Mammalian Phenotype (MP): abnormal lymphocyte cell number

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)
SPOC domain-like	0	Direct
PsbU/PolX domain-like	0	Direct
TNF receptor-like	0.0000000002452	Direct
DNA polymerase beta, N-terminal domain-like	0.001134	Inherited
SH2 domain	0.003913	Inherited
Bcl-2 inhibitors of programmed cell death	0.005783	Inherited
E2F-DP heterodimerization region	0.00976	Inherited
DEATH domain	0.01195	Inherited
WWE domain	0.05216	Inherited
MHC antigen-recognition domain	0.08422	Inherited
Integrin alpha N-terminal domain	0.1338	Inherited
Ran binding protein zinc finger-like	0.1684	Inherited
Cysteine-rich domain	0.2051	Inherited
Toll/Interleukin receptor TIR domain	0.2593	Inherited
N-terminal nucleophile aminohydrolases (Ntn hydrolases)	0.2643	Inherited
DBL homology domain (DH-domain)	0.3757	Inherited
Calponin-homology domain, CH-domain	0.561	Inherited
Integrin domains	0.5963	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)
Proteasome subunits	0	Direct
RUNT domain	0	Direct
DNA polymerase beta-like	0	Direct
BAFF receptor-like	0	Direct
Interleukin 17F, IL-17F	0	Direct
DNA polymerase beta-like, second domain	0	Direct
TNF receptor-like	0.000000006679	Direct
Rel/Dorsal transcription factors, DNA-binding domain	0.000006316	Direct
NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain	0.00004771	Direct
DEATH domain, DD	0.0001682	Direct
Phoshoinositide 3-kinase (PI3K), catalytic domain	0.0001884	Direct
Pointed domain	0.0006902	Direct
DNA polymerase beta, N-terminal domain-like	0.0007513	Direct
E2F dimerization segment	0.002936	Inherited
SH2 domain	0.003484	Inherited
Bcl-2 inhibitors of programmed cell death	0.004221	Inherited
Interferon regulatory factor	0.004221	Inherited
SH3-domain	0.005981	Inherited
PLC-like (P variant)	0.006151	Inherited
Phoshoinositide 3-kinase (PI3K) helical domain	0.007168	Inherited
Nuclear receptor coactivator interlocking domain	0.01155	Inherited
Cell cycle transcription factor e2f-dp	0.02319	Inherited
WWE domain	0.02414	Inherited
C1 set domains (antibody constant domain-like)	0.02564	Inherited
Interferon regulatory factor 3 (IRF3), transactivation domain	0.04153	Inherited
MATH domain	0.05057	Inherited
MHC antigen-recognition domain	0.07088	Inherited
Pleckstrin-homology domain (PH domain)	0.07199	Inherited
Ran binding protein zinc finger-like	0.1477	Inherited
ets domain	0.197	Inherited
V set domains (antibody variable domain-like)	0.2502	Inherited
Toll/Interleukin receptor TIR domain	0.2864	Inherited
CCCH zinc finger	0.3043	Inherited
Higher-molecular-weight phosphotyrosine protein phosphatases	0.3446	Inherited
DBL homology domain (DH-domain)	0.3569	Inherited
Protein kinase cysteine-rich domain (cys2, phorbol-binding domain)	0.3569	Inherited
Calponin-homology domain, CH-domain	0.5414	Inherited
Integrin domains	0.5803	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)
SPOC domain-like	0	Direct
PsbU/PolX domain-like	0	Direct
TNF receptor-like	0.00000000008978	Direct
DNA polymerase beta, N-terminal domain-like	0.0006237	Direct
SH2 domain	0.002303	Inherited
Bcl-2 inhibitors of programmed cell death	0.003486	Inherited
SH3-domain	0.003569	Inherited
E2F-DP heterodimerization region	0.006083	Inherited
DEATH domain	0.007562	Inherited
Nuclear receptor coactivator interlocking domain	0.01	Inherited
p53-like transcription factors	0.01951	Inherited
WWE domain	0.03693	Inherited
beta-beta-alpha zinc fingers	0.04974	Inherited
MHC antigen-recognition domain	0.06247	Inherited
