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| Original file line number | Diff line number | Diff line change |
|---|---|---|
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@@ -335,7 +335,7 @@ ontologies: | |
| Ontology.'} | ||
| title: Biological Spatial Ontology | ||
| tracker: https://github.com/obophenotype/biological-spatial-ontology/issues | ||
| - build: {method: obo2owl, source_url: 'http://www.brenda-enzymes.info/ontology/tissue/tree/update/update_files/BrendaTissueOBO'} | ||
| - build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://www.brenda-enzymes.info/ontology/tissue/tree/update/update_files/BrendaTissueOBO'} | ||
| contact: {email: [email protected], label: Antje Chang} | ||
| description: A structured controlled vocabulary for the source of an enzyme comprising | ||
| tissues, cell lines, cell types and cell cultures. | ||
|
|
@@ -552,7 +552,7 @@ ontologies: | |
| title: Dictyostelium discoideum anatomy | ||
| tracker: http://sourceforge.net/tracker/?group_id=76834&atid=974664 | ||
| twitter: dictybase | ||
| - build: {method: obo2owl, source_url: 'https://raw.githubusercontent.com/dictyBase/migration-data/master/ontologies/dicty_phenotypes.obo'} | ||
| - build: {insert_ontology_id: true, method: obo2owl, source_url: 'https://raw.githubusercontent.com/dictyBase/migration-data/master/ontologies/dicty_phenotypes.obo'} | ||
| contact: {email: [email protected], label: Rex Chisholm} | ||
| description: A structured controlled vocabulary of phenotypes of the slime-mould | ||
| <i>Dictyostelium discoideum</i>. | ||
|
|
@@ -673,7 +673,7 @@ ontologies: | |
| taxon: {id: 'NCBITaxon:9606', label: Homo sapiens} | ||
| title: Human developmental anatomy, abstract | ||
| tracker: https://github.com/obophenotype/human-developmental-anatomy-ontology/issues | ||
| - build: {method: obo2owl, notes: new url soon, source_url: 'ftp://ftp.hgu.mrc.ac.uk/pub/MouseAtlas/Anatomy/EMAP_combined.obo'} | ||
| - build: {insert_ontology_id: true, method: obo2owl, notes: new url soon, source_url: 'ftp://ftp.hgu.mrc.ac.uk/pub/MouseAtlas/Anatomy/EMAP_combined.obo'} | ||
| contact: {email: [email protected], label: Terry Hayamizu} | ||
| description: A structured controlled vocabulary of stage-specific anatomical structures | ||
| of the mouse (Mus). | ||
|
|
@@ -795,7 +795,7 @@ ontologies: | |
| products: | ||
| - {id: exo.owl, ontology_purl: 'http://purl.obolibrary.org/obo/exo.owl'} | ||
| title: Exposure ontology | ||
| - build: {method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/microbial_gross_anatomy/fungi/fungal_anatomy.obo'} | ||
| - build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/microbial_gross_anatomy/fungi/fungal_anatomy.obo'} | ||
| contact: {email: [email protected], label: Maria Costanzo} | ||
| description: A structured controlled vocabulary for the anatomy of fungi. | ||
| domain: anatomy | ||
|
|
@@ -925,7 +925,7 @@ ontologies: | |
| - {id: flu.owl, ontology_purl: 'http://purl.obolibrary.org/obo/flu.owl'} | ||
| title: Influenza Ontology | ||
| tracker: http://purl.obolibrary.org/obo/flu/tracker | ||
| - build: {method: obo2owl, source_url: 'http://svn.code.sf.net/p/obo/svn/fma-conversion/trunk/fma2_obo.obo'} | ||
| - build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://svn.code.sf.net/p/obo/svn/fma-conversion/trunk/fma2_obo.obo'} | ||
| contact: {email: [email protected], label: Onard Mejino} | ||
| description: This is currently a slimmed down version of FMA | ||
| domain: anatomy | ||
|
|
@@ -1181,7 +1181,7 @@ ontologies: | |
| taxon: {id: 'NCBITaxon:40674', label: Mammalian} | ||
| title: Mammalian Feeding Muscle Ontology | ||
| tracker: https://github.com/RDruzinsky/feedontology/issues | ||
| - build: {method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/animal_gross_anatomy/fish/medaka_ontology.obo'} | ||
| - build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/animal_gross_anatomy/fish/medaka_ontology.obo'} | ||
| contact: {email: [email protected], label: Thorsten Henrich} | ||
