Disease Ontology (DO): artery disease

Biomedical Ontology
Like Gene Ontology (GO), biomedical ontology such as phenotype ontology classifies and organizes gene-mutant/null phenotypic information from the very general at the top to more specific terms in the directed acyclic graph (DAG) by viewing an individual term as a node and its relations to parental terms (allowing for multiple parents) as directed edges. To navigate this hierarchy, we display all parental phenotypic terms to the current phenotypic term of interest ordered by their shortest distances to the current term. Also, only direct children phenotypic terms of the current phenotypic term are listed. Biomedical ontologies we have incorporated are as follows:

Disease Ontology (DO) Ontology
DO semantically integrates disease and medical vocabularies through extensive cross mapping of DO terms to MeSH, ICD, NCI’s thesaurus, SNOMED and OMIM.
Human Phenotype (HP) Ontology
HP captures phenotypic abnormalities that are described in OMIM, along with the corresponding disease-causing genes. It includes three complementary biological concepts: Mode_of_Inheritance (MI), ONset_and_clinical_course (ON), and Phenotypic_Abnormality (PA).
Mouse Phenotype (MP) Ontology
MP describes phenotypes of the mouse after a specific gene is genetically disrupted. Using it, Mouse Genome Informatics (MGI) provides high-coverate gene-level phenotypes for the mouse.
Worm Phenotype (WP) Ontology
WP classifies and organizes phenotype descriptions for C. elegans and other nematodes. Using it, WormBase provides primary resource for phenotype annotations for C. elegans.
Yeast Phenotype (YP) Ontology
Based on YP which is the major contributor to the ‘Ascomycete phenotype ontology’, Saccharomyces Genome Database (SGD) provides single mutant phenotypes for every gene in the yeast genome.
Fly Phenotype (FP) Ontology
FP refers to FlyBase controlled vocabulary. Specifically, a structured controlled vocabulary is used for the annotation of alleles (for their mutagen etc) in FlyBase.
Fly Anatomy (FA) Ontology
FA is a structured controlled vocabulary of the anatomy of Drosophila melanogaster, used for the description of phenotypes and where a gene is expressed.
Zebrafish Anatomy (ZA) Ontology
ZA displays anatomical terms of the zebrafish using standard anatomical nomenclature, together with affected genes.
Xenopus Anatomy (XA) Ontology
XA represents the lineage of tissues and the timing of development for frogs (Xenopus laevis and Xenopus tropicalis). It is used to annotate Xenopus gene expression patterns and mutant and morphant phenotypes.
Arabidopsis Plant Ontology (AP) Ontology
As a major contributor to Plant Ontology which describes plant anatomical and morphological structures (AN) and growth and developmental stages (DE), the Arabidopsis Information Resource (TAIR) provides arabidopsis plant ontology annotations for the model higher plant Arabidopsis thaliana.
Enzyme Commission (EC) Ontology
Each enzyme is allocated a four-digit EC number, the first three digits of which define the reaction catalysed and the fourth of which is a unique identifier (serial number). Each enzyme is also assigned a systematic name that uniquely defines the reaction catalysed.
UniProtKB KeyWords (KW) Ontology
Keywords in UniProtKB are controlled vocabulary, providing a summary of the entry content and are used to index UniProtKB/Swiss-Prot entries based on 10 categories (the category "Technical term" being excluded here). Each keyword is attributed manually to UniProtKB/Swiss-Prot entries and automatically to UniProtKB/TrEMBL entries (according to specific annotation rules).
CTD Diseases (CD) Ontology
CD is MEDIC disease vocabulary that is modified by CTD from the "Diseases" [C] branch of Medical Subject Headings (MeSH), combined with genetic disorders from the Online Mendelian Inheritance in OMIM database.
CTD Chemicals (CC) Ontology
CC is chemical vocabulary that is adapted by CTD from the "Chemicals and Drugs" category and Supplementary Concept Records of Medical Subject Headings (MeSH, a hierarchical vocabulary used to index articles for MEDLINE/PubMed).

