Download & API
All the RNA-RNA interaction data in RIC-Atlas database can be downloaded.
| File name | Whole RNA-RNA Interactome |
|---|---|
| U87 | U87.txt.gz |
| H1 | H1.txt.gz |
| hNPC | hNPC.txt.gz |
| GM12878 | GM12878.txt.gz |
| K562 | K562.txt.gz |
| HeLa | HeLa.txt.gz |
| IMR90 | IMR90.txt.gz |
| HepG2 | HepG2.txt.gz |
| HT29 | HT29.txt.gz |
| HEK293 | HEK293.txt.gz |
Download file formats
The following are the details of each column. Here RNA1 and RNA2 are the two interacting RNAs :
1. Chr1: The name of the chromosome of the first RNA.
2. Start1: The zero-based starting position of the interacting region on chr1.
3. End1: The one-based ending position of interacting region on chr1.
4. Type1: Genomic context of the interaction region.
5. Gene1: Gene symbol1.
6. Strand1: The strand for the RNA1. Either '+'' or '-'.
7. Chr2: The name of the chromosome of the second RNA.
8. Type2: The one-based ending position of the interacting region on chr2.
9. End2: The zero-based starting position of the interacting region on chr2.
10. Type2: Genomic context of the interaction region.
11. Gene2: Gene symbol2.
12. Strand2: The strand for the RNA1. Either '+'' or '-'.
14. Observed reads: Detected reads number of the interaction.
15. P-value: Through Monte Carlo simulation, obtained the high confidence reads.
16. Cell line: Cell line of the detected interaction.
17. Species.
URL form
https://ricatlas.cn/?keyword=**&category=**&species=**
- keyword = The Symbol that the user wants to search.
- Category = The Molecular type of keyword.
- Species = Species that the user wants to search.
Specification of Tag Values
| Valid values | Note |
|---|---|
| mRNA | category limit to 'mRNA' |
| miRNA | category limit to 'miRNA' |
| * | don't limit to category |
| Valid values | Note |
|---|---|
| human | species limit to 'Homo sapiens' |
| mouse | species limit to 'Mus musculus' |
| * | don't limit to species |
Example