[BioC] GEO annotation

[Marc Carlson]

Roumyana Yordanova wrote:
> Hi,
>
> Is there a package in R that downloads any available annotation (e.g. 
> cancer type, time points, dose, etc.. for each sample)  in the GSE 
> series.
> Thank you.
>
> Roumyana
>
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Perhaps you want something like this?

Package: GEOmetadb
Type: Package
Title: A compilation of metadata from NCBI GEO
Version: 1.1.1
Date: 2008-04-03
Depends: GEOquery,RSQLite
Author: Jack Zhu and Sean Davis
Maintainer: Jack Zhu <zhujack at mail.nih.gov>
biocViews: Infrastructure
Description: The NCBI Gene Expression Omnibus (GEO) represents the 
largest public repository of microarray data. However, finding data of 
interest can be challenging using current tools. GEOmetadb is an attempt 
to make access to the metadata associated with samples, platforms, and 
datasets much more feasible. This is accomplished by parsing all the 
NCBI GEO metadata into a SQLite database that can be stored and queried 
locally. GEOmetadb is simply a thin wrapper around the SQLite database 
along with associated documentation. Finally, the SQLite database is 
updated regularly as new data is added to GEO and can be downloaded at 
will for the most up-to-date metadata.
URL: http://meltzerlab.nci.nih.gov/apps/geo
License: Artistic-2.0


    Marc