www.biomart.org seems to be up and running from here a
On Thu, Aug 25, 2011 at 10:33 PM, Joachim Baran <[email protected]> wrote: > Hi! > >> Can you explain how the attributes are named? It looks like there >> are 4 parts in each [...] >> attribute:snp__simple_somatic_mutation__dm__consequence_type >> attribute:snp__feature__main__chromosome >> [...] Is there any easy way to query for the first 3 values based on the >> attribute name? > Actually, everything that appears after the colon is the attribute name. If > you look at an Ensembl mart, then you will see that the names are > considerably shorter there. For example, genes, transcription and protein IDs > are identified by: attribute:ensembl_gene_id, > attribute:ensembl_transcript_id, attribute:ensembl_peptide_id > > The only reason why the names in the SNP mart appear longer is due to their > automatic generation by an old version of BioMart (BioMart 0.7). A > description about how BioMart 0.7 created attribute names can be found in the > old documentation on www.biomart.org under the tab "Docs" -- which I cannot > link to right now because the web-site appears to be down. Anyway, you will > need to treat everything after the colon as an attribute name, because you do > not know which version of BioMart was used to create the mart or whether the > person who set up the mart changed them manually. > > Hm. I hope I have explained this more or less sensibly, but please do not > hesitate to ask again if you would like more clarification. > > Joachim _______________________________________________ Users mailing list [email protected] https://lists.biomart.org/mailman/listinfo/users
