Dear Anze, In ensembl biomart release 69, we have renamed the "snptype_filters" internal name to "so_parent_name" to allow us to use sequence ontology term as primary terms to describe consequences of variations. Could you please try to replace the following in your xml query: <Filter name="snptype_filters" value="5_prime_UTR_variant"/> with <Filter name="so_parent_name" value="5_prime_UTR_variant"/>
Hope this helps, Regards, Thomas On 7 Feb 2013, at 15:24, Arek Kasprzyk wrote: Hi Anze, it seems that "<Filter name="snptype_filters" value="5_prime_UTR_variant"/>" is the problem here. Rhoda: - is that a known problem? a On Thu, Feb 7, 2013 at 11:02 AM, Anze Zupanic <[email protected]> wrote: Hi, All my queries that have variation as a filter return an error ("error has occurred"). Here's a xml of the query that returns an error: <!DOCTYPE Query><Query client="true" processor="TSV" limit="-1" header="1"><Dataset name="mmusculus_gene_ensembl" config="gene_ensembl_config"><Filter name="biotype" value="protein_coding"/><Filter name="status" value="KNOWN"/><Filter name="transcript_status" value="KNOWN"/><Filter name="snptype_filters" value="5_prime_UTR_variant"/><Attribute name="ensembl_transcript_id"/></Dataset></Query> Any ideas? Thanks Anze _______________________________________________ Users mailing list [email protected] https://lists.biomart.org/mailman/listinfo/users -- Arek Kasprzyk, MD, MSc, PhD BioMart Project Lead www.biomart.org _______________________________________________ Users mailing list [email protected] https://lists.biomart.org/mailman/listinfo/users -- Thomas Maurel Bioinformatician - Ensembl Production Team European Bioinformatics Institute (EMBL-EBI) Wellcome Trust Genome Campus, Hinxton Cambridge - CB10 1SD - UK
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