Disease Ontology (DO): hypersensitivity reaction 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)
Nitric oxide (NO) synthase oxygenase domain	0	Direct
Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex	0	Direct
Di-copper centre-containing domain	0	Direct
Toll/Interleukin receptor TIR domain	0.0001191	Direct
Notch domain	0.000326	Direct
ABC transporter transmembrane region	0.0004659	Direct
Integrin beta tail domain	0.001355	Inherited
Transcription factor STAT-4 N-domain	0.003354	Inherited
STAT	0.003354	Inherited
Calcium-dependent phosphotriesterase	0.006404	Inherited
Transglutaminase, two C-terminal domains	0.006713	Inherited
Bcl-2 inhibitors of programmed cell death	0.008688	Inherited
Single hybrid motif	0.0237	Inherited
SMAD MH1 domain	0.0237	Inherited
Growth factor receptor domain	0.0273	Inherited
RNI-like	0.02788	Inherited
CoA-dependent acyltransferases	0.03732	Inherited
4-helical cytokines	0.04666	Inherited
EGF/Laminin	0.04709	Inherited
Immunoglobulin	0.05838	Inherited
Interleukin 8-like chemokines	0.1331	Inherited
MHC antigen-recognition domain	0.1331	Inherited
TNF-like	0.1512	Inherited
TNF receptor-like	0.1957	Inherited
DEATH domain	0.3115	Inherited
vWA-like	0.3219	Inherited
Cysteine proteinases	0.3646	Inherited
Complement control module/SCR domain	0.4508	Inherited
PGBD-like	0.4667	Inherited
Cytokine	0.4667	Inherited
E set domains	0.5176	Inherited
Plexin repeat	0.5283	Inherited
Anaphylotoxins (complement system)	0.6764	Inherited
Integrin domains	0.6841	Inherited
Hemopexin-like domain	0.79	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)
Nitric oxide (NO) synthase oxygenase domain	0	Direct
Serum paraoxonase/arylesterase 1, PON1	0	Direct
Interferons/interleukin-10 (IL-10)	0.000000433	Direct
Toll/Interleukin receptor TIR domain	0.00006276	Direct
ABC transporter transmembrane region	0.00006276	Direct
V set domains (antibody variable domain-like)	0.0001828	Direct
Notch domain	0.0002488	Direct
Interleukin-1 (IL-1)	0.0005953	Direct
Integrin beta tail domain	0.001044	Inherited
Integrin beta EGF-like domains	0.001044	Inherited
C2 set domains	0.001361	Inherited
Cytochrome p450 reductase N-terminal domain-like	0.001471	Inherited
STAT	0.002673	Inherited
Transcription factor STAT-4 N-domain	0.002673	Inherited
STAT DNA-binding domain	0.002673	Inherited
Long-chain cytokines	0.004594	Inherited
Pentraxin (pentaxin)	0.005016	Inherited
NADPH-cytochrome p450 reductase-like	0.005016	Inherited
NADPH-cytochrome p450 reductase FAD-binding domain-like	0.005016	Inherited
Transglutaminase N-terminal domain	0.005405	Inherited
Transglutaminase, two C-terminal domains	0.005405	Inherited
Bcl-2 inhibitors of programmed cell death	0.007234	Inherited
Transglutaminase core	0.009594	Inherited
Growth factor receptor domain	0.01341	Inherited
Biotinyl/lipoyl-carrier proteins and domains	0.01986	Inherited
SMAD domain	0.01986	Inherited
SMAD MH1 domain	0.01986	Inherited
EGF-type module	0.05037	Inherited
MHC antigen-recognition domain	0.1194	Inherited
Interleukin 8-like chemokines	0.1194	Inherited
I set domains	0.1353	Inherited
TNF-like	0.1361	Inherited
TNF receptor-like	0.2306	Inherited
Short-chain cytokines	0.3007	Inherited
C1 set domains (antibody constant domain-like)	0.3253	Inherited
Integrin A (or I) domain	0.3874	Inherited
Complement control module/SCR domain	0.4321	Inherited
MMP N-terminal domain	0.4405	Inherited
Plexin repeat	0.5003	Inherited
Netrin-like domain (NTR/C345C module)	0.6459	Inherited
Platelet-derived growth factor-like	0.6459	Inherited
Anaphylotoxins (complement system)	0.6459	Inherited
Integrin domains	0.6605	Inherited
Hemopexin-like domain	0.7679	Inherited
Matrix metalloproteases, catalytic domain	0.7679	Inherited
Ankyrin repeat	0.9098	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)
Nitric oxide (NO) synthase oxygenase domain	0	Direct
Di-copper centre-containing domain	0	Direct
Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex	0	Direct
Toll/Interleukin receptor TIR domain	0.00007049	Direct
Notch domain	0.0001974	Direct
ABC transporter transmembrane region	0.000285	Direct
Integrin beta tail domain	0.0008621	Direct
Snake toxin-like	0.001997	Inherited
STAT	0.002233	Inherited
Transcription factor STAT-4 N-domain	0.002233	Inherited
Calcium-dependent phosphotriesterase	0.004388	Inherited
Transglutaminase, two C-terminal domains	0.004607	Inherited
Bcl-2 inhibitors of programmed cell death	0.005976	Inherited
SMAD MH1 domain	0.01734	Inherited
Single hybrid motif	0.01734	Inherited
Growth factor receptor domain	0.0201	Inherited
RNI-like	0.02058	Inherited
CoA-dependent acyltransferases	0.0279	Inherited
4-helical cytokines	0.03538	Inherited
