Hi, Maura.

On Tue, May 4, 2010 at 10:05 AM, <mauede@alice.it> wrote:

> TarBase identifies gene-targets through three identifiers, namely
> "HGNC_ID", "HGNC_Symbol", ENSGxxxxxxxxx",
> Which one of such  identifiers is more reliable (unique) to extract the
> 3UTR sequences from Ensembl  through BioMart
> function calls?
>

Which gene id is from Ensembl?


> What is the difference between "HGNC_ID" and "Entrez Gene ID" ?
>

Do you know about the HGNC database?  If not, give that a google.


> Whenever I look for such names I found described the story and reasons why
> such names exist
> and the agency which is in charge of assigning them ... but I am missing
> their usage and difference with other
> *to my eyes* similar identifiers.
>
> TarBase contains 1 miRNA called "Edited-miR-376a-5p". Could you please
> explain the meaning of this name and advice about the usage of such data ?
> Should I drop the "Edited-" substring and consider it as a regular
> Validated miRNA ?
>
>
A cool feature of the tarbase database is that it is searchable.  I searched
for this miRNA and then looked at the results.  There is a paper that is
linked.  Follow that link and then read the paper.  I hope that can answer
your question.

Sean

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