Hi, I d like to know if anyone has an easy way to associate one Swiss Prot ID to each probesets of Affymetrix HU133A... a Swissprot ID recognized by GenMAPP would be prefered ! thanks Philippe [[alternative HTML version deleted]]

I don't know if there is an easy way to do this using one of the Bioconductor packages, but you can download the Affy annotation from their website. http://www.affymetrix.com/redirect/taf.jsp?source=cd&dest=/Download/ta f/HG-U133A_annot_csv.zip This file has a column containing all the SwissProt numbers that the folks at Affy know about. Note here that many of the genes have more than one SwissProt number, separated by ///. You can either import the SwissProt numbers into R and associate them with your set of interesting genes, or export your results to Excel and associate using a lookup function. HTH, Jim James W. MacDonald Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623 >>> <phguardiol@aol.com> 09/27/03 08:47PM >>> Hi, I d like to know if anyone has an easy way to associate one Swiss Prot ID to each probesets of Affymetrix HU133A... a Swissprot ID recognized by GenMAPP would be prefered ! thanks Philippe [[alternative HTML version deleted]] _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor

We have been looking at providing mappings, however, as usual life is not so simple, from the Swiss-Prot Ftp site, they have SWISS-PROT is copyright. It is produced through a collaboration between the Swiss Institute of Bioinformatics and the EMBL Outstation - the European Bioinformatics Institute. There are no restrictions on its use by non-profit institutions as long as its content is in no way modified. Usage by and for commercial entities requires a license agreement. For information about the licensing scheme see: http://www.isb-sib.ch/announce/ or send an email to license@isb-sib.ch. We would not, under those terms be able to download map and freely distribute the end result. I have been meaning to get around to asking for permission to do so, but have not yet found the time (nor the right person to ask), so if someone knows more. please do let me or Jianhua Zhang know. And for any of you with your own data resources, please think carefully about your license statements. Thanks, Robert On Sat, Sep 27, 2003 at 09:36:30PM -0400, James MacDonald wrote: > I don't know if there is an easy way to do this using one of the > Bioconductor packages, but you can download the Affy annotation from > their website. > > http://www.affymetrix.com/redirect/taf.jsp?source=cd&dest=/Download/ taf/HG-U133A_annot_csv.zip > > This file has a column containing all the SwissProt numbers that the > folks at Affy know about. Note here that many of the genes have more > than one SwissProt number, separated by ///. You can either import the > SwissProt numbers into R and associate them with your set of interesting > genes, or export your results to Excel and associate using a lookup > function. > > HTH, > > Jim > > > > James W. MacDonald > Affymetrix and cDNA Microarray Core > University of Michigan Cancer Center > 1500 E. Medical Center Drive > 7410 CCGC > Ann Arbor MI 48109 > 734-647-5623 > > >>> <phguardiol@aol.com> 09/27/03 08:47PM >>> > Hi, > I d like to know if anyone has an easy way to associate one Swiss Prot > ID to > each probesets of Affymetrix HU133A... a Swissprot ID recognized by > GenMAPP > would be prefered ! > thanks > Philippe > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor -- +--------------------------------------------------------------------- ------+ | Robert Gentleman phone : (617) 632-5250 | | Associate Professor fax: (617) 632-2444 | | Department of Biostatistics office: M1B20 | | Harvard School of Public Health email: rgentlem@jimmy.harvard.edu | +--------------------------------------------------------------------- ------+