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Mammalian Phenotype (MP): abnormal immune serum protein physiology
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Phenotype Ontology
Like Gene Ontology (GO), phenotypy 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. Phenotype ontologies we have incorporated are as follows:
- Disease Ontology (DO) Ontology (DO) DO semantically integrates disease and medical vocabularies through extensive cross mapping of DO terms to MeSH, ICD, NCI thesaurus, SNOMED and OMIM.
- Human Phenotype (HP) Ontology (HP) 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) 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) 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 (YP) 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) 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) 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) ZA displays anatomical terms of the zebrafish using standard anatomical nomenclature, together with affected genes.
- Xenopus Anatomy (XA) Ontology (XA) 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 (AP) 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 (EC) 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.
- DrugBank ATC (DB) Ontology (DB) In the Anatomical Therapeutic Chemical (ATC) classification system, drugs are classified in groups at five different levels according to the organ or system (1st level, anatomical main group) on which they act and their therapeutic (2nd level, therapeutic subgroup), pharmacological (3rd level, pharmacological subgroup) and chemical properties (4th level, chemical subgroup; 5th level, chemical substance). Only drugs in DrugBank are considered.
- UniProtKB KeyWords (KW) Ontology (KW) 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).
- UniProtKB UniPathway (UP) Ontology (UP) UP is a fully manually curated resource for the representation and annotation of metabolic pathways, being used as controlled vocabulary for pathway annotation in UniProtKB.
Structural Domain Phenotype Ontology and its Annotations
Structural Classification of Proteins (SCOP) classifies evolutionary-related domains into Superfamily level and Family level. Using the phenotype ontologies above, we have generated the domain-centric phenotype annotations, and further identified those phenotype terms which are the most informative to annotate SCOP domains. Promisingly, domain-centric phenotypic annotations can serve as an alternative starting point to explore genotype-phenotype relationships. We provide several relevant files for the download, including the annotation and the corresponding ontology for each phenotype ontology.
- Structural Domain Disease Ontology (DO) Ontology (SDDO) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2DO.txt, and the corresponding ontology:SDDO.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Human Phenotype (HP) Ontology (SDHP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2HP.txt, and the corresponding ontology:SDHP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Mouse Phenotype (MP) Ontology (SDMP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2MP.txt, and the corresponding ontology:SDMP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Worm Phenotype (WP) Ontology (SDWP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2WP.txt, and the corresponding ontology:SDWP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Yeast Phenotype (YP) Ontology (SDYP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2YP.txt, and the corresponding ontology:SDYP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Fly Phenotype (FP) Ontology (SDFP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2FP.txt, and the corresponding ontology:SDFP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Fly Anatomy (FA) Ontology (SDFA) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2FA.txt, and the corresponding ontology:SDFA.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Zebrafish Anatomy (ZA) Ontology (SDZA) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2ZA.txt, and the corresponding ontology:SDZA.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Xenopus Anatomy (XA) Ontology (SDXA) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2XA.txt, and the corresponding ontology:SDXA.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Arabidopsis Plant Ontology (AP) Ontology (SDAP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2AP.txt, and the corresponding ontology:SDAP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Enzyme Commission (EC) Ontology (SDEC) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2EC.txt, and the corresponding ontology:SDEC.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain DrugBank ATC (DB) Ontology (SDDB) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2DB.txt, and the corresponding ontology:SDDB.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain UniProtKB KeyWords (KW) Ontology (SDKW) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2KW.txt, and the corresponding ontology:SDKW.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain UniProtKB UniPathway (UP) Ontology (SDUP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2UP.txt, and the corresponding ontology:SDUP.txt) and mysql tables (Domain2PO.sql.gz).
