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iPPIDB
ippidb-web
Commits
2ded0768
Commit
2ded0768
authored
8 years ago
by
Hervé MENAGER
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add first draft to retrieve uniprot info
parent
bbaead81
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ippisite/ippidb/ws.py
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ippisite/ippidb/ws.py
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2ded0768
from
bioservices.eutils
import
EUtils
from
bioservices.uniprot
import
UniProt
from
xml.etree.ElementTree
import
register_namespace
import
requests
def
get_pubmed_info
(
pmid
):
...
...
@@ -32,3 +34,12 @@ def get_epo_info(patent_number):
'
journal_name
'
:
None
,
'
biblio_year
'
:
biblio_year
,
'
authors_list
'
:
authors
}
def
get_uniprot_info
(
uniprot_id
):
uniprot_client
=
Uniprot
()
resp
=
uniprot_client
.
retrieve
(
uniprot_id
)
recommended_name
=
res
.
root
.
findall
(
'
{http://uniprot.org/uniprot}entry/{http://uniprot.org/uniprot}protein/{http://uniprot.org/uniprot}recommendedName/{http://uniprot.org/uniprot}fullName
'
)[
0
].
text
organism
=
res
.
root
.
findall
(
'
{http://uniprot.org/uniprot}entry/{http://uniprot.org/uniprot}organism/{http://uniprot.org/uniprot}dbReference[@type=
"
NCBI Taxonomy
"
]/@id
'
)
return
{
'
recommended_name
'
:
recommended_name
,
'
organism
'
:
organism
}
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