SUPERFAMILY 1.75 HMM library and genome assignments server

Phenotype Ontology

(show info)

Search the Phenotype Ontology Hierarchy:
    Using an ID or a term (should also specify its ontology/subontology), e.g.,
    • Disease Ontology: "DOID:0050687" or "DO:0050687", or "DO:cell type cancer"
    • Human Phenotype: "HP:0001909" or "PA:Leukemia"; "HP:0000006" or "MI:Autosomal dominant inheritance"; "HP:0003827" or "ON:Death in neonatal period or infancy"
    • Mouse Phenotype: "MP:0008762" or "MP:embryonic lethality"
    • Worm Phenotype: "WP:0001100" or "WP:early embryonic lethal"
    • Yeast Phenotype: "YP:0000143" or "YP:chromosome/plasmid maintenance"
    • Fly Phenotype: "FP:0000432" or "FP:mitotic cell cycle defective"
    • Fly Anatomy: "FA:00004208" or "FA:developing embryonic structure"
    • Zebrafish Anatomy: "ZA:0000396" or "ZA:nervous system"
    • Xenopus Anatomy: "XA:0000113" or "XAN:embryo"; "XA:1000012" or "XDE:embryonic stage"
    • Arabidopsis Plant: "AP:0025099" or "PAN:embryo plant structure"; "AP:0007520" or "PDE:root development stages"
    • Enzyme Commission: "EC:2.1.1.43" or "EC:Histone-lysine N-methyltransferase"
    • DrugBank ATC_code: "DB:L02" or "DB:endocrine therapy"
    • UniProtKB KeyWords: "KW:0558" or "KW:Oxidation"; "KW:0014" or "KW:AIDS"
    • UniProtKB UniPathway: "UP:UPA00705" or "UP:oxidative phosphorylation"
    Notes:
    • DO for Disease Ontology, "DO:1240" used here is equivalent to "DOID:1240" in original ontology
    • HP for Human Phenotype with 3 subontologies (PA for Phenotypic Abnormality, MI for Mode of Inheritance, and ON for ONset and clinical course)
    • MP for Mouse Phenotype
    • WP for Worm Phenotype, "WP:0001100" used here is equivalent to "WBPhenotype:0001100" in original ontology
    • YP for Yeast Phenotype, "YP:0000143" used here is equivalent to "APO:0000143" in original ontology
    • FP for Fly Phenotype, "FP:0000432" used here is equivalent to "FBcv:0000432" in original ontology
    • FA for Fly Anatomy, "FA:00004208" used here is equivalent to "FBbt:00004208" in original ontology
    • ZA for Fly Zebrafish Anatomy, "ZA:0000396" used here is equivalent to "ZFA:0000396" in original ontology
    • XA for Xenopus Anatomy with 2 subontologies (XAN for Xenopus ANatomical entity, XDE for Xenopus DEvelopment stage), "XA:0000113" used here is equivalent to "XAO:0000113" in original ontology
    • AP for Arabidopsis Plant ontology with 2 subontologies (PAN for Plant ANatomical entity, PDE for Plant structure DEvelopment stage), "AP:0025099" used here is equivalent to "PO:0025099" in original ontology
    • EC for Enzyme Commission, "EC:2.1.1.43" used here is equivalent to "2.1.1.43" in original ontology
    • DB for DrugBank ATC_code, "DB:L02" used here is equivalent to "L02" in original ontology
    • KW for UniProtKB KeyWords, "KW:0558" used here is equivalent to "KW-0558" in original ontology
    • UP for UniProtKB UniPathway, "UP:UPA00705" used here is equivalent to "UPA00705" in original ontology

1. DO Hierarchy (disease ontology from University of Maryland)

DO term [DO ID] <#Children>
Disease Ontology (DO):  Disease_Ontology [DOID:4] <8>


2. HP Hierarchy (human phenotype with 3 sub-ontologies PA, MI, ON)

HP term [HP ID] <#Children>
Phenotypic Abnormality (PA):  Phenotypic_abnormality [HP:0000118] <21>
Mode of Inheritance (MI):  Mode_of_inheritance [HP:0000005] <11>
ONset and clinical course (ON):  Onset_and_clinical_course [HP:0000004]


3. MP Hierarchy (mammalian/mouse phenotype from MGI_4.41)

MP term [MP ID] <#Children>
Mammalian Phenotype (MP):  Mammalian_phenotype [MP:0000001] <30>


4. WP Hierarchy (worm phenotype from Wormbase Release WS226)

WP term [WP ID] <#Children>
Worm Phenotype (WP):  Variant [WBPhenotype:0000886] <5>


5. YP Hierarchy (yeast phenotype from Ascomycete phenotype ontology)

YP term [YP ID] <#Children>
Yeast Phenotype (YP):  observable [APO:0000017] <7>


6. FP Hierarchy (fly phenotype from FlyBase controlled vocabulary with sub-ontology "phenotypic class")

FP term [FP ID] <#Children>
Fly Phenotype (FP):  phenotypic class [FBcv:0000347] <4>


7. FA Hierarchy (fly anatomy from FlyBase anatomy ontology)

FA term [FA ID] <#Children>
Fly Anatomy (FA):  anatomical entity [FBbt:99999999] <47>


8. ZA Hierarchy (zebrafish anatomy from ZFIN zebrafish anatomy ontology)

ZA term [ZA ID] <#Children>
Zebrafish Anatomy (ZA):  zebrafish anatomical entity [ZFA:0100000] <6>


9. XA Hierarchy (Xenopus anatomy and development from Xenbase frog anatomy ontology)

XA term [XA ID] <#Children>
Xenopus ANatomical entity (XAN):  Xenopus_anatomical_entity [XAO:0000000] <9>
Xenopus DEvelopment stage (XDE):  Xenopus_developmental_stage [XAO:1000000] <8>


10. AP Hierarchy (arabidopsis plant ontology with 2 sub-ontologies AN, DE)

AP term [AP ID] <#Children>
Plant structure DEvelopment stage (PDE):  Plant_structure_development_stage [PO:0009012] <7>
Plant ANatomical entity (PAN):  Plant_anatomical_entity [PO:0025131] <3>


11. EC Hierarchy (from IntEnz release 70)

EC term [EC ID] <#Children>
Enzyme Commission (EC):  Enzyme_Commission [root] <6>


12. Drug Hierarchy (ATC drug classification from DrugBank 3.0)

DB term [DB ID] <#Children>
Drugbank ATC_code (DB):  ATC_code [root]


13. KW Hierarchy (Keywords from UniProtKB)

KW term [KW ID] <#Children>
Biological process:  Biological_process [KW:9999] <255>
Disease:  Disease [KW:9995] <128>
Post-translational modification:  Molecular_function [KW:9992] <84>
Cellular component:  Cellular_component [KW:9998] <77>
Molecular function:  Ligand [KW:9993] <61>
Post-translational modification:  PTM [KW:9991] <39>
Domain:  Domain [KW:9994] <32>
Coding sequence diversity:  Coding_sequence_diversity [KW:9997] <14>
Developmental stage:  Developmental_stage [KW:9996] <9>


14. UP Hierarchy (UniPathway for hierarchical representation of metabolic pathways)

UP term [UP ID] <#Children>
UniPathway (UP):  Unipathway [UPA00001] <4>