Supra-domain Phenotype Ontology and its Annotations
Although domain-centric annotations hold great promise in describing phenotypic nature of independent domains, most domains themselves may not just work alone. In multi-domain proteins, they may be combined together to form distinct domain architectures. The recombination of the existing domains is considered as one of major driving forces for phenotypic diversificaation. As an extension, we have also generated supra-domain phenotype ontology and its annotations. Compared to domain-centric phenotype ontology and annotations (SCOP domains at the Superfamily level and Family level), this version focuses on supra-domains and individual SCOP domains ONLY at the Superfamily level. Besides, in terms of individual superfamilies, their annotations from the domain-centric version may be different from those from supra-domains version. Depending on your focus, the former should be used for the consideration of both the Superfamily level and Family level, otherwise the latter should be used if you are interested in domain combinations. Also, we provide several relevant files for the download, including the annotation and the corresponding ontology for each phenotype ontology.
- Supra-domain Domain Disease Ontology (DO) Ontology (SPDO) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2DO.txt, and the corresponding ontology:SPDO.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Human Phenotype (HP) Ontology (SPHO) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2HP.txt, and the corresponding ontology:SPHO.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Mouse Phenotype (MP) Ontology (SPMP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2MP.txt, and the corresponding ontology:SPMP.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Worm Phenotype (WP) Ontology (SPWP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2WP.txt, and the corresponding ontology:SPWP.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Yeast Phenotype (YP) Ontology (SPYP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2YP.txt, and the corresponding ontology:SPYP.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Fly Phenotype (FP) Ontology (SPFP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2FP.txt, and the corresponding ontology:SPFP.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Fly Anatomy (FA) Ontology (SPFA) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2FA.txt, and the corresponding ontology:SPFA.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Zebrafish Anatomy (ZA) Ontology (SPZA) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2ZA.txt, and the corresponding ontology:SPZA.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Xenopus Anatomy (XA) Ontology (SPXA) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2XA.txt, and the corresponding ontology:SPXA.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Arabidopsis Plant Ontology (AP) Ontology (SPAP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2AP.txt, and the corresponding ontology:SPAP.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Enzyme Commission (EC) Ontology (SPEC) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2EC.txt, and the corresponding ontology:SPEC.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain DrugBank ATC (DB) Ontology (SPDB) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2DB.txt, and the corresponding ontology:SPDB.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain UniProtKB KeyWords (KW) Ontology (SPKW) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2KW.txt, and the corresponding ontology:SPKW.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain UniProtKB UniPathway (UP) Ontology (SPUP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2UP.txt, and the corresponding ontology:SPUP.txt) and mysql tables (SP2PO.sql.gz).
