CTD Chemicals (CC): Macrolides

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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).

Root: CC Hierarchy (CTD chemicals from Comparative Toxicogenomics Database)

Superfamily

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Superfamily

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SCOP term	FDR (all)	Annotation (direct or inherited)
p53 tetramerization domain	0	Direct
Caspase-like	0.0000002213	Direct
Inhibitor of apoptosis (IAP) repeat	0.00003537	Direct
DEATH domain	0.00004164	Direct
Nuclear receptor coactivator interlocking domain	0.00008618	Direct
p53-like transcription factors	0.0001981	Direct
Protein kinase-like (PK-like)	0.0002594	Direct
Metallothionein	0.0003666	Direct
GroEL-intermediate domain like	0.004574	Inherited
GroEL equatorial domain-like	0.008002	Inherited
GroEL apical domain-like	0.008002	Inherited
4-helical cytokines	0.008453	Inherited
TNF receptor-like	0.01098	Inherited
Heat shock protein 70kD (HSP70), peptide-binding domain	0.01098	Inherited
Actin-like ATPase domain	0.01265	Inherited
Interleukin 8-like chemokines	0.01618	Inherited
Heat shock protein 70kD (HSP70), C-terminal subdomain	0.02616	Inherited
Bcl-2 inhibitors of programmed cell death	0.04058	Inherited
C2 domain (Calcium/lipid-binding domain, CaLB)	0.048	Inherited
MHC antigen-recognition domain	0.08238	Inherited
Cysteine-rich domain	0.1521	Inherited
Ferredoxin reductase-like, C-terminal NADP-linked domain	0.1586	Inherited
Toll/Interleukin receptor TIR domain	0.1586	Inherited
Riboflavin synthase domain-like	0.1586	Inherited
Leucine zipper domain	0.2713	Inherited
MFS general substrate transporter	0.4149	Inherited
RNA-binding domain, RBD	0.8685	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)
p53 tetramerization domain	0	Direct
p53 DNA-binding domain-like	0	Direct
Retinoblastoma tumor suppressor domains	0	Direct
Caspase catalytic domain	0.00000007268	Direct
Inhibitor of apoptosis (IAP) repeat	0.00004178	Direct
C2 set domains	0.00008734	Direct
Nuclear receptor coactivator interlocking domain	0.00009428	Direct
MIF4G domain-like	0.0001621	Direct
Metallothionein	0.0004446	Direct
Cytochrome P450	0.0004656	Direct
Caspase recruitment domain, CARD	0.0004932	Direct
Protein kinases, catalytic subunit	0.0005266	Direct
Actin/HSP70	0.006018	Inherited
Protein kinase cysteine-rich domain (cys2, phorbol-binding domain)	0.009814	Inherited
TNF receptor-like	0.01136	Inherited
Interleukin 8-like chemokines	0.01887	Inherited
Short-chain cytokines	0.02055	Inherited
Heat shock protein 70kD (HSP70), peptide-binding domain	0.02657	Inherited
Heat shock protein 70kD (HSP70), C-terminal subdomain	0.02657	Inherited
Bcl-2 inhibitors of programmed cell death	0.0425	Inherited
NADPH-cytochrome p450 reductase FAD-binding domain-like	0.05991	Inherited
NADPH-cytochrome p450 reductase-like	0.05991	Inherited
Cytochrome p450 reductase N-terminal domain-like	0.05991	Inherited
C1 set domains (antibody constant domain-like)	0.08382	Inherited
MHC antigen-recognition domain	0.08382	Inherited
Synaptotagmin-like (S variant)	0.09462	Inherited
Toll/Interleukin receptor TIR domain	0.1586	Inherited
Leucine zipper domain	0.2867	Inherited
Canonical RBD	0.7359	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)
p53 tetramerization domain	0	Direct
Caspase-like	0.00000009822	Direct
Inhibitor of apoptosis (IAP) repeat	0.00001818	Direct
DEATH domain	0.00002152	Direct
