Mammalian Phenotype (MP): abnormal myeloid cell morphology

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
Integrin beta tail domain	0.0002292	Direct
Flavoproteins	0.003566	Inherited
A DNA-binding domain in eukaryotic transcription factors	0.009342	Inherited
Triple coiled coil domain of C-type lectins	0.01165	Inherited
AraD/HMP-PK domain-like	0.01165	Inherited
p53-like transcription factors	0.0484	Inherited
TIMP-like	0.09755	Inherited
Nuclear receptor ligand-binding domain	0.1184	Inherited
Cyclin-like	0.2399	Inherited
Nucleic acid-binding proteins	0.2415	Inherited
Riboflavin synthase domain-like	0.2845	Inherited
Ferredoxin reductase-like, C-terminal NADP-linked domain	0.2845	Inherited
STAT	0.4357	Inherited
Transcription factor STAT-4 N-domain	0.4357	Inherited
Terpenoid cyclases/Protein prenyltransferases	0.5242	Inherited
BAR/IMD domain-like	0.5624	Inherited
DEATH domain	0.6822	Inherited
TNF receptor-like	0.9726	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
RUNT domain	0	Direct
Integrin beta tail domain	0.0001442	Direct
Integrin beta EGF-like domains	0.0007111	Direct
Erythroid transcription factor GATA-1	0.006475	Inherited
A DNA-binding domain in eukaryotic transcription factors	0.007044	Inherited
Noncollagenous (NC1) domain of collagen IV	0.008182	Inherited
AraD-like aldolase/epimerase	0.008394	Inherited
Tissue inhibitor of metalloproteinases, TIMP	0.008394	Inherited
Triple coiled coil domain of C-type lectins	0.008394	Inherited
Cytochrome p450 reductase N-terminal domain-like	0.008394	Inherited
Long-chain cytokines	0.01054	Inherited
NADPH-cytochrome p450 reductase-like	0.02504	Inherited
NADPH-cytochrome p450 reductase FAD-binding domain-like	0.02504	Inherited
Tetraspanin	0.02504	Inherited
Hypoxia-inducible factor Hif2a, C-terminal domain	0.0358	Inherited
Eps15 homology domain (EH domain)	0.05048	Inherited
NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain	0.07855	Inherited
Nuclear receptor ligand-binding domain	0.09924	Inherited
Nuclear receptor	0.09924	Inherited
Rel/Dorsal transcription factors, DNA-binding domain	0.1052	Inherited
Cyclin	0.1052	Inherited
Short-chain cytokines	0.1329	Inherited
Interferons/interleukin-10 (IL-10)	0.1397	Inherited
DNA replication initiator (cdc21/cdc54) N-terminal domain	0.1858	Inherited
PLC-like (P variant)	0.2088	Inherited
Myb/SANT domain	0.2106	Inherited
Enabled/VASP homology 1 domain (EVH1 domain)	0.2461	Inherited
Phoshoinositide 3-kinase (PI3K) helical domain	0.2461	Inherited
Phoshoinositide 3-kinase (PI3K), catalytic domain	0.2623	Inherited
Interleukin-1 (IL-1)	0.3273	Inherited
beta-glycanases	0.3273	Inherited
STAT DNA-binding domain	0.4014	Inherited
Transcription factor STAT-4 N-domain	0.4014	Inherited
STAT	0.4014	Inherited
Integrin domains	0.4817	Inherited
Pyrin domain, PYD	0.4904	Inherited
C2 set domains	0.4904	Inherited
Pointed domain	0.5916	Inherited
Interleukin 17F, IL-17F	0.5916	Inherited
TNF receptor-like	0.7851	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
Integrin beta tail domain	0.0001162	Direct
Flavoproteins	0.00209	Inherited
A DNA-binding domain in eukaryotic transcription factors	0.005809	Inherited
AraD/HMP-PK domain-like	0.00737	Inherited
Triple coiled coil domain of C-type lectins	0.00737	Inherited
p53-like transcription factors	0.03409	Inherited
Glucocorticoid receptor-like (DNA-binding domain)	0.03697	Inherited
TIMP-like	0.07348	Inherited
Nuclear receptor ligand-binding domain	0.0912	Inherited
C2 domain (Calcium/lipid-binding domain, CaLB)	0.1618	Inherited
Cyclin-like	0.2003	Inherited
Nucleic acid-binding proteins	0.2018	Inherited
(Trans)glycosidases	0.2018	Inherited
Riboflavin synthase domain-like	0.2421	Inherited