Jump to [ Top · Phenotype Hierarchy · Superfamily · Family · Supra-domain ]
Root: MP Hierarchy (mammalian/mouse phenotype from MGI_4.41)
Jump to [ Top · Phenotype Hierarchy · Superfamily · Family · Supra-domain ]
Superfamily(show details)
Jump to [ Top · Phenotype Hierarchy · Superfamily · Family · Supra-domain ]
Family(show details)
Family domains annotated to this MP term (SDMP level: Moderately Informative)
Highlighted in gray are those with FDR_all>0.001
| SCOP term | FDR (all) | Annotation (direct or inherited) |
| Interleukin 17F, IL-17F | 0 | DIRECT |
| N-acetylmuramoyl-L-alanine amidase-like | 0 | DIRECT |
| Interferon regulatory factor | 0.0000003206 | DIRECT |
| SH2 domain | 0.000001111 | DIRECT |
| Toll/Interleukin receptor TIR domain | 0.000005805 | DIRECT |
| Interferon regulatory factor 3 (IRF3), transactivation domain | 0.0000136 | DIRECT |
| Pyrin domain, PYD | 0.0000136 | DIRECT |
| 28-residue LRR | 0.00008938 | DIRECT |
| PLC-like (P variant) | 0.002041 | INHERITED FROM: decreased interleukin-2 secretion || decreased interferon-gamma secretion |
| Triple coiled coil domain of C-type lectins | 0.002458 | INHERITED FROM: abnormal cytokine level |
| TNF receptor-like | 0.002723 | INHERITED FROM: abnormal IgG1 level || abnormal interferon-gamma secretion || abnormal IgG2a level || abnormal interleukin secretion || abnormal IgG2b level |
| NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain | 0.005091 | INHERITED FROM: abnormal immunoglobulin level || increased IgG2a level || decreased IgG2a level || abnormal IgG2a level || decreased IgG2b level || abnormal interleukin secretion || abnormal IgG2b level |
| Notch domain | 0.008139 | INHERITED FROM: abnormal interleukin secretion |
| Rel/Dorsal transcription factors, DNA-binding domain | 0.00902 | INHERITED FROM: abnormal immunoglobulin level || increased IgG2a level || decreased IgG2a level || abnormal IgG2a level || decreased IgG2b level || abnormal interleukin secretion || abnormal IgG2b level |
| V set domains (antibody variable domain-like) | 0.01025 | INHERITED FROM: abnormal interferon-gamma secretion || decreased IgG2a level |
| Short-chain cytokines | 0.01274 | INHERITED FROM: abnormal IgE level || increased IgG2b level || increased IgG2a level || abnormal interferon-gamma secretion || abnormal interferon secretion || decreased interleukin-5 secretion || abnormal IgG2a level || abnormal IgG2b level |
| Caspase recruitment domain, CARD | 0.01274 | INHERITED FROM: abnormal interleukin-1 beta secretion || abnormal cytokine secretion || abnormal circulating interferon-gamma level || abnormal interferon-gamma secretion || abnormal interleukin-1 secretion || abnormal circulating interleukin-18 level || decreased interleukin-6 secretion |
| EF-hand modules in multidomain proteins | 0.01564 | INHERITED FROM: increased interleukin-2 secretion |
| Fibronectin type III | 0.01883 | INHERITED FROM: abnormal circulating interferon-gamma level || abnormal circulating cytokine level |
| DEATH domain, DD | 0.021 | INHERITED FROM: abnormal IgG level || decreased circulating interleukin-6 level || increased IgG2a level || abnormal circulating interleukin level || abnormal interleukin secretion || abnormal IgG2b level |
| STAT DNA-binding domain | 0.02693 | INHERITED FROM: abnormal interleukin level || abnormal cytokine secretion || abnormal circulating interferon-gamma level || abnormal interferon-gamma secretion || increased interferon-gamma secretion || abnormal cytokine level || abnormal circulating cytokine level || abnormal circulating interleukin level || abnormal interleukin secretion |
