Hi Sean,

How do I get the mapping of the miRNA to it's genomic location? The CORNA/microRNA gives the genomic location of the target gene, and not the miRNA itself.
many thanks!



________________________________
From: Sean Davis <seandavi@gmail.com>

Cc: Cei Abreu-Goodger <cei@ebi.ac.uk>; bioc <bioconductor@stat.math.ethz.ch>
Sent: Thu, March 18, 2010 12:34:35 PM
Subject: Re: [BioC] microRNA: which genes code for a specific mirna?


> Thanks for the response.
>
> I want to map the methylation patterns to the expression for the miRNA to check for correlation between methylation and expression of the mirna. How should I go about doing this?
> thanks!

Hi, Tim.

Assuming that you have the methylation values for a set of genomic
regions and a set of miRNAs with known genomic locations, you could
certainly come up with some heuristic that associates a miRNA's with
methylation measurements.  What that heuristic should be I do not
know, but it would likely be based on at least the distance from the
methylation measurement to the miRNA location.

Sean

> ________________________________
> From: Cei Abreu-Goodger <cei@ebi.ac.uk>
>
> Cc: bioc <bioconductor@stat.math.ethz.ch>
> Sent: Thu, March 18, 2010 11:37:53 AM
> Subject: Re: [BioC] microRNA: which genes code for a specific mirna?
>
> Hi Tim,
>
> I don't think this is a Bioconductor specific problem.
>
> In any case, what do you mean? "hsa-mir-21" is the gene that encodes for "hsa-miR-21". What do you want to obtain? Some miRNAs are contained in protein coding transcripts, but not all...
>
> Cheers,
>
> Cei
>
> Tim Smith wrote:
>> Hi,
>>
>> I wanted to know which gene encodes a particular miRNA. I tried the CORNA and microRNA packages. Although these give which miRNA targets which gene, I couldn't find which gene encodes an miRNA mapping. Is there any way that I can go about doing this (e.g. to find which gene encodes for hsa-mir-21)?
>> many thanks
>>
>>
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>
>
>
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