Terminologies: MolecularEntity library

@id: https://openminds.ebrains.eu/instances/molecularEntity/6,7-dinitro-1,4-dihydroquinoxaline-2,3-dione
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: DNQX (6,7-dinitroquinoxaline-2,3-dione) is a competitive antagonist at AMPA and kainate receptors, two ionotropic glutamate receptor (iGluR) subfamilies. [adapted from Wikipedia (https://en.wikipedia.org/wiki/DNQX)]
description: DNQX (6,7-dinitroquinoxaline-2,3-dione) is used in a variety of molecular biology subfields, notably neurophysiology, to assist researchers in determining the properties of various types of ion channels and their potential applications in medicine. [adapted from Wikipedia (https://en.wikipedia.org/wiki/DNQX)]
interlexIdentifier: http://uri.interlex.org/base/ilx_0103368
name: 6,7-dinitro-1,4-dihydroquinoxaline-2,3-dione
preferredOntologyIdentifier: https://pubchem.ncbi.nlm.nih.gov/compound/3899541

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A1Receptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/A1Receptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The adenosine A1 receptor is a subtype of the adenosine receptor group that bind adenosine as endogenous ligand.
interlexIdentifier: http://uri.interlex.org/ilx_0100146
name: A1 receptor
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nifext_5717

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A2AReceptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/A2AReceptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The adenosine A2A receptor is a subtype of the adenosine receptor group that bind adenosine as endogenous ligand.
interlexIdentifier: http://uri.interlex.org/ilx_0100148
knowledgeSpaceLink: https://knowledge-space.org/wiki/NIFEXT:7728#a2a-receptor
name: A2A receptor
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nifext_7727

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AMPAReceptor

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@id: https://openminds.ebrains.eu/instances/molecularEntity/AMPAReceptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The AMPA receptors belong to the class of ionotropic glutamate receptors and mediate fast synaptic transmission in the central nervous system (CNS).
interlexIdentifier: http://uri.interlex.org/ilx_0100559
knowledgeSpaceLink: https://knowledge-space.org/wiki/NIFEXT:5251#ampa-type-glutamate-gated-cationic-channel
name: AMPA receptor
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nifext_5251

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AlexaFluor594

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/AlexaFluor594
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Alexa Fluor 594' is a fluorochrome/fluorescent dye used to stain biological specimens.
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:51248#alexa-fluor-594
name: Alexa Fluor 594
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_51248

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Beta-Amyloid40

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/Beta-Amyloid40
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Amyloid beta peptide with carboxyterminal variant ending at residual Val40.
interlexIdentifier: http://uri.interlex.org/ilx_0101246
knowledgeSpaceLink: https://knowledge-space.org/wiki/NLXMOL:20090708#beta-amyloid-40
name: Beta-Amyloid 40
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nlx_13181

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D1Receptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/D1Receptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The D1 receptor is a subtype of the dopamine receptor group that primarily binds the neurotransmitter dopamine as endogenous ligand. The D1 receptor is the most abundant kind of dopamine receptor in the central nervous system.
interlexIdentifier: http://uri.interlex.org/ilx_0102774
knowledgeSpaceLink: https://knowledge-space.org/wiki/NIFEXT:5845#d1-receptor-1
name: D1 receptor
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nifext_5845

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D2Receptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/D2Receptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The D2 receptor is a subtype of the dopamine receptor group that primarily binds the neurotransmitter dopamine as endogenous ligand.
interlexIdentifier: http://uri.interlex.org/ilx_0102775
knowledgeSpaceLink: https://knowledge-space.org/wiki/NIFEXT:5833#d2-receptor-3
name: D2 receptor
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nifext_5833

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DAB

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/DAB
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: DAB is a chemically and thermodynamically stable derivative of benzidine.
interlexIdentifier: http://uri.interlex.org/ilx_0482636
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:90994#3-3-diaminobenzidine
name: DAB
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_90994

