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removing infores entries for automats that are no longer active #1251

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merged 2 commits into from
Mar 27, 2023
Merged

removing infores entries for automats that are no longer active #1251

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4113a9e
removing old automats that are no longer active
EvanDietzMorris Mar 27, 2023
055f72a
using the deprecated flag instead of removing entries
EvanDietzMorris Mar 27, 2023
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20 changes: 10 additions & 10 deletions infores_catalog_nodes.tsv
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Expand Up @@ -9,16 +9,16 @@ released Anatomical Therapeutic Chemical (ATC) Codes (from UMLS) infores:atc-cod
released Autophagy Ontology infores:atgo http://atgo.ucsd.edu/ ATGO KP Information Resource
released Athena infores:athena https://athena.ohdsi.org/search-terms/start KP t Information Resource
released Automat Biolink infores:automat-biolink https://monarchinitiative.org/ KP ['Ranking Agent'] A graph based on the [Monarch API (https://api.monarchinitiative.org/)](https://api.monarchinitiative.org/). Information Resource
released Automat Chemical normalization (trapi v-1.1.0) infores:automat-chem-norm KP ['Ranking Agent'] "A graph linking together similar compounds. Two compounds are linked by an edge in the graph if they are equivalent when charge, salts, and stereochemistry are ignored." Information Resource
released Automat Chembio infores:automat-chembio KP ['Ranking Agent'] A graph based on [chem2bio2rdf (http://cheminfov.informatics.indiana.edu:8080/c2b2r/)](http://cheminfov.informatics.indiana.edu:8080/c2b2r/). Information Resource
released Automat Cord19 infores:automat-cord19 KP ['Ranking Agent'] A literature co-occurence graph based on parsing the CORD-19 paper set. Information Resource
released Automat Cord19 Scibite (trapi v-1.1.0) infores:automat-cord19-scibite KP ['Ranking Agent'] A literature co-occurence graph based on the [scibite parsing (https://github.com/SciBiteLabs/CORD19)](https://github.com/SciBiteLabs/CORD19) of the CORD-19 paper set. Information Resource
released Automat Cord19 Scigraph (trapi v-1.1.0) infores:automat-cord19-scigraph KP ['Ranking Agent'] A literature co-occurence graph based on scigraph parsing of the CORD-19 paper set. All triples contain covid-19 as either subject or object. Information Resource
released Automat Covid Phenotypes (trapi v-1.1.0) infores:automat-covid-phenotypes KP ['Ranking Agent'] A hand-curated graph of phenotypes of covid-19. Information Resource
released Automat Covidkop KG (trapi v-1.1.0) infores:automat-covidkop KP ['Ranking Agent'] Knowledge graph constructed from Robokop KG by incorporating Cord-19 dataset and other covid related knowledge sources. Information Resource
deprecated Automat Chemical normalization (trapi v-1.1.0) infores:automat-chem-norm KP ['Ranking Agent'] "A graph linking together similar compounds. Two compounds are linked by an edge in the graph if they are equivalent when charge, salts, and stereochemistry are ignored." Information Resource
deprecated Automat Chembio infores:automat-chembio KP ['Ranking Agent'] A graph based on [chem2bio2rdf (http://cheminfov.informatics.indiana.edu:8080/c2b2r/)](http://cheminfov.informatics.indiana.edu:8080/c2b2r/). Information Resource
deprecated Automat Cord19 infores:automat-cord19 KP ['Ranking Agent'] A literature co-occurence graph based on parsing the CORD-19 paper set. Information Resource
deprecated Automat Cord19 Scibite (trapi v-1.1.0) infores:automat-cord19-scibite KP ['Ranking Agent'] A literature co-occurence graph based on the [scibite parsing (https://github.com/SciBiteLabs/CORD19)](https://github.com/SciBiteLabs/CORD19) of the CORD-19 paper set. Information Resource
deprecated Automat Cord19 Scigraph (trapi v-1.1.0) infores:automat-cord19-scigraph KP ['Ranking Agent'] A literature co-occurence graph based on scigraph parsing of the CORD-19 paper set. All triples contain covid-19 as either subject or object. Information Resource
deprecated Automat Covid Phenotypes (trapi v-1.1.0) infores:automat-covid-phenotypes KP ['Ranking Agent'] A hand-curated graph of phenotypes of covid-19. Information Resource
