Mapping domains to exons
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anupam sinha ▴ 270
@anupam-sinha-3207
Last seen 8.2 years ago
Dear all, Apologies for asking a rather vague question. I have a set of Ensembl protein ids/sequences for which I want to find the functional domains and then map this information onto genomic coordinates of the constitutive/normal exons. Is it possible to accomplish this using Bioconductor ? Thanks in advance for any suggestions. Anupam [[alternative HTML version deleted]]
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Mark Cowley ▴ 910
@mark-cowley-2951
Last seen 8.2 years ago
Hi, have you had a look at what biomaRt can do? cheers, Mark On 05/10/2010, at 2:04 AM, anupam sinha wrote: > Dear all, > Apologies for asking a rather vague question. I have a set > of Ensembl protein ids/sequences for which I want to find the functional > domains and then map this information onto genomic coordinates of the > constitutive/normal exons. Is it possible to accomplish this using > Bioconductor ? Thanks in advance for any suggestions. > > > Anupam > > [[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
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You might also want to look at the GenomicFeatures package. Marc On 10/04/2010 03:55 PM, Mark Cowley wrote: > Hi, > have you had a look at what biomaRt can do? > cheers, > Mark > > On 05/10/2010, at 2:04 AM, anupam sinha wrote: > > >> Dear all, >> Apologies for asking a rather vague question. I have a set >> of Ensembl protein ids/sequences for which I want to find the functional >> domains and then map this information onto genomic coordinates of the >> constitutive/normal exons. Is it possible to accomplish this using >> Bioconductor ? Thanks in advance for any suggestions. >> >> >> Anupam >> >> [[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 >> > _______________________________________________ > 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 >
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