| Transcription factor STAT-4 N-domain | 0.02693 | INHERITED FROM: abnormal interleukin level || abnormal cytokine secretion || abnormal circulating interferon-gamma level || abnormal interferon-gamma secretion || increased interferon-gamma secretion || abnormal cytokine level || abnormal circulating cytokine level || abnormal circulating interleukin level || abnormal interleukin secretion |
| Interferons/interleukin-10 (IL-10) | 0.02693 | INHERITED FROM: decreased interleukin-10 secretion || increased tumor necrosis factor secretion || abnormal cytokine secretion || abnormal circulating cytokine level || increased interleukin-12 secretion |
| STAT | 0.02693 | INHERITED FROM: abnormal interleukin level || abnormal cytokine secretion || abnormal circulating interferon-gamma level || abnormal interferon-gamma secretion || increased interferon-gamma secretion || abnormal cytokine level || abnormal circulating cytokine level || abnormal circulating interleukin level || abnormal interleukin secretion |
| TNF-like | 0.03616 | INHERITED FROM: decreased interleukin-10 secretion || abnormal interferon-gamma secretion || abnormal IgG2a level |
| SH3-domain | 0.05698 | INHERITED FROM: decreased interleukin-2 secretion || abnormal interleukin-2 secretion |
| Interleukin-1 (IL-1) | 0.07857 | INHERITED FROM: abnormal interleukin level || abnormal interleukin-1 beta secretion || abnormal cytokine secretion || abnormal interferon-gamma secretion || abnormal interleukin-1 secretion || abnormal cytokine level || abnormal circulating cytokine level || abnormal circulating interleukin level |
| Cell cycle control phosphatase, catalytic domain | 0.1142 | INHERITED FROM: increased tumor necrosis factor secretion |
| Long-chain cytokines | 0.1285 | INHERITED FROM: abnormal cytokine level || abnormal circulating cytokine level |
| CCCH zinc finger | 0.1411 | INHERITED FROM: increased circulating tumor necrosis factor level || abnormal circulating tumor necrosis factor level |
| Pleckstrin-homology domain (PH domain) | 0.1701 | INHERITED FROM: decreased interleukin-2 secretion |
| DBL homology domain (DH-domain) | 0.1791 | INHERITED FROM: decreased interleukin-2 secretion |
| Transducin (alpha subunit), insertion domain | 0.2358 | INHERITED FROM: increased interleukin-2 secretion || increased tumor necrosis factor secretion |
| C1 set domains (antibody constant domain-like) | 0.3192 | INHERITED FROM: abnormal IgG level || abnormal interferon-gamma secretion |
| Bcl-2 inhibitors of programmed cell death | 0.3306 | INHERITED FROM: abnormal IgG level |
| I set domains | 0.3878 | INHERITED FROM: increased IgG1 level |
| MHC antigen-recognition domain | 0.3979 | INHERITED FROM: abnormal interferon-gamma secretion || abnormal interferon secretion |
| RING finger domain, C3HC4 | 0.4235 | INHERITED FROM: increased interleukin-2 secretion |
| Kringle modules | 0.4514 | INHERITED FROM: abnormal acute phase protein level |
| Caspase catalytic domain | 0.59 | INHERITED FROM: abnormal interleukin-1 beta secretion || abnormal interleukin-1 secretion || abnormal circulating interleukin-18 level |
| SCOP term | FDR (all) | Annotation (direct or inherited) |
| Interleukin 17F, IL-17F | 0 | Direct |
| N-acetylmuramoyl-L-alanine amidase-like | 0 | Direct |
| Interferon regulatory factor | 0.0000003206 | Direct |
| SH2 domain | 0.000001111 | Direct |
| Toll/Interleukin receptor TIR domain | 0.000005805 | Direct |
| Interferon regulatory factor 3 (IRF3), transactivation domain | 0.0000136 | Direct |
| Pyrin domain, PYD | 0.0000136 | Direct |
| 28-residue LRR | 0.00008938 | Direct |
| PLC-like (P variant) | 0.002041 | Inherited |
| Triple coiled coil domain of C-type lectins | 0.002458 | Inherited |
| TNF receptor-like | 0.002723 | Inherited |
| NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain | 0.005091 | Inherited |
| Notch domain | 0.008139 | Inherited |
| Rel/Dorsal transcription factors, DNA-binding domain | 0.00902 | Inherited |
