Table 2:
Databases that collect RNA-protein interactions
| Database | URL | Features | Reference |
|---|---|---|---|
| RBPDB | http://rbpdb.ccbr.utoronto.ca/ | Direct observations of protein-RNA interactions in metazoans, both low- and high-throughput | [14] |
| CISBP-RNA | http://cisbp-rna.ccbr.utoronto.ca/ | Directly observed and predicted (by homology with known proteins) motifs. Tools for scanning sequences and comparing motifs | [68] |
| starBase | http://starbase.sysu.edu.cn/ | RBP-RNA and miRNA-RNA interactions from CLIP data | [129] |
| doRiNa | http://dorina.mdc-berlin.de/ | mRNA-centric or RBP-centric search of CLIP data including combinatorial search | [130] |
| CLIPz | http://www.clipz.unibas.ch/ | Storage and analysis (mapping reads, extracting clusters, mapping T→C conversions) of CLIP data | [131] |