Identify mRNA GEO terms and Functions

[Fernas]

I have a list of 50 human mRNAs and I want to study their functional characteristics. Is there a database/website that can provide me with their GO terms? what about the GO terms of all human mRNAs so I can use them as background when I study GO terms enrichment?

One last question: is there a database that can predict the target mRNAs for these 50 mRNAs?

[blancha]

I have a list of 50 human mRNAs and I want to study their functional characteristics. Is there a database/website that can provide me with their GO terms?

You could use Ensembl's biomaRt. There are many other websites you could use.
I don't see the point of getting all the gene ontology terms associated with these 50 genes though. I think you rather want to do a gene ontology enrichment analysis.

what about the GO terms of all human mRNAs so I can use them as background when I study GO terms enrichment?

DAVID, and many other websites, will do a gene ontology enrichment analysis for you. You don't need to provide the GO terms for all human genes. They are already in the databases used by DAVID (and the other gene ontology enrichment analysis). Even though DAVID is my favorite, other websites may be more user-friendly, for example, GOrilla.

One last question: is there a database that can predict the target mRNAs for these 50 mRNAs?

What does this mean? mRNAs have target mRNAs?

[GenoMax]

One last question: is there a database that can predict the target mRNAs for these 50 mRNAs?

I assume that should be miRNAs? If so here is a useful link: http://www.exiqon.com/microrna-target-prediction

[Fernas]

Thank you very much indeed @blancha and @GenoMax!.

Regarding @blancha comments:
1) I already tried DAVID before but it could not recognize the mRNA ids that I have (e.g. hsa-miR-23a-3p, hsa-miR-24-3p...etc) and it could not convert them.
2) Can you detail to me how to use Biomart tool to do the gene ontology enrichment analysis?

Thanks @genoMax for the very useful link!

Regards,

[Fernas]

@blancha: I tried Biomart and could convert only 8 IDs because the IDs are in miRBase format.

[blancha]

Sorry, but you're confusing miRNAs and mRNAs.
Your questions make no sense since you do not make the proper distinction between miRNAs and mRNAs.

miRNAs target mRNAs.
miRNAs have no gene ontology terms associated with them, therefore you cannot do a gene ontology term enrichment analysis with miRNAs.

There are a variety of databases that will give you the targets of miRNAs, e.g. miRTarBase
miRBase also regroups information from different databases on the targets of miRNAs.

I'm not sure what it is that you want to do.
You may be trying to do a gene ontology analysis of the mRNA targets of 50 miRNAs.