| V set domains (antibody variable domain-like) | 0.01025 | Inherited |
| Short-chain cytokines | 0.01274 | Inherited |
| Caspase recruitment domain, CARD | 0.01274 | Inherited |
| EF-hand modules in multidomain proteins | 0.01564 | Inherited |
| Fibronectin type III | 0.01883 | Inherited |
| DEATH domain, DD | 0.021 | Inherited |
| STAT DNA-binding domain | 0.02693 | Inherited |
| Transcription factor STAT-4 N-domain | 0.02693 | Inherited |
| Interferons/interleukin-10 (IL-10) | 0.02693 | Inherited |
| STAT | 0.02693 | Inherited |
| TNF-like | 0.03616 | Inherited |
| SH3-domain | 0.05698 | Inherited |
| Interleukin-1 (IL-1) | 0.07857 | Inherited |
| Cell cycle control phosphatase, catalytic domain | 0.1142 | Inherited |
| Long-chain cytokines | 0.1285 | Inherited |
| CCCH zinc finger | 0.1411 | Inherited |
| Pleckstrin-homology domain (PH domain) | 0.1701 | Inherited |
| DBL homology domain (DH-domain) | 0.1791 | Inherited |
| Transducin (alpha subunit), insertion domain | 0.2358 | Inherited |
| C1 set domains (antibody constant domain-like) | 0.3192 | Inherited |
| Bcl-2 inhibitors of programmed cell death | 0.3306 | Inherited |
| I set domains | 0.3878 | Inherited |
| MHC antigen-recognition domain | 0.3979 | Inherited |
| RING finger domain, C3HC4 | 0.4235 | Inherited |
| Kringle modules | 0.4514 | Inherited |
| Caspase catalytic domain | 0.59 | Inherited |
Plot distribution on phylogenetic tree for Superfamily and/or Family domains annotated by this phenotype term
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Trees by TreeVector
A presence/absence matrix is generated using protein domain
architecture data for all genomes in SUPERFAMILY. The PAUP
software is used to produce a single, large tree topology using
heuristic parsimony methods. Genome combinations, or specific clades, can be displayed as
if individual trees had been produced. However, this data is extracted from the single
large tree. This produces a higher quality topology than if the trees had been produced
on their own, and allows the trees to be displayed instantly.
Jump to [ Top · Phenotype Hierarchy · Superfamily · Family · Supra-domain ]
Supra-domain (including individual superfamily)
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Supra-domains annotated to this MP term (SPMP level: Moderately Informative)
Highlighted in gray are those with FDR>0.001
| Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
55550,55550
55550 - SH2 domain
55550 - SH2 domain | 0 | DIRECT |
47576,48065
47576 - Calponin-homology domain, CH-domain
48065 - DBL homology domain (DH-domain) | 0 | DIRECT |
47986,52540
47986 - DEATH domain
52540 - P-loop containing nucleoside triphosphate hydrolases | 0.00005712 | DIRECT |
57586,57586
57586 - TNF receptor-like
57586 - TNF receptor-like | 0.001445 | INHERITED FROM: abnormal IgG2a level || abnormal IgG2b level || abnormal IgG1 level || abnormal interferon-gamma secretion || abnormal interleukin secretion |
57944,56436
57944 - Triple coiled coil domain of C-type lectins
56436 - C-type lectin-like | 0.002078 | INHERITED FROM: abnormal cytokine level |
55550,158235
55550 - SH2 domain
158235 - SOCS box-like | 0.003819 | INHERITED FROM: abnormal interleukin secretion || abnormal cytokine secretion |
49265,49265
49265 - Fibronectin type III
49265 - Fibronectin type III | 0.005603 | INHERITED FROM: abnormal IgG2a level || abnormal circulating cytokine level || abnormal interferon-gamma secretion || abnormal circulating interferon-gamma level || increased circulating interleukin-17 level |
49417,81296
49417 - p53-like transcription factors
81296 - E set domains | 0.008333 | INHERITED FROM: abnormal IgG2a level || abnormal IgG2b level || decreased IgG2b level || abnormal immunoglobulin level || increased IgG2a level || abnormal interleukin secretion || decreased IgG2a level |
