Dear Jason > Thanks for the reply. > > You are right that CDC2L1 is the previous name for CDK11B, and CDC2L2 > for CDK11A. I guess I was confused by the output given by BioMart, in > which the match between old names and new names totally are random > (see the previous post). Could be errors in BioMart (table-join)? No, not an error in BioMart (nor biomaRt) - this is what the database says. Please read my previous message. Wolfgang > Thanks again, > Jason > > > On Thu, Mar 11, 2010 at 12:42 PM, Wolfgang Huber <whuber at="" embl.de=""> wrote: >> Dear Jason >> >> a quick look at the HGNC website (http://www.genenames.org) will tell you >> that CDC2L1 is the previous name for CDK11B (the currently approved gene >> symbol) and similarly CDC2L2 for CDK11A and furthermore that Ensembl as well >> as the UCSC genome browser in the meanwhile map them to the same place in >> the reference genome and consider them isoforms of the same gene: >> http://www.genenames.org/data/hgnc_data.php?hgnc_id=1729 >> http://www.genenames.org/data/hgnc_data.php?hgnc_id=1730 >> >> OTOH, Entrez and UniProt consider them as separate genes ("Duplicated gene. >> CDK11A and CDK11B encode almost identical protein kinases of 110 kDa that >> ..."): http://www.uniprot.org/uniprot/Q9UQ88 >> >> Biology, and the history of biological discovery, can be messy... >> Other people might have more insight, but I bet it is a long story :) >> >> Wolfgang >> >> >> Jason Lu scripsit 11/03/10 17:06: >>> Hi all, >>> >>> I wonder whether I could help from this list. Sorry if this is a >>> duplicate question. >>> >>> I get confused with the following mapping (by using the BioMart >>> website). They share the same ENSG. My purpose is to match ENSG to a >>> gene symbol. >>> Do you have any suggestion which one I should use? >>> Thanks, >>> >>> >>> Ensembl Gene ID Ensembl Transcript ID HGNC symbol HGNC curated gene name >>> ENSG00000008128 ENST00000401097 CDK11B CDC2L2 >>> ENSG00000008128 ENST00000401097 CDK11A CDC2L2 >>> ENSG00000008128 ENST00000401097 CDK11B CDC2L1 >>> ENSG00000008128 ENST00000401097 CDK11A CDC2L1 >>> ENSG00000008128 ENST00000341832 CDK11B CDC2L2 >>> ENSG00000008128 ENST00000341832 CDK11A CDC2L2 >>> ENSG00000008128 ENST00000341832 CDK11B CDC2L1 >>> ENSG00000008128 ENST00000341832 CDK11A CDC2L1 >>> ENSG00000008128 ENST00000407249 CDK11B CDC2L2 >>> ENSG00000008128 ENST00000407249 CDK11A CDC2L2 >>> >>> Jason >>> >>> _______________________________________________ >>> 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 >> >> -- >> >> Best wishes >> Wolfgang >> >> >> -- >> Wolfgang Huber >> EMBL >> http://www.embl.de/research/units/genome_biology/huber/contact >> >> >> -- Best wishes Wolfgang -- Wolfgang Huber EMBL http://www.embl.de/research/units/genome_biology/huber/contact