SPANG >> Library >> MBGD

SPARQL library for MBGD

cluster   
    Description: Basic information of cluster
    (ex. 2000)

cluster_go   
    Description: GO annotation for cluster
    (ex. 2000)

cluster_members   
    Description: Members of cluster
    (ex. 2000)

cluster_organisms   
    Description: Organisms of cluster
    (ex. 1702)

cluster_tree   
    Description: Cluster in Newick tree format
    (ex. 2000)

count_organisms   
    Description: MBGD default organisms (count)

get_ortholog   
    Description: Get orthologs in UniProt IDs
    (ex. K9Z723)

get_ortholog_from_gene   
    Description: Get ortholog GO annotation from gene ID
    (ex. eco:B0002)

get_ortholog_from_symbol   
    Description: Get ortholog GO annotation from gene symbol
    (ex. rpoB)

list_assembly   
    Description: Assembly IDs in MBGD

list_datasets   
    Description: Datasets and their basic information

list_genes   
    Description: List genes of a MBGD organism
    (ex. eco)

list_genes_with_cluster   
    Description: Cluster IDs for each gene of
    (ex. syn)

list_genomes   
    Description: List genomes in MBGD
    (ex. Complete)

list_organisms_dataset   
    Description: Selected genomes within taxon range
    (ex. tax1117)

list_organisms_default   
    Description: MBGD default organisms (list)

list_organisms_default_with_count   
    Description: MBGD default organisms (count for each phylum)

list_organisms_default_with_taxa2   
    Description: Default organisms list

list_organisms_default_with_taxa3   
    Description: Default organisms list

list_ortholog_datasets   
    Description: Ortholog datasets

list_taxid   
    Description: List of TaxIDs
    (ex. 10)

mbgd_draft_in_taxon   
    Description: MBGD draft genomes

mbgd_genome_in_taxon   
    Description: MBGD complete genomes in taxon

mbgd_genome_in_taxon_ddbj   
    Description: MBGD complete genomes in taxon

mbgd_to_eggnog   
    Description: eggNOG cluster corresponding to cluster
    (ex. 4971)

org   
    Description: Taxonomic hierarchy for
    (ex. eco)

organism_genes_in_clusters   
    Description: Cluster IDs for each gene of
    (ex. syn)

organism_to_gene_functions   
    Description: Cluster IDs for each gene of
    (ex. syn)

ortho_goa_from_xref   
    Description: GO annotation for orthologs of
    (ex. uniprot:K9Z723)

ortholog_group_members   
    Description: Members of cluster
    (ex. 2000 default)

ref_org_each_taxon   
    Description: param extended defaultOrganism
    (ex. default null)

regex_cluster_descr   
    Description: Search clusters (description regex)
    (ex. RNA polymerase)

regex_go   
    Description: Regex search fo GO
    (ex. photosys)

regex_organisms   
    Description: Search for organism names (regex)
    (ex. Halobacter)

tax2default_org   
    Description: MBGD default organisms in a specific taxon

tax_img   

tax_uri_ancestor_genomes   
    Description: Genomes above TaxID
    (ex. tax:511145 Complete)

tax_uri_genomes   
    Description: Genomes in a taxonomic range
    (ex. tax:1117 Complete)

taxid_uri_ancestors   
    Description: Taxonomic hierarchy for
    (ex. taxid:511145)

uniprot_goa   
    Description: GO annotation for UniProt IDs
    (ex. goa)