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Fluoro-Emerald

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/Fluoro-Emerald
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Fluoro-Emerald is a fluorescent dextran derivative (dextran, fluorescein, 10,000 MW) used for tracing studies in the nervous system.
name: Fluoro-Emerald

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Fluoro-Gold

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/Fluoro-Gold
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Fluoro-Gold is a fluorescent dye that is used as a retrograde tracer in tract tracing studies.
interlexIdentifier: http://uri.interlex.org/ilx_0104323
knowledgeSpaceLink: https://knowledge-space.org/wiki/NLXMOL:1012018#fluorogold
name: Fluoro-Gold
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nlx_30125

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Fluoro-Ruby

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/Fluoro-Ruby
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Fluoro-Ruby is a fluorescent dextran derivative (dextran, tetramethylrhodamine, 10,000 MW) used for retrograde tracing studies in the nervous system.
interlexIdentifier: http://uri.interlex.org/ilx_0104322
knowledgeSpaceLink: https://knowledge-space.org/wiki/NLX:65982#fluoro-ruby
name: Fluoro-Ruby
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nlx_65982

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GABA-AReceptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/GABA-AReceptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The GABA-A receptor is an ionotropic subtype of the GABA receptor class that respond to the neurotransmitter gamma-aminobutyric acid (GABA) as endogenous ligand.
knowledgeSpaceLink: https://knowledge-space.org/wiki/GO:1902711#gaba-a-receptor-complex
name: GABA-A receptor

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GABA-A_BZ

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/GABA-A/BZ
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The GABA-A/BZ is a distinct binding site for benzodiazepines that is situated at the interface between the α- and γ-subunits of α- and γ-subunit containing GABA-A receptors.
name: GABA-A/BZ

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GABA-BReceptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/GABA-BReceptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The GABA-B receptor is a metabotropic subtype of the GABA receptor class that respond to the neurotransmitter gamma-aminobutyric acid (GABA) as endogenous ligand.
interlexIdentifier: http://uri.interlex.org/ilx_0104503
name: GABA-B receptor
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nlx_mol_090801

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GABAReceptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/GABAReceptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The GABA receptors are a group of receptors that respond to the neurotransmitter gamma-aminobutyric acid (GABA) as endogenous ligand.
interlexIdentifier: http://uri.interlex.org/ilx_0104502
knowledgeSpaceLink: https://knowledge-space.org/wiki/GO:1902710#gaba-receptor-complex
name: GABA receptor
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nlx_mol_1006001

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JNKMapKinaseScaffoldProtein2

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/JNKMapKinaseScaffoldProtein2
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The JNK MAP kinase scaffold protein 2 is a protein that is a translation product of the human MAPK8IP2 gene or a 1:1 ortholog thereof.
knowledgeSpaceLink: https://knowledge-space.org/wiki/PR:000010161#c-jun-amino-terminal-kinase-interacting-protein-2
name: JNK MAP kinase scaffold protein 2
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_000010161

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M1Receptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/M1Receptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The M1 receptor belongs to the family of muscarinic receptors which are activated by acetylcholine as endegenous ligand. It mediates slow excitatory postsynaptic potential in the postganglionic nerve and is also expressed in exocrine glands and in the central nervous system.
interlexIdentifier: http://uri.interlex.org/ilx_0106429
knowledgeSpaceLink: https://knowledge-space.org/wiki/NIFEXT:7352#m1-receptor-1
name: M1 receptor
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_000001613

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M2Receptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/M2Receptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The M2 receptor belongs to the family of muscarinic receptors which are activated by acetylcholine as endegenous ligand. It is expressed in cardiac tissues and acts to slow the heart rate to normal after sympathetic nervous system stimulation.
interlexIdentifier: http://uri.interlex.org/ilx_0106430
knowledgeSpaceLink: https://knowledge-space.org/wiki/NIFEXT:7953#m2-receptor-2
name: M2 receptor
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_000001614