52821,52799
52821 - Rhodanese/Cell cycle control phosphatase
52799 - (Phosphotyrosine protein) phosphatases II | 0.01308 | INHERITED FROM: increased tumor necrosis factor secretion |
50729,55550
50729 - PH domain-like
55550 - SH2 domain | 0.01495 | INHERITED FROM: abnormal IgG level |
48092,47655
48092 - Transcription factor STAT-4 N-domain
47655 - STAT | 0.02552 | INHERITED FROM: abnormal cytokine level || increased interferon-gamma secretion || abnormal circulating cytokine level || abnormal circulating interleukin level || abnormal interleukin level || abnormal interferon-gamma secretion || abnormal circulating interferon-gamma level || abnormal interleukin secretion || abnormal cytokine secretion |
49417,55550
49417 - p53-like transcription factors
55550 - SH2 domain | 0.02552 | INHERITED FROM: abnormal cytokine level || increased interferon-gamma secretion || abnormal circulating cytokine level || abnormal circulating interleukin level || abnormal interleukin level || abnormal interferon-gamma secretion || abnormal circulating interferon-gamma level || abnormal interleukin secretion || abnormal cytokine secretion |
47655,49417
47655 - STAT
49417 - p53-like transcription factors | 0.02552 | INHERITED FROM: abnormal cytokine level || increased interferon-gamma secretion || abnormal circulating cytokine level || abnormal circulating interleukin level || abnormal interleukin level || abnormal interferon-gamma secretion || abnormal circulating interferon-gamma level || abnormal interleukin secretion || abnormal cytokine secretion |
50044,55550
50044 - SH3-domain
55550 - SH2 domain | 0.02662 | INHERITED FROM: decreased interleukin-10 secretion || abnormal interferon-gamma secretion || decreased interleukin-2 secretion |
55550,56112
55550 - SH2 domain
56112 - Protein kinase-like (PK-like) | 0.05616 | INHERITED FROM: abnormal IgG2a level || abnormal interleukin-5 secretion || abnormal interferon-gamma secretion |
47986,47986
47986 - DEATH domain
47986 - DEATH domain | 0.07519 | INHERITED FROM: abnormal immunoglobulin level |
55550,50044
55550 - SH2 domain
50044 - SH3-domain | 0.1238 | INHERITED FROM: decreased interleukin-10 secretion || decreased tumor necrosis factor secretion || abnormal IgG2b level || decreased IgM level || decreased IgG2b level || abnormal IgG1 level || decreased IgG3 level || decreased interferon-gamma secretion || abnormal IgG3 level || abnormal interferon-gamma secretion || abnormal cytokine secretion || abnormal IgM level || decreased IgG1 level || abnormal IgG2 level || decreased IgG2 level || abnormal interleukin-2 secretion || decreased interleukin-2 secretion || abnormal interferon secretion || decreased immunoglobulin level |
49562,57889
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
57889 - Cysteine-rich domain | 0.1275 | INHERITED FROM: abnormal cytokine secretion |
47986,52129
47986 - DEATH domain
52129 - Caspase-like | 0.1889 | INHERITED FROM: abnormal circulating interleukin-18 level || abnormal circulating interleukin level || abnormal interleukin-1 beta secretion || abnormal interleukin level || abnormal interferon-gamma secretion || abnormal interleukin-1 secretion || abnormal interferon secretion |
48065,50729
48065 - DBL homology domain (DH-domain)
50729 - PH domain-like | 0.2275 | INHERITED FROM: decreased interleukin-2 secretion |
54452,48726
54452 - MHC antigen-recognition domain
48726 - Immunoglobulin | 0.279 | INHERITED FROM: abnormal interferon-gamma secretion || abnormal interferon secretion |
47895,52540
47895 - Transducin (alpha subunit), insertion domain
52540 - P-loop containing nucleoside triphosphate hydrolases | 0.322 | INHERITED FROM: increased interleukin-2 secretion |
57440,50494
57440 - Kringle-like
