CTD Chemicals (CC): Benzodiazepines

show info

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

Jump to [ Top · Hierarchy ]

Superfamily

(show details)

SCOP term	FDR (all)	Annotation (direct or inherited)
Anaphylotoxins (complement system)	0	Direct
Neurotransmitter-gated ion-channel transmembrane pore	0.00000001486	Direct
Nicotinic receptor ligand binding domain-like	0.00000001486	Direct
Caspase-like	0.00000007615	Direct
Serum albumin-like	0.0000007147	Direct
Alpha-macroglobulin receptor domain	0.000002795	Direct
NAD(P)-linked oxidoreductase	0.000007452	Direct
Terpenoid cyclases/Protein prenyltransferases	0.00001664	Direct
TIMP-like	0.00004339	Direct
Cytochrome P450	0.00004649	Direct
Complement control module/SCR domain	0.0003245	Direct
UDP-Glycosyltransferase/glycogen phosphorylase	0.0003245	Direct
Hemopexin-like domain	0.0006957	Direct
LDL receptor-like module	0.006751	Inherited
p53-like transcription factors	0.01144	Inherited
DEATH domain	0.0123	Inherited

LINKTO: Domain2BO Download and Domain2BO Algorithm

Family

Jump to [ Top · Hierarchy ]

Family

(show details)

SCOP term	FDR (all)	Annotation (direct or inherited)
Anaphylotoxins (complement system)	0	Direct
Netrin-like domain (NTR/C345C module)	0.000000012	Direct
Nicotinic receptor ligand binding domain-like	0.00000002768	Direct
Neurotransmitter-gated ion-channel transmembrane pore	0.00000002768	Direct
Caspase catalytic domain	0.00000003682	Direct
Serum albumin-like	0.0000007866	Direct
Complement components	0.000003877	Direct
Alpha-macroglobulin receptor domain	0.000003877	Direct
Aldo-keto reductases (NADP)	0.00000938	Direct
UDPGT-like	0.00002337	Direct
Cytochrome P450	0.00007213	Direct
Complement control module/SCR domain	0.0004641	Direct
Hemopexin-like domain	0.0008322	Direct
LDL receptor-like module	0.00816	Inherited

LINKTO: Domain2BO Download and Domain2BO Algorithm

Supra-domain (Single|Duplex|Triple)

Jump to [ Top · Hierarchy ]

Supra-domain (Single)

(show details)

Supra-domain (Single)	FDR (all)	Annotation (direct or inherited)
Anaphylotoxins (complement system)	0	Direct
Nicotinic receptor ligand binding domain-like	0.000000006291	Direct
Neurotransmitter-gated ion-channel transmembrane pore	0.000000006291	Direct
Caspase-like	0.00000003314	Direct
Serum albumin-like	0.0000003264	Direct
Alpha-macroglobulin receptor domain	0.000001323	Direct
NAD(P)-linked oxidoreductase	0.000003631	Direct
Terpenoid cyclases/Protein prenyltransferases	0.000008325	Direct
TIMP-like	0.00002247	Direct
Cytochrome P450	0.00002413	Direct
UDP-Glycosyltransferase/glycogen phosphorylase	0.0001832	Direct
Complement control module/SCR domain	0.0001832	Direct
Hemopexin-like domain	0.0004079	Direct
Kringle-like	0.0008136	Direct
LDL receptor-like module	0.00445	Inherited
p53-like transcription factors	0.007768	Inherited
DEATH domain	0.00839	Inherited

LINKTO: Supra-domain2BO Download and Supra-domain2BO Algorithm

Jump to [ Top · Hierarchy ]

Supra-domain (Duplex) in N- to C-terminal order

(show details)

Supra-domain (Duplex) in N- to C-terminal order	FDR (all)	Annotation (direct or inherited)
49410,50242 49410 - Alpha-macroglobulin receptor domain 50242 - TIMP-like	0	Direct
63712,90112 63712 - Nicotinic receptor ligand binding domain-like 90112 - Neurotransmitter-gated ion-channel transmembrane pore	0.000000006291	Direct
48552,48552 48552 - Serum albumin-like 48552 - Serum albumin-like	0.0000003264	Direct
47986,52129 47986 - DEATH domain 52129 - Caspase-like	0.000007521	Direct
57440,57440 57440 - Kringle-like 57440 - Kringle-like	0.00001892	Direct
57535,57535 57535 - Complement control module/SCR domain 57535 - Complement control module/SCR domain	0.00003002	Direct

LINKTO: Supra-domain2BO Download and Supra-domain2BO Algorithm

Jump to [ Top · Hierarchy ]

Supra-domain (Triple) in N- to C-terminal order

(show details)

Supra-domain (Triple) in N- to C-terminal order	FDR (all)	Annotation (direct or inherited)
48552,48552,48552 48552 - Serum albumin-like 48552 - Serum albumin-like 48552 - Serum albumin-like	0.00000006715	Direct
57535,57535,57535 57535 - Complement control module/SCR domain 57535 - Complement control module/SCR domain 57535 - Complement control module/SCR domain	0.00005834	Direct