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M3Receptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/M3Receptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The M3 receptor belongs to the family of muscarinic receptors which are activated by acetylcholine as endegenous ligand. It is expressed in many glands, in lungs, and in the smooth muscles of blood vessels.
interlexIdentifier: http://uri.interlex.org/ilx_0106431
knowledgeSpaceLink: https://knowledge-space.org/wiki/NIFEXT:6135#m3-receptor
name: M3 receptor
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nifext_6131

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MagnesiumATP

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/magnesiumATP
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: An ATP binded to magnesium ion (Mg2+) to compose biologically functional form, and most of intracellular ATP and Mg2+ assumed to form Mg-ATP complexes. [adapted from Yamanaka et al. Mitochondrial Mg(2+) homeostasis decides cellular energy metabolism and vulnerability to stress. Sci Rep. 2016 Jul 26;6:30027. doi: 10.1038/srep30027]
name: magnesium ATP
preferredOntologyIdentifier: https://pubchem.ncbi.nlm.nih.gov/compound/15126

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NMDAReceptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/NMDAReceptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The NMDA receptors belong to the class of ionotropic glutamate receptors which can be activated with glutamate and glycine with a voltage-dependent current flow. The blockage of the activated channel through extracellular magnesium (Mg2+) and zinc (Zn2+) ions can only be removed when the neuron is sufficiently depolarized.
interlexIdentifier: http://uri.interlex.org/ilx_0107622
knowledgeSpaceLink: https://knowledge-space.org/wiki/NIFEXT:5250#nmda-type-glutamate-gated-cationic-channel
name: NMDA receptor
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nifext_5250

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acetylcholine

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/acetylcholine
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Acetylcholine in vertebrates is the major neurotransmitter at neuromuscular junctions, autonomic ganglia, parasympathetic effector junctions, a subset of sympathetic effector junctions, and at many sites in the central nervous system.
interlexIdentifier: http://uri.interlex.org/ilx_0100240
name: acetylcholine
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/sao185580330

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alpha-1Receptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/alpha-1Receptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The alpha-1 receptor is a subclass of the adrenoceptor group that bind epinephrine or norepinephrine as endogenous ligands.
name: alpha-1 receptor

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alpha-2Receptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/alpha-2Receptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The alpha-2 receptor is a subclass of the adrenoceptor group that bind epinephrine or norepinephrine as endogenous ligands.
name: alpha-2 receptor

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alpha-4Beta-2Receptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/alpha-4Beta-2Receptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The alpha-4 beta-2 receptor belongs to the family of nicotinic acetylcholine receptors that respond to the neurotransmitter acetylcholine as endogenous ligand. This subtype is located in the brain, where activation yields post- and presynaptic excitation.
interlexIdentifier: http://uri.interlex.org/ilx_0597802
name: alpha-4 beta-2 receptor
preferredOntologyIdentifier: http://id.nlm.nih.gov/mesh/2018/M0356600

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anterogradeTracer

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/anterogradeTracer
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: An anterograde tracer is a molecule that is taken up by neurons (e.g., by viral transfection mechanisms, by other cell internalization mechanisms or passive diffusion) and transported towards the axon terminals. It is used for anterograde tract tracing studies in the nervous system.
knowledgeSpaceLink: https://knowledge-space.org/wiki/NLXMOL:1012002#anterograde-tracer
name: anterograde tracer
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/NLXMOL_1012002

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biomarker

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/biomarker
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: A substance used as an indicator of a biological state, most commonly disease.
interlexIdentifier: http://uri.interlex.org/ilx_0101294
name: biomarker
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nlx_mol_20090517

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biotinylatedDextranAmine

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/biotinylatedDextranAmine
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: A 'biotinylated dextran amine' is an organic compound which is used as an anterograde and retrograde neuroanatomical tracer.
interlexIdentifier: http://uri.interlex.org/ilx_0450726
name: biotinylated dextran amine
preferredOntologyIdentifier: http://id.nlm.nih.gov/mesh/2018/M0205506

