological investigation of eukaryotic RNA binding proteins (RBPs)

Liao, J.-Y.; Yang, B.; Zhang, Y.-C.; Wang, X.-J.; Ye, Y.; Peng, J.-W.; Yang, Z.-Z.; He, J.-H.; Zhang, Y.; Hu, K.; Lin, D.-C.; Yin, D.

doi:10.1101/713164

bioRxiv · 10.1101/713164

EuRBPDB: a comprehensive resource for annotation, functional and oncological investigation of eukaryotic RNA binding proteins (RBPs)

Liao, J.-Y.·Yang, B.·Zhang, Y.-C.·Wang, X.-J.·Ye, Y.·Peng, J.-W.·Yang, Z.-Z.·He, J.-H.·Zhang, Y.·Hu, K.·Lin, D.-C.·Yin, D.

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Abstract

RNA binding proteins (RBPs) are a large protein family that plays important roles at almost all levels of gene regulation through interacting with RNAs, and contributes to numerous biological processes. However, the complete list of eukaryotic RBPs including human is still unavailable. In this study, we systematically identified RBPs in 162 eukaryotic species based on both computational analysis of RNA binding domains (RBDs) and large-scale RNA binding proteomic (RBPome) data, and established a comprehensive eukaryotic RBP database, EuRBPDB (http://EuRBPDB.syshospital.org:8081). We identified a total of 311,571 RBPs with RBDs and 3,639 non-canonical RBPs without known RBDs. EuRBPDB provides detailed annotations for each RBP, including basic information and functional annotation. Moreover, we systematically investigated RBPs in the context of cancer biology based on published literatures and large-scale omics data. To facilitate the exploration of the clinical relevance of RBPs, we additionally designed a cancer web interface to systematically and interactively display the biological features of RBPs in various types of cancers. EuRBPDB has a user-friendly web interface with browse and search functions, as well as data downloading function. We expect that EuRBPDB will be a widely-used resource and platform for the RNA biology community.

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Liao, J.-Y., Yang, B., Zhang, Y.-C., Wang, X.-J., Ye, Y., Peng, J.-W., Yang, Z.-Z., He, J.-H., Zhang, Y., Hu, K., Lin, D.-C., Yin, D.. 2019-07-24. EuRBPDB: a comprehensive resource for annotation, functional and oncological investigation of eukaryotic RNA binding proteins (RBPs). https://doi.org/10.1101/713164

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