50494 - Trypsin-like serine proteases | 0.4417 | INHERITED FROM: abnormal acute phase protein level |
52058,52058
52058 - L domain-like
52058 - L domain-like | 0.4656 | INHERITED FROM: decreased interleukin-6 secretion |
| Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
55550,55550
55550 - SH2 domain
55550 - SH2 domain | 0 | Direct |
47576,48065
47576 - Calponin-homology domain, CH-domain
48065 - DBL homology domain (DH-domain) | 0 | Direct |
47986,52540
47986 - DEATH domain
52540 - P-loop containing nucleoside triphosphate hydrolases | 0.00005712 | Direct |
57586,57586
57586 - TNF receptor-like
57586 - TNF receptor-like | 0.001445 | Inherited |
57944,56436
57944 - Triple coiled coil domain of C-type lectins
56436 - C-type lectin-like | 0.002078 | Inherited |
55550,158235
55550 - SH2 domain
158235 - SOCS box-like | 0.003819 | Inherited |
49265,49265
49265 - Fibronectin type III
49265 - Fibronectin type III | 0.005603 | Inherited |
49417,81296
49417 - p53-like transcription factors
81296 - E set domains | 0.008333 | Inherited |
52821,52799
52821 - Rhodanese/Cell cycle control phosphatase
52799 - (Phosphotyrosine protein) phosphatases II | 0.01308 | Inherited |
50729,55550
50729 - PH domain-like
55550 - SH2 domain | 0.01495 | Inherited |
48092,47655
48092 - Transcription factor STAT-4 N-domain
47655 - STAT | 0.02552 | Inherited |
49417,55550
49417 - p53-like transcription factors
55550 - SH2 domain | 0.02552 | Inherited |
47655,49417
47655 - STAT
49417 - p53-like transcription factors | 0.02552 | Inherited |
50044,55550
50044 - SH3-domain
55550 - SH2 domain | 0.02662 | Inherited |
55550,56112
55550 - SH2 domain
56112 - Protein kinase-like (PK-like) | 0.05616 | Inherited |
47986,47986
47986 - DEATH domain
47986 - DEATH domain | 0.07519 | Inherited |
55550,50044
55550 - SH2 domain
50044 - SH3-domain | 0.1238 | Inherited |
49562,57889
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
57889 - Cysteine-rich domain | 0.1275 | Inherited |
47986,52129
47986 - DEATH domain
52129 - Caspase-like | 0.1889 | Inherited |
48065,50729
48065 - DBL homology domain (DH-domain)
50729 - PH domain-like | 0.2275 | Inherited |
54452,48726
54452 - MHC antigen-recognition domain
48726 - Immunoglobulin | 0.279 | Inherited |
47895,52540
47895 - Transducin (alpha subunit), insertion domain
52540 - P-loop containing nucleoside triphosphate hydrolases | 0.322 | Inherited |
57440,50494
57440 - Kringle-like
50494 - Trypsin-like serine proteases | 0.4417 | Inherited |
52058,52058
52058 - L domain-like
52058 - L domain-like | 0.4656 | Inherited |
(show details)
Supra-domains annotated to this MP term (SPMP level: Moderately Informative)
Highlighted in gray are those with FDR>0.001
| Supra-domain (Triple) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
50729,50044,55550
50729 - PH domain-like
50044 - SH3-domain
55550 - SH2 domain | 0 | DIRECT |
57586,57586,57586
57586 - TNF receptor-like
57586 - TNF receptor-like
57586 - TNF receptor-like | 0 | DIRECT |
47576,48065,50729
47576 - Calponin-homology domain, CH-domain
48065 - DBL homology domain (DH-domain)
50729 - PH domain-like | 0 | DIRECT |
55550,56112,56112
55550 - SH2 domain
56112 - Protein kinase-like (PK-like)
56112 - Protein kinase-like (PK-like) | 0.002078 | INHERITED FROM: abnormal immunoglobulin level || abnormal IgG level |
50729,55550,56112
50729 - PH domain-like
55550 - SH2 domain
56112 - Protein kinase-like (PK-like) | 0.002078 | INHERITED FROM: abnormal immunoglobulin level || abnormal IgG level |
48092,47655,49417
48092 - Transcription factor STAT-4 N-domain
47655 - STAT
49417 - p53-like transcription factors | 0.02552 | INHERITED FROM: abnormal cytokine level || increased interferon-gamma secretion || abnormal circulating cytokine level || abnormal circulating interleukin level || abnormal interleukin level || abnormal interferon-gamma secretion || abnormal circulating interferon-gamma level || abnormal interleukin secretion || abnormal cytokine secretion |