EGF/Laminin	0.03571	Inherited
Immunoglobulin	0.04479	Inherited
MHC antigen-recognition domain	0.1073	Inherited
Interleukin 8-like chemokines	0.1073	Inherited
TNF-like	0.1224	Inherited
TNF receptor-like	0.1612	Inherited
DEATH domain	0.2658	Inherited
vWA-like	0.2755	Inherited
Cysteine proteinases	0.3138	Inherited
Complement control module/SCR domain	0.3928	Inherited
Cytokine	0.4081	Inherited
PGBD-like	0.4081	Inherited
E set domains	0.4564	Inherited
Plexin repeat	0.4662	Inherited
Anaphylotoxins (complement system)	0.6053	Inherited
Integrin domains	0.6133	Inherited
Hemopexin-like domain	0.7179	Inherited
Ankyrin repeat	0.8534	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)
90193,90193 90193 - Notch domain 90193 - Notch domain	0	Direct
51230,47005 51230 - Single hybrid motif 47005 - Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex	0	Direct
57196,90193 57196 - EGF/Laminin 90193 - Notch domain	0	Direct
47005,52777 47005 - Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex 52777 - CoA-dependent acyltransferases	0	Direct
57440,57440 57440 - Kringle-like 57440 - Kringle-like	0.00000007386	Direct
90123,52540 90123 - ABC transporter transmembrane region 52540 - P-loop containing nucleoside triphosphate hydrolases	0.000285	Direct
57196,69687 57196 - EGF/Laminin 69687 - Integrin beta tail domain	0.0008621	Direct
48092,47655 48092 - Transcription factor STAT-4 N-domain 47655 - STAT	0.002233	Inherited
47655,49417 47655 - STAT 49417 - p53-like transcription factors	0.002233	Inherited
49417,55550 49417 - p53-like transcription factors 55550 - SH2 domain	0.002233	Inherited
49309,49309 49309 - Transglutaminase, two C-terminal domains 49309 - Transglutaminase, two C-terminal domains	0.004607	Inherited
54001,49309 54001 - Cysteine proteinases 49309 - Transglutaminase, two C-terminal domains	0.004607	Inherited
81296,54001 81296 - E set domains 54001 - Cysteine proteinases	0.004607	Inherited
48726,48726 48726 - Immunoglobulin 48726 - Immunoglobulin	0.01511	Inherited
57196,57184 57196 - EGF/Laminin 57184 - Growth factor receptor domain	0.02558	Inherited
57184,57184 57184 - Growth factor receptor domain 57184 - Growth factor receptor domain	0.03092	Inherited
57196,57196 57196 - EGF/Laminin 57196 - EGF/Laminin	0.03421	Inherited
54452,48726 54452 - MHC antigen-recognition domain 48726 - Immunoglobulin	0.1224	Inherited
57586,57586 57586 - TNF receptor-like 57586 - TNF receptor-like	0.2105	Inherited
57535,57535 57535 - Complement control module/SCR domain 57535 - Complement control module/SCR domain	0.2105	Inherited
47090,55486 47090 - PGBD-like 55486 - Metalloproteases ("zincins"), catalytic domain	0.4081	Inherited
57440,50494 57440 - Kringle-like 50494 - Trypsin-like serine proteases	0.4662	Inherited
49410,50242 49410 - Alpha-macroglobulin receptor domain 50242 - TIMP-like	0.6053	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)
57196,57196,90193 57196 - EGF/Laminin 57196 - EGF/Laminin 90193 - Notch domain	0	Direct
51230,47005,52777 51230 - Single hybrid motif 47005 - Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex 52777 - CoA-dependent acyltransferases	0	Direct
57440,57440,57440 57440 - Kringle-like 57440 - Kringle-like 57440 - Kringle-like	0.00003049	Direct
57440,57440,50494 57440 - Kringle-like 57440 - Kringle-like 50494 - Trypsin-like serine proteases	0.00003049	Direct
57184,57196,57184 57184 - Growth factor receptor domain 57196 - EGF/Laminin 57184 - Growth factor receptor domain	0.0001974	Direct
57196,57196,69687 57196 - EGF/Laminin 57196 - EGF/Laminin 69687 - Integrin beta tail domain	0.0008621	Direct
57196,57184,57184 57196 - EGF/Laminin 57184 - Growth factor receptor domain 57184 - Growth factor receptor domain	0.001098	Inherited
48092,47655,49417 48092 - Transcription factor STAT-4 N-domain 47655 - STAT 49417 - p53-like transcription factors	0.002233	Inherited
47655,49417,55550 47655 - STAT 49417 - p53-like transcription factors 55550 - SH2 domain	0.002233	Inherited
81296,54001,49309 81296 - E set domains 54001 - Cysteine proteinases 49309 - Transglutaminase, two C-terminal domains	0.004607	Inherited
54001,49309,49309 54001 - Cysteine proteinases 49309 - Transglutaminase, two C-terminal domains 49309 - Transglutaminase, two C-terminal domains	0.004607	Inherited
57196,57196,57184 57196 - EGF/Laminin 57196 - EGF/Laminin 57184 - Growth factor receptor domain	0.01783	Inherited
57196,57196,57196 57196 - EGF/Laminin 57196 - EGF/Laminin 57196 - EGF/Laminin	0.02459	Inherited
57535,57535,57535 57535 - Complement control module/SCR domain 57535 - Complement control module/SCR domain 57535 - Complement control module/SCR domain	0.2755	Inherited