Superfamily

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Superfamily

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SCOP term	FDR (all)	Annotation (direct or inherited)
Apolipoprotein A-I	0	Direct
Nitric oxide (NO) synthase oxygenase domain	0	Direct
Insulin-like	0	Direct
Fibrinogen coiled-coil and central regions	0	Direct
Metalloproteases ("zincins"), catalytic domain	0.00000008961	Direct
Kringle-like	0.00008454	Direct
TNF-like	0.00008903	Direct
YWTD domain	0.00009003	Direct
Leukotriene A4 hydrolase N-terminal domain	0.00009227	Direct
Blood coagulation inhibitor (disintegrin)	0.0007515	Direct
PGBD-like	0.00116	Inherited
Hemopexin-like domain	0.001434	Inherited
Hairpin loop containing domain-like	0.002706	Inherited
TSP type-3 repeat	0.002706	Inherited
Lipase/lipooxygenase domain (PLAT/LH2 domain)	0.00443	Inherited
Multidrug efflux transporter AcrB transmembrane domain	0.005037	Inherited
Flavoproteins	0.005037	Inherited
Ferredoxin reductase-like, C-terminal NADP-linked domain	0.006925	Inherited
Riboflavin synthase domain-like	0.006925	Inherited
Somatomedin B domain	0.008727	Inherited
Calcium-dependent phosphotriesterase	0.008727	Inherited
Troponin coil-coiled subunits	0.008727	Inherited
MAPEG domain-like	0.008727	Inherited
Phospholipase A2, PLA2	0.008727	Inherited
EGF/Laminin	0.02338	Inherited
Snake toxin-like	0.391	Inherited
GLA-domain	0.4826	Inherited
TNF receptor-like	0.7184	Inherited
TIMP-like	0.8985	Inherited

LINKTO: Domain2BO Download and Domain2BO Algorithm

Family

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Family

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SCOP term	FDR (all)	Annotation (direct or inherited)
Fibrinogen coiled-coil and central regions	0	Direct
Nitric oxide (NO) synthase oxygenase domain	0	Direct
Serum paraoxonase/arylesterase 1, PON1	0	Direct
Insulin-like	0	Direct
Apolipoprotein A-I	0	Direct
Extracellular domain of cell surface receptors	0.00001349	Direct
Leukotriene A4 hydrolase catalytic domain	0.00007841	Direct
YWTD domain	0.00008658	Direct
TNF-like	0.0001011	Direct
Long-chain cytokines	0.0001489	Direct
Kringle modules	0.0001827	Direct
Leukotriene A4 hydrolase N-terminal domain	0.0004193	Direct
Blood coagulation inhibitor (disintegrin)	0.0006899	Direct
Platelet-derived growth factor-like	0.001071	Inherited
MMP N-terminal domain	0.001105	Inherited
Hemopexin-like domain	0.001395	Inherited
Thrombospondin C-terminal domain	0.002192	Inherited
Tissue inhibitor of metalloproteinases, TIMP	0.002192	Inherited
TSP type-3 repeat	0.002192	Inherited
Cytochrome p450 reductase N-terminal domain-like	0.002192	Inherited
Matrix metalloproteases, catalytic domain	0.003913	Inherited
Short-chain cytokines	0.004055	Inherited
Somatomedin B domain	0.007272	Inherited
Pentraxin (pentaxin)	0.007272	Inherited
NADPH-cytochrome p450 reductase-like	0.007272	Inherited
NADPH-cytochrome p450 reductase FAD-binding domain-like	0.007272	Inherited
Interleukin-1 (IL-1)	0.008548	Inherited
Pancreatic lipase, N-terminal domain	0.01591	Inherited
Fibronectin type II module	0.02292	Inherited
EGF-type module	0.07266	Inherited
Transforming growth factor (TGF)-beta	0.3183	Inherited
GLA-domain	0.4446	Inherited
Serpins	0.638	Inherited
TNF receptor-like	0.6807	Inherited

LINKTO: Domain2BO Download and Domain2BO Algorithm

Supra-domain (Single|Duplex|Triple)

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Supra-domain (Single)

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Supra-domain (Single)	FDR (all)	Annotation (direct or inherited)
Insulin-like	0	Direct
Apolipoprotein A-I	0	Direct
Fibrinogen coiled-coil and central regions	0	Direct
Nitric oxide (NO) synthase oxygenase domain	0	Direct
Metalloproteases ("zincins"), catalytic domain	0.00000004403	Direct
Kringle-like	0.00004937	Direct
TNF-like	0.00005214	Direct
YWTD domain	0.00005278	Direct
Leukotriene A4 hydrolase N-terminal domain	0.00005402	Direct
Blood coagulation inhibitor (disintegrin)	0.0004644	Direct
PGBD-like	0.0007353	Direct
Hemopexin-like domain	0.0009141	Direct
TSP type-3 repeat	0.001777	Inherited
Hairpin loop containing domain-like	0.001777	Inherited
Lipase/lipooxygenase domain (PLAT/LH2 domain)	0.002982	Inherited
Flavoproteins	0.003411	Inherited
Multidrug efflux transporter AcrB transmembrane domain	0.003411	Inherited
Riboflavin synthase domain-like	0.004768	Inherited
Ferredoxin reductase-like, C-terminal NADP-linked domain	0.004768	Inherited
Calcium-dependent phosphotriesterase	0.006007	Inherited
Troponin coil-coiled subunits	0.006007	Inherited
Phospholipase A2, PLA2	0.006007	Inherited
MAPEG domain-like	0.006007	Inherited
Somatomedin B domain	0.006007	Inherited
EGF/Laminin	0.01708	Inherited
FnI-like domain	0.3378	Inherited
Snake toxin-like	0.3378	Inherited
GLA-domain	0.4231	Inherited
Serpins	0.6053	Inherited
TNF receptor-like	0.6468	Inherited
TIMP-like	0.8268	Inherited

