Mapping Clone ID to GO terms

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Tim Smith ★ 1.1k

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ADD COMMENT • link 16.8 years ago Tim Smith ★ 1.1k

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Christos Hatzis ▴ 110

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I don't know if this is doable within Bioconductor, but if a more manual process is acceptable, Stanford's Source database does map Clone IDs to gene ids, which can help with that process. http://genome-www5.stanford.edu/cgi-bin/source/sourceSearch -Christos > -----Original Message----- > From: bioconductor-bounces at stat.math.ethz.ch > [mailto:bioconductor-bounces at stat.math.ethz.ch] On Behalf Of Tim Smith > Sent: Friday, February 08, 2008 1:34 PM > To: bioc > Subject: [BioC] Mapping Clone ID to GO terms > > Hi, > > Is there any package in bioconductor that would help me map > clone ids to GO terms? > > thanks! > > > > > > ______________________________________________________________ > ______________________ > Looking for last minute shopping deals? > > [[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 > >

ADD COMMENT • link 16.8 years ago Christos Hatzis ▴ 110

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Tim Smith ★ 1.1k

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ADD COMMENT • link 16.8 years ago Tim Smith ★ 1.1k

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Hi Tim, I found this page to be very useful for my incidental conversion of identifiers. It does do cloneIDs to GO terms too, if i am not mistaken. Guido http://idconverter.bioinfo.cnio.es/ ------------------------------------------------ Guido Hooiveld, PhD Nutrition, Metabolism & Genomics Group Division of Human Nutrition Wageningen University Biotechnion, Bomenweg 2 NL-6703 HD Wageningen the Netherlands tel: (+)31 317 485788 fax: (+)31 317 483342 internet: http://nutrigene.4t.com email: guido.hooiveld at wur.nl > -----Original Message----- > From: bioconductor-bounces at stat.math.ethz.ch > [mailto:bioconductor-bounces at stat.math.ethz.ch] On Behalf Of Tim Smith > Sent: 11 February 2008 16:55 > To: christos.hatzis at nuverabio.com; bioc > Subject: Re: [BioC] Mapping Clone ID to GO terms > > Hi Christos, > > Thanks for the link. Unfortunately, I have to do this for > several microarrays, and a manual process may not be quite right. > > Even just a table/file mapping the clone ID to gene name/gene > symbol etc. would do, but so far I have been unable to find > one on the web (or on bioconductor). > > It does seem slightly odd that for a database like the SMD, > such a mapping is not readily available. Or perhaps, it's a > reflection on my modest searching skills! > > thanks! > >

ADD REPLY • link 16.8 years ago Guido Hooiveld ★ 4.1k

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