47655,49417,55550
47655 - STAT
49417 - p53-like transcription factors
55550 - SH2 domain | 0.02552 | INHERITED FROM: abnormal cytokine level || increased interferon-gamma secretion || abnormal circulating cytokine level || abnormal circulating interleukin level || abnormal interleukin level || abnormal interferon-gamma secretion || abnormal circulating interferon-gamma level || abnormal interleukin secretion || abnormal cytokine secretion |
49265,49265,49265
49265 - Fibronectin type III
49265 - Fibronectin type III
49265 - Fibronectin type III | 0.04417 | INHERITED FROM: increased IgG level |
50044,55550,56112
50044 - SH3-domain
55550 - SH2 domain
56112 - Protein kinase-like (PK-like) | 0.04861 | INHERITED FROM: abnormal IgG2a level || abnormal interleukin-5 secretion || abnormal IgG2 level |
57184,57196,57196
57184 - Growth factor receptor domain
57196 - EGF/Laminin
57196 - EGF/Laminin | 0.07519 | INHERITED FROM: abnormal interleukin-4 secretion || decreased interleukin-4 secretion |
57196,57196,57184
57196 - EGF/Laminin
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.07519 | INHERITED FROM: abnormal interleukin-4 secretion || decreased interleukin-4 secretion |
49562,57889,57889
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
57889 - Cysteine-rich domain
57889 - Cysteine-rich domain | 0.1275 | INHERITED FROM: abnormal cytokine secretion |
| Supra-domain (Triple) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
50729,50044,55550
50729 - PH domain-like
50044 - SH3-domain
55550 - SH2 domain | 0 | Direct |
57586,57586,57586
57586 - TNF receptor-like
57586 - TNF receptor-like
57586 - TNF receptor-like | 0 | Direct |
47576,48065,50729
47576 - Calponin-homology domain, CH-domain
48065 - DBL homology domain (DH-domain)
50729 - PH domain-like | 0 | Direct |
55550,56112,56112
55550 - SH2 domain
56112 - Protein kinase-like (PK-like)
56112 - Protein kinase-like (PK-like) | 0.002078 | Inherited |
50729,55550,56112
50729 - PH domain-like
55550 - SH2 domain
56112 - Protein kinase-like (PK-like) | 0.002078 | Inherited |
48092,47655,49417
48092 - Transcription factor STAT-4 N-domain
47655 - STAT
49417 - p53-like transcription factors | 0.02552 | Inherited |
47655,49417,55550
47655 - STAT
49417 - p53-like transcription factors
55550 - SH2 domain | 0.02552 | Inherited |
49265,49265,49265
49265 - Fibronectin type III
49265 - Fibronectin type III
49265 - Fibronectin type III | 0.04417 | Inherited |
50044,55550,56112
50044 - SH3-domain
55550 - SH2 domain
56112 - Protein kinase-like (PK-like) | 0.04861 | Inherited |
57184,57196,57196
57184 - Growth factor receptor domain
57196 - EGF/Laminin
57196 - EGF/Laminin | 0.07519 | Inherited |
57196,57196,57184
57196 - EGF/Laminin
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.07519 | Inherited |
49562,57889,57889
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
57889 - Cysteine-rich domain
57889 - Cysteine-rich domain | 0.1275 | Inherited |
Plot distribution on phylogenetic tree for Supra-domains (Single/Individual) annotated by this phenotype term
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Trees by TreeVector
A presence/absence matrix is generated using protein domains and supradomains
for all genomes in SUPERFAMILY. The RAxML
software is used to produce a single, large tree topology using
heuristic parsimony methods. Genome combinations, or specific clades, can be displayed as
if individual trees had been produced. However, this data is extracted from the single
large tree. This produces a higher quality topology than if the trees had been produced
on their own, and allows the trees to be displayed instantly.
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