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brainDerivedNeurotrophicFactor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/brainDerivedNeurotrophicFactor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The 'brain-derived neurotrophic factor' is a protein that, in humans, is encoded by the BDNF gene. [adapted from [wikipedia](https://en.wikipedia.org/wiki/Brain-derived_neurotrophic_factor)]
interlexIdentifier: http://uri.interlex.org/base/ilx_0101140
knowledgeSpaceLink: https://knowledge-space.org/wiki/NLXMOL:20090401#bdnf
name: brain-derived neurotrophic factor

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c-FOS

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/c-FOS
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: c-FOS is a proto-oncogene that is the human homolog of the retroviral oncogene v-fos.
knowledgeSpaceLink: https://knowledge-space.org/wiki/PR:000007597#proto-oncogene-c-fos
name: c-FOS
preferredOntologyIdentifier: https://ncimeta.nci.nih.gov/ncimbrowser/ConceptReport.jsp?dictionary=NCI%20Metathesaurus&code=C0314702

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calbindin

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/calbindin
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Calbindin is a calcium-binding protein.
interlexIdentifier: http://uri.interlex.org/ilx_0101551
knowledgeSpaceLink: https://knowledge-space.org/wiki/NLXMOL:1006006#calbindin-28k
name: calbindin
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nlx_mol_1006006

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calciumCalmodulinProteinKinaseII

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/calciumCalmodulinProteinKinaseII
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The 'calcium calmodulin protein kinase II' is a protein with a core domain architecture consisting of a Protein kinase domain and a C-terminal Calcium/calmodulin dependent protein kinase II Association domain.
interlexIdentifier: http://uri.interlex.org/ilx_0101561
knowledgeSpaceLink: https://knowledge-space.org/wiki/PR:000003197#calcium-calmodulin-dependent-protein-kinase-ii-chain
name: calcium calmodulin protein kinase II
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_000003197

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calciumCalmodulinProteinKinaseIIAlphaChain

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/calciumCalmodulinProteinKinaseIIAlphaChain
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The 'calcium calmodulin protein kinase II alpha chain' is a calcium/calmodulin-dependent protein kinase type II chain that is a translation product of the human CAMK2A gene or a 1:1 ortholog thereof.
knowledgeSpaceLink: https://knowledge-space.org/wiki/PR:000003199#calcium-calmodulin-dependent-protein-kinase-type-ii-alpha-chain
name: calcium calmodulin protein kinase II alpha chain
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_000003199

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calciumChloride

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/calciumChloride
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Calcium chloride is an inorganic compound, a salt with the chemical formula CaCl2. [adapted from wikipedia (https://en.wikipedia.org/wiki/Calcium_chloride)]
description: CaCl2 is a white crystalline solid at room temperature, and it is highly soluble in water. It can be created by neutralising hydrochloric acid with calcium hydroxide. Calcium chloride is commonly encountered as a hydrated solid with generic formula CaCl2·nH2O, where n = 0, 1, 2, 4, and 6. These compounds are mainly used for de-icing and dust control. Because the anhydrous salt is hygroscopic and deliquescent, it is used as a desiccant. [adapted from Wikipedia (https://en.wikipedia.org/wiki/Calcium_chloride)]
interlexIdentifier: http://uri.interlex.org/base/ilx_0101566
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:3312#calcium-dichloride
name: calcium chloride
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_3312

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calretinin

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/calretinin
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Calretinin is an intracellular calcium-binding protein belonging to the troponin C superfamily. Members of this protein family have six EF-hand domains which bind calcium.
interlexIdentifier: http://uri.interlex.org/ilx_0101602
knowledgeSpaceLink: https://knowledge-space.org/wiki/NIFEXT:5#calretinin
name: calretinin
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nifext_5717

