[BioC] microRNA: which genes code for a specific mirna?

[Sean Davis]

On Thu, Mar 18, 2010 at 12:28 PM, Tim Smith <tim_smith_666 at yahoo.com> wrote:
> 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 at ebi.ac.uk>
>
> Cc: bioc <bioconductor at 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
>>
>>
>>           [[alternative HTML version deleted]]
>>
>> _______________________________________________
>> Bioconductor mailing list
>> Bioconductor at stat.math.ethz.ch
>> https://stat.ethz.ch/mailman/listinfo/bioconductor
>> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
>
>
>
>
>        [[alternative HTML version deleted]]
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
>