In [1]:

    

from ontobio.ontol_factory import OntologyFactory
ofactory= OntologyFactory()


    

In [4]:

    

# For SciGraph we need to use a config file that maps the SciGraph
# handle onto a URL
from ontobio.config import set_config
set_config('../conf/config.yaml')


    

    
Out[4]:





<ontobio.config.Config at 0x108c61a90>

In [7]:

    

sgo = ofactory.create('scigraph:data')


    

In [9]:

    

matches = sgo.search('Fatty acid biosynthesis')
matches


    

    
Out[9]:





['KEGG-path:map00061']

In [16]:

    

from ontobio.golr.golr_query import GolrAssociationQuery


    

In [22]:

    

q = GolrAssociationQuery(subject_category='gene', object=matches[0], subject_taxon='NCBITaxon:9606')


    

In [23]:

    

assocs = q.exec()['associations']


    

In [24]:

    

for a in assocs:
    gene = a['subject']
    print("{} {}".format(gene['id'], gene['label']))


    

    




NCBIGene:31 ACACA
NCBIGene:27349 MCAT
NCBIGene:2194 FASN
NCBIGene:55301 OLAH
NCBIGene:54995 OXSM
NCBIGene:32 ACACB