Integrin alpha N-terminal domain	0.1046	Inherited
Ran binding protein zinc finger-like	0.1346	Inherited
Cysteine-rich domain	0.1678	Inherited
Toll/Interleukin receptor TIR domain	0.2183	Inherited
N-terminal nucleophile aminohydrolases (Ntn hydrolases)	0.223	Inherited
CCCH zinc finger	0.287	Inherited
DBL homology domain (DH-domain)	0.3297	Inherited
Acyl-CoA N-acyltransferases (Nat)	0.4091	Inherited
Protein kinase-like (PK-like)	0.4427	Inherited
Calponin-homology domain, CH-domain	0.5145	Inherited
Integrin domains	0.5507	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)
81585,81301 81585 - PsbU/PolX domain-like 81301 - Nucleotidyltransferase	0	Direct
47576,48065 47576 - Calponin-homology domain, CH-domain 48065 - DBL homology domain (DH-domain)	0	Direct
55550,55550 55550 - SH2 domain 55550 - SH2 domain	0	Direct
47802,81585 47802 - DNA polymerase beta, N-terminal domain-like 81585 - PsbU/PolX domain-like	0	Direct
57586,57586 57586 - TNF receptor-like 57586 - TNF receptor-like	0.0000001299	Direct
49417,81296 49417 - p53-like transcription factors 81296 - E set domains	0.000004296	Direct
50729,56112 50729 - PH domain-like 56112 - Protein kinase-like (PK-like)	0.0001196	Direct
47986,47986 47986 - DEATH domain 47986 - DEATH domain	0.0001196	Direct
55550,50044 55550 - SH2 domain 50044 - SH3-domain	0.0003888	Direct
46785,144074 46785 - "Winged helix" DNA-binding domain 144074 - E2F-DP heterodimerization region	0.006083	Inherited
49562,48371 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 48371 - ARM repeat	0.006083	Inherited
48371,56112 48371 - ARM repeat 56112 - Protein kinase-like (PK-like)	0.02011	Inherited
57667,57667 57667 - beta-beta-alpha zinc fingers 57667 - beta-beta-alpha zinc fingers	0.02691	Inherited
50044,55550 50044 - SH3-domain 55550 - SH2 domain	0.04932	Inherited
57850,49599 57850 - RING/U-box 49599 - TRAF domain-like	0.0566	Inherited
54452,48726 54452 - MHC antigen-recognition domain 48726 - Immunoglobulin	0.06247	Inherited
69179,69179 69179 - Integrin domains 69179 - Integrin domains	0.1346	Inherited
69318,69179 69318 - Integrin alpha N-terminal domain 69179 - Integrin domains	0.1346	Inherited
50729,55550 50729 - PH domain-like 55550 - SH2 domain	0.287	Inherited
48065,50729 48065 - DBL homology domain (DH-domain) 50729 - PH domain-like	0.3297	Inherited
53300,69318 53300 - vWA-like 69318 - Integrin alpha N-terminal domain	0.3685	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)
47802,81585,81301 47802 - DNA polymerase beta, N-terminal domain-like 81585 - PsbU/PolX domain-like 81301 - Nucleotidyltransferase	0	Direct
50729,50044,55550 50729 - PH domain-like 50044 - SH3-domain 55550 - SH2 domain	0	Direct
47576,48065,50729 47576 - Calponin-homology domain, CH-domain 48065 - DBL homology domain (DH-domain) 50729 - PH domain-like	0	Direct
50044,55550,50044 50044 - SH3-domain 55550 - SH2 domain 50044 - SH3-domain	0	Direct
49562,48371,56112 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 48371 - ARM repeat 56112 - Protein kinase-like (PK-like)	0.006083	Inherited
69318,69179,69179 69318 - Integrin alpha N-terminal domain 69179 - Integrin domains 69179 - Integrin domains	0.1346	Inherited
50729,55550,56112 50729 - PH domain-like 55550 - SH2 domain 56112 - Protein kinase-like (PK-like)	0.3685	Inherited
53300,69318,69179 53300 - vWA-like 69318 - Integrin alpha N-terminal domain 69179 - Integrin domains	0.3685	Inherited
55550,56112,56112 55550 - SH2 domain 56112 - Protein kinase-like (PK-like) 56112 - Protein kinase-like (PK-like)	0.3685	Inherited