LINKTO: Supra-domain2BO Download and Supra-domain2BO Algorithm

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Supra-domain (Duplex) in N- to C-terminal order

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Supra-domain (Duplex) in N- to C-terminal order	FDR (all)	Annotation (direct or inherited)
57440,57440 57440 - Kringle-like 57440 - Kringle-like	0.0000001856	Direct
57440,50494 57440 - Kringle-like 50494 - Trypsin-like serine proteases	0.000008917	Direct
57424,57424 57424 - LDL receptor-like module 57424 - LDL receptor-like module	0.00001134	Direct
57630,57196 57630 - GLA-domain 57196 - EGF/Laminin	0.00005402	Direct
63737,55486 63737 - Leukotriene A4 hydrolase N-terminal domain 55486 - Metalloproteases ("zincins"), catalytic domain	0.00005402	Direct
53300,69179 53300 - vWA-like 69179 - Integrin domains	0.0003154	Direct
57184,57603 57184 - Growth factor receptor domain 57603 - FnI-like domain	0.0003154	Direct
55486,57552 55486 - Metalloproteases ("zincins"), catalytic domain 57552 - Blood coagulation inhibitor (disintegrin)	0.0004644	Direct
47090,55486 47090 - PGBD-like 55486 - Metalloproteases ("zincins"), catalytic domain	0.0007353	Direct
103647,103647 103647 - TSP type-3 repeat 103647 - TSP type-3 repeat	0.001777	Inherited
103647,49899 103647 - TSP type-3 repeat 49899 - Concanavalin A-like lectins/glucanases	0.001777	Inherited
57184,63825 57184 - Growth factor receptor domain 63825 - YWTD domain	0.006007	Inherited
53474,49723 53474 - alpha/beta-Hydrolases 49723 - Lipase/lipooxygenase domain (PLAT/LH2 domain)	0.006007	Inherited
55486,50923 55486 - Metalloproteases ("zincins"), catalytic domain 50923 - Hemopexin-like domain	0.01028	Inherited
57586,57586 57586 - TNF receptor-like 57586 - TNF receptor-like	0.6916	Inherited

LINKTO: Supra-domain2BO Download and Supra-domain2BO Algorithm

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Supra-domain (Triple) in N- to C-terminal order

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Supra-domain (Triple) in N- to C-terminal order	FDR (all)	Annotation (direct or inherited)
57424,57424,57424 57424 - LDL receptor-like module 57424 - LDL receptor-like module 57424 - LDL receptor-like module	0.00005278	Direct
57440,57440,57440 57440 - Kringle-like 57440 - Kringle-like 57440 - Kringle-like	0.00005402	Direct
57440,57440,50494 57440 - Kringle-like 57440 - Kringle-like 50494 - Trypsin-like serine proteases	0.00005402	Direct
103647,103647,103647 103647 - TSP type-3 repeat 103647 - TSP type-3 repeat 103647 - TSP type-3 repeat	0.001777	Inherited
103647,103647,49899 103647 - TSP type-3 repeat 103647 - TSP type-3 repeat 49899 - Concanavalin A-like lectins/glucanases	0.001777	Inherited
57535,57535,57535 57535 - Complement control module/SCR domain 57535 - Complement control module/SCR domain 57535 - Complement control module/SCR domain	0.002778	Inherited
47090,55486,50923 47090 - PGBD-like 55486 - Metalloproteases ("zincins"), catalytic domain 50923 - Hemopexin-like domain	0.004768	Inherited
57184,57196,57196 57184 - Growth factor receptor domain 57196 - EGF/Laminin 57196 - EGF/Laminin	0.09872	Inherited