Table 4.
Main data sources (Part III).
| Type | Data source | Species | RNAs | Format | API | Threshold | SI | Relation with | TI | Relation |
|---|---|---|---|---|---|---|---|---|---|---|
| Viral RNA | ViroidDB149 | 9 | 9,891 | CSV | no | WR | ribozyme | P | 17,460 | |
| snoRNA | snoDB150 | HS | 751 | CSV | no | WR |
gene mRNA lncRNA miRNA pseudogene rRNA snoRNA snRNA tRNA scaRNA |
WR WR WR WR WR P WR WR P WR |
763 276 45 17 10 735 670 164 164 34 |
|
| tRNA | tRNAdb151 | 681 | 9,758 | rel | no | WR | amino acid | M | 8,872 | |
| GtRNAdb152 | 4,857 | 426,592 | rel | no | WR | epi. mod. | M | 1,366 | ||
| piRNA | piRBase82 | 44 | 218,383,944 | rel | no | WR |
disease variant mRNA lncRNA |
M WR WR WR |
302 1,640,636 30,338 1,199 |
|
| iPiDA-GCN153 | HS | 10,149 | CSV | no | WR | disease | O | 11,981 | ||
| TarpiD154 | 9 | 1,154 | rel | no | WR |
gene disease |
WR M |
28,682 11,869 |
||
| Inter RNA | RNAInter155 | 156 | 455,887 | CSV | yes | σ ≥ 0.2886 | WR |
chemical histone mod. RBP TF protein gene |
M M M M M WR |
10,890 1,060,685 5,200,067 9,323,690 22,543,829 119,377 |
| RNALocate156 | 104 | 123,592 | CSV | yes | WR | cell. component | M | 213,429 | ||
| RNADisease157 | 117 | 91,245 | CSV | yes | σ ≥ 0.95 | WR | disease | O | 343,273 | |
| ncRDeathDB158 | 12 | 648 | CSV | yes | WR | prog. cell death | M | 4,615 | ||
| cncRNADB159 | 21 | 2,002 | CSV | yes | WR | anatomy | M | 2,598 | ||
| ViRBase160 | 152 | 41,718 | CSV | yes | σ ≥ 0.7 | WR |
viral RNA viral protein |
WR M |
719,214 195 |
|
| Vesiclepedia161 | 41 | 20,490 | CSV | no | WR | extracell. form | M | 388,154 | ||
| DirectRMDB162 | 25 | 19,702 | CSV | no | WR | epi. mod. | M | 904,712 | ||
| Modomics163 | 32 | 225 | rel/RDF | yes | WR | epi. mod. | M | 276 | ||
| 12 | 26,245 | rel/RDF | yesS | P |
bio. process mol. function cell. component |
O O O |
48,096 23,767 42,563 |