Hi Karyn, It has been long time since we tallked :) I am cc'ing your email the biomart users. Junjun and others will be able to help you with this one
a On Thu, Jul 21, 2011 at 11:04 AM, Karyn Megy <[email protected]> wrote: > Dear Arek, > > I hope you are going well. > > I was using BioMart and noticed something strange happening - I'm not sure > it's from your end or the VectorBase one. It's a software issue rather than > a data issue, so I'm e-mailing you first. > > > When I do a joint query between, say VectorBase Genes in Aedes and > VectorBase genes in Anopheles (link by the orthlogs), if I hit the URL > button, it gives me a URL that I can send to a collaborator. That's good. > However, this URL will show the correct result but in the left hand side, > won't show the full query.... so if my collaborator hits the "result" button > again, some bit will be missing form the results. > > Exemple: > -> from this site: > http://www.biomart.org/biomart/martview/ > > -> select "VectorBase Genes 9", then "Aedes aegypti" as organism, > -> Filters: "Chromosome supercont1.1" > -> Attributes: "Ens Gene ID", "Ens Transcript ID", > "Anopheles gambiae Ens Gene ID" > > -> then link to the VectorBase Genes 9 Anopheles gambiae data set > -> Filters: "Chromosome: 2L", > -> Attributes: Ens Gene ID, Ens Transcript and Ho Term > accession > > > This give this URL: > > http://www.biomart.org/biomart/martview?VIRTUALSCHEMANAME=default&ATTRIBUTES=aaegypti_vb_gene.default.homologs.ensembl_gene_id|aaegypti_vb_gene.default.homologs.ensembl_transcript_id|aaegypti_vb_gene.default.homologs.agambiae_vb_gene|agambiae_vb_gene.default.homologs.ensembl_gene_id|agambiae_vb_gene.default.homologs.ensembl_transcript_id|agambiae_vb_gene.default.homologs.go_id&FILTERS=aaegypti_vb_gene.default.filters.chromosome_name > ."supercont1.1"|agambiae_vb_gene.default.filters.chromosome_name."2L"&VISIBLEPANEL=resultspanel > > It takes you to the right results, but the list of attributes listed for > the linked data set (Anopheles in this case), is missing the GO term. See > the two screen shot below. The first one is the original query and the > second one is the "URL" query. Note the missing "Go Term Accession" in the > second case (promise, I didn't cut it from the screen shot!). > > This is important as if I send this URL to a collaborator, he can't redo a > query (changing one of the filter for ex.). > > You're probably very busy on other stuff and coming release but if you > could help answer me on this, or, if it's a aBioMart bug, as it to the to do > list, that would be great. Thanks! > > > Best, > Karyn Mégy. > > > > > > > > > > > > >
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