Nuclear receptor coactivator interlocking domain	0.00004593	Direct
p53-like transcription factors	0.0001095	Direct
Protein kinase-like (PK-like)	0.000145	Direct
Metallothionein	0.0002082	Direct
Cytochrome P450	0.0006076	Direct
Cyclin-like	0.0007236	Direct
GroEL-intermediate domain like	0.002951	Inherited
GroEL equatorial domain-like	0.005328	Inherited
GroEL apical domain-like	0.005328	Inherited
4-helical cytokines	0.005644	Inherited
Heat shock protein 70kD (HSP70), peptide-binding domain	0.007441	Inherited
TNF receptor-like	0.007441	Inherited
Actin-like ATPase domain	0.008643	Inherited
Interleukin 8-like chemokines	0.01122	Inherited
Heat shock protein 70kD (HSP70), C-terminal subdomain	0.01866	Inherited
Bcl-2 inhibitors of programmed cell death	0.02964	Inherited
C2 domain (Calcium/lipid-binding domain, CaLB)	0.03546	Inherited
MHC antigen-recognition domain	0.06268	Inherited
Nuclear receptor ligand-binding domain	0.1164	Inherited
Cysteine-rich domain	0.1198	Inherited
Riboflavin synthase domain-like	0.1253	Inherited
Toll/Interleukin receptor TIR domain	0.1253	Inherited
Ferredoxin reductase-like, C-terminal NADP-linked domain	0.1253	Inherited
Leucine zipper domain	0.2226	Inherited
MFS general substrate transporter	0.3528	Inherited
RNA-binding domain, RBD	0.8033	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)
57889,49562 57889 - Cysteine-rich domain 49562 - C2 domain (Calcium/lipid-binding domain, CaLB)	0	Direct
49417,47719 49417 - p53-like transcription factors 47719 - p53 tetramerization domain	0	Direct
57924,57924 57924 - Inhibitor of apoptosis (IAP) repeat 57924 - Inhibitor of apoptosis (IAP) repeat	0.0000003845	Direct
47986,52129 47986 - DEATH domain 52129 - Caspase-like	0.000001059	Direct
57889,57889 57889 - Cysteine-rich domain 57889 - Cysteine-rich domain	0.00002996	Direct
50729,56112 50729 - PH domain-like 56112 - Protein kinase-like (PK-like)	0.0005288	Direct
55785,55785 55785 - PYP-like sensor domain (PAS domain) 55785 - PYP-like sensor domain (PAS domain)	0.0008964	Direct
48592,54849 48592 - GroEL equatorial domain-like 54849 - GroEL-intermediate domain like	0.002083	Inherited
54849,52029 54849 - GroEL-intermediate domain like 52029 - GroEL apical domain-like	0.002951	Inherited
53067,53067 53067 - Actin-like ATPase domain 53067 - Actin-like ATPase domain	0.003912	Inherited
57586,57586 57586 - TNF receptor-like 57586 - TNF receptor-like	0.007441	Inherited
53067,100920 53067 - Actin-like ATPase domain 100920 - Heat shock protein 70kD (HSP70), peptide-binding domain	0.007441	Inherited
54452,48726 54452 - MHC antigen-recognition domain 48726 - Immunoglobulin	0.06268	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)
57889,57889,49562 57889 - Cysteine-rich domain 57889 - Cysteine-rich domain 49562 - C2 domain (Calcium/lipid-binding domain, CaLB)	0	Direct
57924,57924,57924 57924 - Inhibitor of apoptosis (IAP) repeat 57924 - Inhibitor of apoptosis (IAP) repeat 57924 - Inhibitor of apoptosis (IAP) repeat	0.000009881	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)	0.0005288	Direct
57586,57586,57586 57586 - TNF receptor-like 57586 - TNF receptor-like 57586 - TNF receptor-like	0.0005288	Direct
48592,54849,52029 48592 - GroEL equatorial domain-like 54849 - GroEL-intermediate domain like 52029 - GroEL apical domain-like	0.002083	Inherited
53067,53067,100920 53067 - Actin-like ATPase domain 53067 - Actin-like ATPase domain 100920 - Heat shock protein 70kD (HSP70), peptide-binding domain	0.007441	Inherited