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carbonDioxide

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/carbonDioxide
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: A one-carbon compound with formula CO2 in which the carbon is attached to each oxygen atom by a double bond. A colourless, odourless gas under normal conditions, it is produced during respiration by all animals, fungi and microorganisms that depend directly or indirectly on living or decaying plants for food. [adapted from ChEBI (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:16526)]
description: Carbon dioxide is a chemical compound with the chemical formula CO2. It is made up of molecules that each have one carbon atom covalently double bonded to two oxygen atoms. It is found in the gas state at room temperature, and as the source of available carbon in the carbon cycle, atmospheric CO2 is the primary carbon source for life on Earth. In the air, carbon dioxide is transparent to visible light but absorbs infrared radiation, acting as a greenhouse gas. Carbon dioxide is soluble in water and is found in groundwater, lakes, ice caps, and seawater. [adapted from ChEBI (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:16526)]
interlexIdentifier: http://uri.interlex.org/base/ilx_0780969
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:16526#carbon-dioxide
name: carbon dioxide
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_16526

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cholecystokinin

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/cholecystokinin
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Cholecystokinin is a peptide hormone of the gastrointestinal system responsible for stimulating the digestion of fat and protein.
interlexIdentifier: http://uri.interlex.org/ilx_0102124
name: cholecystokinin
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nifext_5068

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choline

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/choline
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Choline is a cation with the chemical formula [(CH3)3NCH2CH2OH]+. Choline forms various salts, for example choline chloride and choline bitartrate. [adapted from Wikipedia (https://en.wikipedia.org/wiki/Choline)]
interlexIdentifier: http://uri.interlex.org/base/ilx_0102128
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:15354#choline
name: choline
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_15354

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cholineAcetyltransferase

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/cholineAcetyltransferase
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Choline acetyltransferase is a synthetic enzyme that catalyzes the formation of acetylcholine from acetyl-CoA and choline
interlexIdentifier: http://uri.interlex.org/base/ilx_0102129
name: choline acetyltransferase
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/sao722953401

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cyclicAdenosineMonophosphate

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/cyclicAdenosineMonophosphate
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Cyclic adenosine monophosphate is a second messenger important in many biological processes.
interlexIdentifier: http://uri.interlex.org/ilx_0100318
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:17489#3-5-cyclic-amp
name: cyclic adenosine monophosphate
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_17489

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diboronTrioxide

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/diboronTrioxide
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Diboron trioxide or boron trioxide is the oxide of boron with the formula B2O3. [adapted from wikipedia (https://en.wikipedia.org/wiki/Boron_trioxide)]
description: Diboron trioxide is a colorless transparent solid, almost always glassy (amorphous), which can be crystallized only with great difficulty. It is also called boric oxide or boria. It has many important industrial applications, chiefly in ceramics as a flux for glazes and enamels and in the production of glasses. [adapted from Wikipedia (https://en.wikipedia.org/wiki/Boron_trioxide)]
name: diboron trioxide
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_30163

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dimethylSulfoxide

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/dimethylSulfoxide
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Dimethyl sulfoxide (DMSO) is an organosulfur compound with the formula (CH3)2SO. [adapted from wikipedia (https://en.wikipedia.org/wiki/Dimethyl_sulfoxide)]
description: A highly polar organic liquid, that is used widely as a chemical solvent. Because of its ability to penetrate biological membranes, it is used as a vehicle for topical application of pharmaceuticals. It is also used to protect tissue during cryopreservation. Dimethyl sulfoxide shows a range of pharmacological activity including analgesia and anti-inflammation. (PubChem) Pharmacology: Dimethyl Sulfoxide may have anti-inflammatory, antioxidant and analgesic activities. Dimethyl Sulfoxide also readily penetrates cellular membranes. The membrane-penetrating ability of dimethyl sulfoxide may enhance diffusion of other substances through the skin. For this reason, mixtures of idoxuridine and dimethyl sulfoxide have been used for topical treatment of herpes zoster in the United Kingdom. Mechanism of action: The mechanism of dimethyl sulfoxide's actions is not well understood. Dimethyl sulfoxide has demonstrated antioxidant activity in certain biological settings. For example, the cardiovascular protective effect of dimethyl sulfoxide in copper-deficient rats is thought to occur by an antioxidant mechanism. It is also thought that dimethyl sulfoxide's possible anti-inflammatory activity is due to antioxidant action. [adapted from wikipedia (https://en.wikipedia.org/wiki/Dimethyl_sulfoxide)]
interlexIdentifier: http://uri.interlex.org/base/ilx_0103278
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:28262#dimethyl-sulfoxide
name: dimethyl sulfoxide
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_28262