| description: A structured controlled vocabulary of the anatomy and development of | ||
| the Japanese medaka fish, <i>Oryzias latipes</i>. | ||
|
|
@@ -1307,7 +1307,7 @@ ontologies: | |
| - {id: mmusdv.owl, ontology_purl: 'http://purl.obolibrary.org/obo/mmusdv.owl'} | ||
| - {id: mmusdv.obo, ontology_purl: 'http://purl.obolibrary.org/obo/mmusdv.obo'} | ||
| title: Mouse Developmental Stages | ||
| - build: {method: obo2owl, source_url: 'https://raw.githubusercontent.com/MICommunity/psidev/master/psi/mod/data/PSI-MOD.obo'} | ||
| - build: {insert_ontology_id: true, method: obo2owl, source_url: 'https://raw.githubusercontent.com/MICommunity/psidev/master/psi/mod/data/PSI-MOD.obo'} | ||
| contact: {email: [email protected], label: Henning Hermjakob} | ||
| description: PSI-MOD is an ontology consisting of terms that describe protein chemical | ||
| modifications | ||
|
|
@@ -1351,7 +1351,7 @@ ontologies: | |
| termgenie: http://mp.termgenie.org | ||
| title: Mammalian phenotype | ||
| tracker: https://github.com/obophenotype/mammalian-phenotype-ontology/issues | ||
| - build: {method: obo2owl, source_url: 'https://raw.githubusercontent.com/PaulNSchofield/mpath/master/mpath.obo'} | ||
| - build: {insert_ontology_id: true, method: obo2owl, source_url: 'https://raw.githubusercontent.com/PaulNSchofield/mpath/master/mpath.obo'} | ||
| contact: {email: [email protected], label: Paul Schofield} | ||
| description: A structured controlled vocabulary of mutant and transgenic mouse pathology | ||
| phenotypes | ||
|
|
@@ -1711,7 +1711,7 @@ ontologies: | |
| - {id: 'http://www.ncbi.nlm.nih.gov/pubmed/24499703', title: The pathway ontology | ||
| - updates and applications.} | ||
| title: Pathway ontology | ||
| - build: {method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/physicochemical/rex.obo'} | ||
| - build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/physicochemical/rex.obo'} | ||
| contact: {email: [email protected], label: Janna Hastings} | ||
| description: An ontology of physico-chemical processes, i.e. physico-chemical changes | ||
| occurring in course of time. | ||
|
|
@@ -1859,7 +1859,7 @@ ontologies: | |
| Ontology terms and relationships.} | ||
| title: Sequence types and features | ||
| tracker: https://github.com/The-Sequence-Ontology/SO-Ontologies/issues | ||
| - build: {method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/animal_gross_anatomy/spider/spider_comparative_biology.obo'} | ||
| - build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/anatomy/gross_anatomy/animal_gross_anatomy/spider/spider_comparative_biology.obo'} | ||
| contact: {email: [email protected], label: Martin Ramirez} | ||
| description: An ontology for spider comparative biology including anatomical parts | ||
| (e.g. leg, claw), behavior (e.g. courtship, combing) and products (i.g. silk, | ||
|
|
@@ -2260,7 +2260,7 @@ ontologies: | |
| layout: ontology_detail | ||
| taxon: {id: 'NCBITaxon:8292', label: Amphibia} | ||
| title: Amphibian taxonomy | ||
| - build: {method: obo2owl, source_url: 'http://4dx.embl.de/4DXpress_4d/edocs/bilateria_mrca.obo'} | ||
| - build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://4dx.embl.de/4DXpress_4d/edocs/bilateria_mrca.obo'} | ||
| contact: {email: [email protected], label: Thorsten Heinrich} | ||
| domain: anatomy | ||
| homepage: http://4dx.embl.de/4DXpress | ||
|
|
@@ -2309,7 +2309,7 @@ ontologies: | |
| is_obsolete: true | ||
| layout: ontology_detail | ||
| title: eVOC (Expressed Sequence Annotation for Humans) | ||
| - build: {method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/taxonomy/fly_taxonomy.obo'} | ||
| - build: {insert_ontology_id: true, method: obo2owl, source_url: 'http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/taxonomy/fly_taxonomy.obo'} | ||
| contact: {email: [email protected], label: Marta Costa} | ||
| description: The taxonomy of the family <i>Drosophilidae</i> (largely after Baechli) | ||
| and of other taxa referred to in FlyBase. | ||
|
|
||
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