Jednoduchý způsob interakce se službou Biomart bez potřeby R je přes http protokol:

curl -d@query.xml http://www.biomart.org/biomart/martservice/result

  kde query.xml obsahuje dotaz (lze vygenerovat i na webu biomartu), např.:

query=xml version="1.0" encoding="UTF-8"?>
DOCTYPE Query>
<Query  virtualSchemaName = "default" formatter = "TSV" header = "0" uniqueRows = "0" count = "" datasetConfigVersion = "0.6" >        
    <Dataset name = "hsapiens_gene_ensembl" interface = "default" >
        <Filter name = "chromosome_name" value = "1"/>
        <Filter name = "with_illumina_humanwg_6_v3" excluded = "0"/>
        <Attribute name = "ensembl_gene_id" />
        <Attribute name = "ensembl_transcript_id" />
    </Dataset>
Query>

Hledani atributu (nebo filtru):

listAttributes(ensembl)[grep("go",listAttributes(ensembl)$name),]