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dinitrogen

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/dinitrogen
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: An elemental molecule consisting of two trivalently-bonded nitrogen atoms. [adapted from ChEBI (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:17997)]
description: At standard temperature and pressure, two atoms of the element nitrogen bond to form N2, a colorless and odorless diatomic gas. N2 forms about 78% of Earth's atmosphere, making it the most abundant uncombined element in air. Because of the volatility of nitrogen compounds, nitrogen is relatively rare in the solid parts of the Earth. [adapted from Wikipedia (https://en.wikipedia.org/wiki/Nitrogen)]
name: dinitrogen
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_17997

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dioxygen

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/dioxygen
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The common allotrope of elemental oxygen on Earth, O2, is generally known as oxygen. [adapted from Wikipedia (https://en.wikipedia.org/wiki/Allotropes_of_oxygen)]
interlexIdentifier: http://uri.interlex.org/base/ilx_0398707
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:15379#dioxygen
name: dioxygen
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_15379

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dopamine

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/dopamine
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Dopamine is one of the catecholamine neurotransmitters in the brain. It is derived from tyrosine and is the precursor to norepinephrine and epinephrine.
interlexIdentifier: http://uri.interlex.org/base/ilx_0103384
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:18243#dopamine
name: dopamine
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_18243

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dopamineTransporter

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/dopamineTransporter
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: A 'dopamine transporter' is a membrane-spanning protein that pumps the neurotransmitter dopamine out of the synaptic cleft back into cytosol.
interlexIdentifier: http://uri.interlex.org/base/ilx_0103388
knowledgeSpaceLink: https://knowledge-space.org/wiki/NLXMOL:20090512#dopamine-transporter
name: dopamine transporter
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_000015188

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dynorphin

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/dynorphin
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Dynorphin belongs to a class of opioid peptides that arise from the precursor protein prodynorphin. Dynorphins bind to the kappa opioid receptor.
interlexIdentifier: http://uri.interlex.org/ilx_0103624
name: dynorphin
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nifext_5097

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edeticAcid

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/edeticAcid
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Edetic Acid (Ethylenediaminetetraacetic acid, EDTA), also called edetic acid after its own abbreviation, is an aminopolycarboxylic acid with the formula [CH2N(CH2CO2H)2]2. [adapted from Wikipedia (https://en.wikipedia.org/wiki/Ethylenediaminetetraacetic_acid)]
description: This white, water-soluble solid is widely used to bind to iron (Fe2+/Fe3+) and calcium ions (Ca2+), forming water-soluble complexes even at neutral pH. It is thus used to dissolve Fe- and Ca-containing scale as well as to deliver iron ions under conditions where its oxides are insoluble. EDTA is available as several salts, notably disodium EDTA, sodium calcium edetate, and tetrasodium EDTA, but these all function similarly. [adapted from Wikipedia (https://en.wikipedia.org/wiki/Ethylenediaminetetraacetic_acid)]
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:4735#ethylene-glycol-bis-2-aminoethyl-tetraacetic-acid
name: edetic acid
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_4735