deprecated Automat Covidkop KG (trapi v-1.1.0) infores:automat-covidkop KP ['Ranking Agent'] Knowledge graph constructed from Robokop KG by incorporating Cord-19 dataset and other covid related knowledge sources. Information Resource
released Automat CTD (trapi v-1.1.0) infores:automat-ctd KP ['Ranking Agent'] A graph based on the [Comparative Toxicogenomics Database (ctdbase.org)](ctdbase.org). Information Resource
released Automat DrugCentral infores:automat-drug-central KP ['Ranking Agent'] A graph based on DrugCentral Information Resource
released Automat Foodb (trapi v-1.1.0) infores:automat-foodb KP ['Ranking Agent'] A graph of the food/chemical relationships in [foodb.ca](foodb.ca). Information Resource
released Automat Foodb (trapi v-1.1.0) infores:automat-foodb KP ['Ranking Agent'] A graph of the food/chemical relationships in [foodb.ca](foodb.ca). Information Resource
released Automat GTEx (trapi v-1.1.0) infores:automat-gtex KP ['Ranking Agent'] A graph containing eqtl and sqtl information from [GTEx Portal (https://gtexportal.org/home/)](https://gtexportal.org/home/). Also includes genes that the variants lie within or near. Information Resource
released Automat Gtopdb (trapi v-1.1.0) infores:automat-gtopdb KP ['Ranking Agent'] A graph based on the [IUPHAR Guide to Pharmacology (https://www.guidetopharmacology.org/)](https://www.guidetopharmacology.org/) Information Resource
released Automat GWAS Catalog infores:automat-gwas-catalog KP ['Ranking Agent'] A graph based on the GWAS Catalog Information Resource
Expand All @@ -28,12 +28,12 @@ released Automat HMDB (trapi v-1.1.0) infores:automat-hmdb KP ['Ranking Agent'
released Automat Human GOA (trapi v-1.1.0) infores:automat-human-goa KP ['Ranking Agent'] Human Gene Ontology Annotations from the GO consortium. Information Resource
released Automat IntAct (trapi v-1.1.0) infores:automat-intact KP ['Ranking Agent'] Molecular (Gene-Gene) interactions from [EBI IntAct (https://www.ebi.ac.uk/intact/)](https://www.ebi.ac.uk/intact/). Information Resource
released Automat KEGG (trapi v-1.1.0) infores:automat-kegg KP ['Ranking Agent'] A graph based on the [Kyoto Encyclopedia of Genes and Genomes (https://www.genome.jp/kegg/)](https://www.genome.jp/kegg/). Information Resource
released Automat MyChem (trapi v-1.1.0) infores:automat-mychem-info KP ['Ranking Agent'] "A graph integrating DrugBank, DrugCentral, and Aeolus data as provided by [mychem.info](mychem.info)." Information Resource
deprecated Automat MyChem (trapi v-1.1.0) infores:automat-mychem-info KP ['Ranking Agent'] "A graph integrating DrugBank, DrugCentral, and Aeolus data as provided by [mychem.info](mychem.info)." Information Resource
released Automat Ontological Hierarchy (trapi v-1.1.0) infores:automat-ontology-hierarchy KP ['Ranking Agent'] A graph for ontological hierarchy extracted from Uberongraph. Information Resource
released Automat Panther (trapi v-1.1.0) infores:automat-panther KP ['Ranking Agent'] A graph of gene families and pathways from [Panther (pantherdb.org)](pantherdb.org) Information Resource
released Automat Pharos (trapi v-1.1.0) infores:automat-pharos KP ['Ranking Agent'] A graph based on [Pharos (pharos.nih.gov)](pharos.nih.gov). Information Resource
released Automat Robokop KG (trapi v-1.1.0) infores:automat-robokop KP ['Ranking Agent'] Biomedical Knowledge graph build by constructing relationships from federated data sets. Information Resource
released Automat Textmining KP (trapi v-1.1.0) infores:automat-text-mining-provider KP ['Ranking Agent'] A literature co-occurrence graph created by the Translator Text Mining KP. Information Resource
deprecated Automat Textmining KP (trapi v-1.1.0) infores:automat-text-mining-provider KP ['Ranking Agent'] A literature co-occurrence graph created by the Translator Text Mining KP. Information Resource
released Automat Uberongraph (trapi v-1.1.0) infores:automat-uberongraph KP ['Ranking Agent'] "A graph representation of Uberongraph, an integration of ontologies including GO, CHEBI, Uberon, and HPO." Information Resource
released Automat Viral Proteome (trapi v-1.1.0) infores:automat-viral-protome KP ['Ranking Agent'] "A graph consisting of viral proteins from UniProt, connected by similarity edges from UniRef." Information Resource
released Basic Formal Ontology infores:bfo http://www.obofoundry.org/ontology/bfo.html BFO KP Information Resource
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