Rna Regulation Of Gene Transcription Database

Question

[Anthony Mathelier]

Hello All,

I would like to know whether somebody knows about a database gathering information about gene transcriptional regulation through RNAs. For instance, some long non-coding RNAs regulate the transcription of genes (activation or silencing), the same can occur using small non-coding RNAs like microRNAs. I am not aware of such a parsable resource and would be very thankful to get some pointers.

Best.

Answer 1

[Neilfws]

Don't know about "parsable" but I know of at least two useful resources for lnc/linc RNAs:

• lincRNA catalog
• lncrna db

EDIT: Here's another which includes targets; there's an IP address in the URL so cannot vouch for its stability - LncRNADisease.

[Anthony Mathelier]

Thank you for the links. Unfortunately, they provide data about lncRNA locations but not there potential targets for transcription silencing or activation.

Maybe this resource does not exist so far.

[Neilfws]

See my edit for a third resource with target information.

[Anthony Mathelier]

Thank you very much for the link.

Answer 2

[Zhidkov]

You can check data in ChIPBase
or starBase

[Anthony Mathelier]

I did not know about starBase, it looks interesting. Thank you very much.

Answer 3

[lsp03yjh]

you can try starBase. starBase provides various RNA-RNA and protien-RNA regulatory interactions, including miRNA-lncRNA, miRNA-mRNA, miRNA-circRNA, miRNA-pseudogene, miRNA-sncRNA, protein-RNA interactions and ceRNA networks.