Ferredoxin reductase-like, C-terminal NADP-linked domain	0.2421	Inherited
Transcription factor STAT-4 N-domain	0.3884	Inherited
STAT	0.3884	Inherited
Integrin domains	0.464	Inherited
C-type lectin-like	0.4744	Inherited
Terpenoid cyclases/Protein prenyltransferases	0.4768	Inherited
BAR/IMD domain-like	0.5158	Inherited
PH domain-like	0.5756	Inherited
DEATH domain	0.6404	Inherited
TNF-like	0.9165	Inherited
TNF receptor-like	0.954	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)
53300,69179 53300 - vWA-like 69179 - Integrin domains	0.0001162	Direct
57196,69687 57196 - EGF/Laminin 69687 - Integrin beta tail domain	0.0001162	Direct
47986,47986 47986 - DEATH domain 47986 - DEATH domain	0.0004842	Direct
57944,56436 57944 - Triple coiled coil domain of C-type lectins 56436 - C-type lectin-like	0.00737	Inherited
47459,55785 47459 - HLH, helix-loop-helix DNA-binding domain 55785 - PYP-like sensor domain (PAS domain)	0.009094	Inherited
47454,57959 47454 - A DNA-binding domain in eukaryotic transcription factors 57959 - Leucine zipper domain	0.0138	Inherited
57903,47370 57903 - FYVE/PHD zinc finger 47370 - Bromodomain	0.04575	Inherited
55785,55785 55785 - PYP-like sensor domain (PAS domain) 55785 - PYP-like sensor domain (PAS domain)	0.04935	Inherited
47954,47954 47954 - Cyclin-like 47954 - Cyclin-like	0.09896	Inherited
49417,81296 49417 - p53-like transcription factors 81296 - E set domains	0.09896	Inherited
56436,56436 56436 - C-type lectin-like 56436 - C-type lectin-like	0.1328	Inherited
57716,48508 57716 - Glucocorticoid receptor-like (DNA-binding domain) 48508 - Nuclear receptor ligand-binding domain	0.1337	Inherited
55550,55550 55550 - SH2 domain 55550 - SH2 domain	0.1774	Inherited
48371,56112 48371 - ARM repeat 56112 - Protein kinase-like (PK-like)	0.2367	Inherited
49562,48371 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 48371 - ARM repeat	0.2367	Inherited
50729,55550 50729 - PH domain-like 55550 - SH2 domain	0.2367	Inherited
47655,49417 47655 - STAT 49417 - p53-like transcription factors	0.3884	Inherited
49417,55550 49417 - p53-like transcription factors 55550 - SH2 domain	0.3884	Inherited
48092,47655 48092 - Transcription factor STAT-4 N-domain 47655 - STAT	0.3884	Inherited
57716,57716 57716 - Glucocorticoid receptor-like (DNA-binding domain) 57716 - Glucocorticoid receptor-like (DNA-binding domain)	0.4125	Inherited
57586,57586 57586 - TNF receptor-like 57586 - TNF receptor-like	0.5893	Inherited
49265,49265 49265 - Fibronectin type III 49265 - Fibronectin type III	0.7175	Inherited
48726,48726 48726 - Immunoglobulin 48726 - Immunoglobulin	0.9895	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)
57196,57196,69687 57196 - EGF/Laminin 57196 - EGF/Laminin 69687 - Integrin beta tail domain	0.0001162	Direct
47459,55785,55785 47459 - HLH, helix-loop-helix DNA-binding domain 55785 - PYP-like sensor domain (PAS domain) 55785 - PYP-like sensor domain (PAS domain)	0.03039	Inherited
49562,48371,56112 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 48371 - ARM repeat 56112 - Protein kinase-like (PK-like)	0.2367	Inherited
55550,56112,56112 55550 - SH2 domain 56112 - Protein kinase-like (PK-like) 56112 - Protein kinase-like (PK-like)	0.3166	Inherited
50729,55550,56112 50729 - PH domain-like 55550 - SH2 domain 56112 - Protein kinase-like (PK-like)	0.3166	Inherited
48092,47655,49417 48092 - Transcription factor STAT-4 N-domain 47655 - STAT 49417 - p53-like transcription factors	0.3884	Inherited
47655,49417,55550 47655 - STAT 49417 - p53-like transcription factors 55550 - SH2 domain	0.3884	Inherited
48726,48726,48726 48726 - Immunoglobulin 48726 - Immunoglobulin 48726 - Immunoglobulin	0.5105	Inherited