Thank you.
Someone had already suggested TarBase. Maybe you did.
Since these files are often changed ... at least they should be .... we would like to implement a procedure that 
download such files and process them as automatically as possible.
TarBase provides a download file which is actually an XLS file compressed as a rar archive.
I found the R function to  download the file. But I could not find any R function capable of uncompressing rar-archives.
There are function for uncompressing Z and gz archives that I tried out. They do not seem to understand the
 rar format, as expected.
Maybe the only way is to uncpmplress such rar file through a system command ?

Regards,
Maura
  

-----Messaggio originale-----
Da: michael watson (IAH-C) [mailto:michael.watson@bbsrc.ac.uk]
Inviato: sab 01/05/2010 11.29
A: mauede@alice.it; Bioconductor  List
Oggetto: RE: [BioC] Validated miRNAs revisited
 
Tarbase and miRecords are the only databases of validated targets I know of. MirWalk has a validated section but I think it comes from text mining.
________________________________________
From: bioconductor-bounces@stat.math.ethz.ch [bioconductor-bounces@stat.math.ethz.ch] On Behalf Of mauede@alice.it [mauede@alice.it]
Sent: 01 May 2010 06:11
To: Bioconductor  List
Subject: [BioC] Validated miRNAs revisited

I apologize for asking again the same question I asked some months ago.
The reason is that  a question has been raised recently by people I work with.
The question stemmed from the double meaning of the word "validated" with reference to miRNAs.
Some time ago I downloaded the Fasta files "mature.fa" and "matureStart.fa" (the latter cannot be
found any more).
I meant to get miRNAs that have been experimentally validated against (binding to) some gene targets.
I  used the dat set "hsTargets" avaiilable with Bioconductor to find the matching miRNA-terget pairs.

The question arisen is: "are the nmiRNAs I got just predicted by some code (miRanda or the like) or have they been experimentally validated" ?

I would appreciate your comments.

Thank you in advance
Maura


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