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authorLLTommy2020-04-23 17:12:27 +0200
committerGitHub2020-04-23 17:12:27 +0200
commit3117d8cf62ee656b6f18bdcb938939f9b6b0a303 (patch)
treecb41f01bccba03f5313d0083a7598f287668ea12
parent7ef2c5c45d3d1b6e71a08fd0bdf19c42ef9e1014 (diff)
parent25dbffe47849fdbc517ad19b7836c75da31ea873 (diff)
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Merge pull request #32 from AndreaGuarracino/patch-10
dictionaries updating and creation
-rw-r--r--scripts/dict_ontology_standardization/ncbi_countries.csv2
-rw-r--r--scripts/dict_ontology_standardization/ncbi_host_health_status.csv8
-rw-r--r--scripts/dict_ontology_standardization/ncbi_speciesman_source.csv3
3 files changed, 12 insertions, 1 deletions
diff --git a/scripts/dict_ontology_standardization/ncbi_countries.csv b/scripts/dict_ontology_standardization/ncbi_countries.csv
index d5e2235..20e8a9b 100644
--- a/scripts/dict_ontology_standardization/ncbi_countries.csv
+++ b/scripts/dict_ontology_standardization/ncbi_countries.csv
@@ -63,6 +63,7 @@ China: Jiangxi,http://www.wikidata.org/entity/Q57052
China: Jilin,http://www.wikidata.org/entity/Q45208
China: Liaoning,http://www.wikidata.org/entity/Q43934
China: Macau,http://www.wikidata.org/entity/Q14773
+China: Nanchang,https://www.wikidata.org/wiki/Q171943
China: Ningxia Hui Autonomous Region,http://www.wikidata.org/entity/Q57448
China: Qinghai,http://www.wikidata.org/entity/Q45833
China: Shaanxi,http://www.wikidata.org/entity/Q47974
@@ -274,6 +275,7 @@ USA: IN,http://www.wikidata.org/entity/Q1415
USA: KS,http://www.wikidata.org/entity/Q1558
USA: KY,http://www.wikidata.org/entity/Q1603
USA: LA,http://www.wikidata.org/entity/Q1588
+"USA: New Orleans, LA",https://www.wikidata.org/wiki/Q34404
USA: MA,http://www.wikidata.org/entity/Q771
USA: MD,http://www.wikidata.org/entity/Q1391
USA: ME,http://www.wikidata.org/entity/Q724
diff --git a/scripts/dict_ontology_standardization/ncbi_host_health_status.csv b/scripts/dict_ontology_standardization/ncbi_host_health_status.csv
new file mode 100644
index 0000000..bbb9347
--- /dev/null
+++ b/scripts/dict_ontology_standardization/ncbi_host_health_status.csv
@@ -0,0 +1,8 @@
+healthy,http://purl.obolibrary.org/obo/NCIT_C115935
+asymptomatic,http://purl.obolibrary.org/obo/NCIT_C3833
+sympotmatic,http://purl.obolibrary.org/obo/NCIT_C25269
+admitted to hospital,http://purl.obolibrary.org/obo/GENEPIO_0002020
+hospitalized patient,http://purl.obolibrary.org/obo/GENEPIO_0002020
+discharged from hospital,http://purl.obolibrary.org/obo/GENEPIO_0001849
+dead,http://purl.obolibrary.org/obo/NCIT_C28554
+alive,http://purl.obolibrary.org/obo/NCIT_C37987
diff --git a/scripts/dict_ontology_standardization/ncbi_speciesman_source.csv b/scripts/dict_ontology_standardization/ncbi_speciesman_source.csv
index 909cf37..8278c90 100644
--- a/scripts/dict_ontology_standardization/ncbi_speciesman_source.csv
+++ b/scripts/dict_ontology_standardization/ncbi_speciesman_source.csv
@@ -22,4 +22,5 @@ bronchoalveolar lavage,http://purl.obolibrary.org/obo/NCIT_C13195
sputum,http://purl.obolibrary.org/obo/NCIT_C13278
aspirate,http://purl.obolibrary.org/obo/NCIT_C13347
stool,http://purl.obolibrary.org/obo/NCIT_C13234
-serum,http://purl.obolibrary.org/obo/NCIT_C13325 \ No newline at end of file
+serum,http://purl.obolibrary.org/obo/NCIT_C13325
+saliva,http://purl.obolibrary.org/obo/NCIT_C13275