Hi All I would highly appreciate if you anyone would direct me to some resource for already analysed gene expression data for different human conditions, e.g. cancer, diseases ..etc. i just need to collect expression status of as many genes as possible in different conditions. I know of GEO ofcourse but its mostly .CEL files and I need ready- processed and analysed data. Thanks a lot yours, Alyaa -- Alyaa Mahmoud "Love all, trust a few, do wrong to none"- Shakespeare [[alternative HTML version deleted]]

On Tue, Jun 12, 2012 at 5:46 AM, Alyaa Mahmoud <alyamahmoud at="" gmail.com=""> wrote: > Hi All > > I would highly appreciate if you anyone would direct me to some resource > for already analysed gene expression data for different human conditions, > e.g. cancer, diseases ..etc. i just need to collect expression status of as > many genes as possible in different conditions. > > I know of GEO ofcourse but its mostly .CEL files and I need ready- processed > and analysed data. Actually, the RAW data in GEO can include .CEL files, but the data in GEO (available via the website or via the GEOquery package) are processed but do not include analysis in terms of groups. You may want to look at the gene expression atlas: http://www.ebi.ac.uk/gxa/

The GEO2R <http: www.ncbi.nlm.nih.gov="" geo="" geo2r=""/> at GEO is very good for this purpose actually. and it does provide the R.script as well. Alyaa On Tue, Jun 12, 2012 at 1:54 PM, Alyaa Mahmoud <alyamahmoud@gmail.com>wrote: > Thanks David a lot > > I will also check array express. > > Thanks for your time and prompt reply @ Sean and @ David :) > > > On Tue, Jun 12, 2012 at 12:54 PM, David Westergaard <david@harsk.dk>wrote: > >> Dear Alyaa, >> >> GEO does contains preprocessed data. You may also try to look at >> http://www.ebi.ac.uk/arrayexpress/ >> >> Besides that, it actually doesn't take too long to learn how to >> preprocess data. Bioconductor packages (Affy, limma) can do it in very >> few commands. >> >> Best, >> David >> >> 2012/6/12 Alyaa Mahmoud <alyamahmoud@gmail.com>: >> > Hi All >> > >> > I would highly appreciate if you anyone would direct me to some resource >> > for already analysed gene expression data for different human >> conditions, >> > e.g. cancer, diseases ..etc. i just need to collect expression status >> of as >> > many genes as possible in different conditions. >> > >> > I know of GEO ofcourse but its mostly .CEL files and I need >> ready-processed >> > and analysed data. >> > >> > Thanks a lot >> > yours, >> > Alyaa >> > >> > -- >> > Alyaa Mahmoud >> > >> > "Love all, trust a few, do wrong to none"- Shakespeare >> > >> > [[alternative HTML version deleted]] >> > >> > _______________________________________________ >> > Bioconductor mailing list >> > Bioconductor@r-project.org >> > https://stat.ethz.ch/mailman/listinfo/bioconductor >> > Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor >> > > > > -- > Alyaa Mahmoud > > "Love all, trust a few, do wrong to none"- Shakespeare > > -- Alyaa Mahmoud "Love all, trust a few, do wrong to none"- Shakespeare [[alternative HTML version deleted]]