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egtazicAcid

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/EgtazicAcid
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: EGTA (ethylene glycol-bis(β-aminoethyl ether)-N,N,N',N'-tetraacetic acid), also known as egtazic acid (INN, USAN), is an aminopolycarboxylic acid, a chelating agent. [adapted from Wikipedia (https://en.wikipedia.org/wiki/EGTA_(chemical))]
description: EGTA is a white solid that is related to the better known EDTA. Compared to EDTA, it has a lower affinity for magnesium, making it more selective for calcium ions. It is useful in buffer solutions that resemble the environment in living cells where calcium ions are usually at least a thousandfold less concentrated than magnesium. [adapted from Wikipedia (https://en.wikipedia.org/wiki/EGTA_(chemical))]
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:30740#ethylene-glycol-bis-2-aminoethyl-tetraacetic-acid
name: egtazic acid
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_30740

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enkephalin

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/enkephalin
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Enkephalin is a pentapeptide involved in regulating nociception in the body.
interlexIdentifier: http://uri.interlex.org/base/ilx_0103826
name: enkephalin
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nifext_5096

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epibatidine

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/epibatidine
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Epibatidine is a chlorinated alkaloid that binds to nicotinic and muscarinic acetylcholine receptors with high affinity.
interlexIdentifier: http://uri.interlex.org/ilx_0103884
name: epibatidine
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nlx_chem_20090204

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ethanol

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/ethanol
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Ethanol (also called ethyl alcohol, grain alcohol, drinking alcohol, or simply alcohol) is an organic compound with the chemical formula CH3CH2OH. [adapted from Wikipedia (https://en.wikipedia.org/wiki/Ethanol)]
description: Ethanol is an alcohol, with its formula also written as C2H5OH, C2H6O or EtOH, where Et stands for ethyl. Ethanol is a volatile, flammable, colorless liquid with a characteristic wine-like odor and pungent taste. It is a psychoactive recreational drug, and the active ingredient in alcoholic drinks. [adapted from Wikipedia (https://en.wikipedia.org/wiki/Ethanol)]
interlexIdentifier: http://uri.interlex.org/base/ilx_0103948
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:16236#ethanol
name: ethanol
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_16236

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excitatoryAminoAcidTransporter

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/excitatoryAminoAcidTransporter
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The excitatory amino acid transporters are a subclass of glutamate transporters that remove glutamate from the synaptic cleft and extrasynaptic sites via glutamate reuptake into glial cells and neurons.
name: excitatory amino acid transporter

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excitatoryAminoAcidTransporter1

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/excitatoryAminoAcidTransporter1
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The excitatory amino acid transporter 1 belongs to the EAAT family. It is predominantly expressed in the plasma membrane removing glutamate from the extracellular space, but was also localized in the inner mitochondrial membrane as part of the malate-aspartate shuttle.
interlexIdentifier: http://uri.interlex.org/base/ilx_0103639
knowledgeSpaceLink: https://knowledge-space.org/wiki/PR:000014974#excitatory-amino-acid-transporter-1
name: excitatory amino acid transporter 1
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_0000149744

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excitatoryAminoAcidTransporter2

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/excitatoryAminoAcidTransporter2
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The excitatory amino acid transporter 2 belongs to the EAAT family. It clears the excitatory neurotransmitter glutamate from the extracellular space at synapses in the central nervous system and is responsible for over 90% of glutamate reuptake within the brain.
interlexIdentifier: http://uri.interlex.org/base/ilx_0103640
knowledgeSpaceLink: https://knowledge-space.org/wiki/PR:000014973#excitatory-amino-acid-transporter-2
name: excitatory amino acid transporter 2
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_000014973

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excitatoryAminoAcidTransporter3

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/excitatoryAminoAcidTransporter3
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The excitatory amino acid transporter 3 belongs to the EAAT family transporting glutamate across plasma membranes in neurons. It can also transport aspartate and plays a role in the neuronal cysteine uptake.
interlexIdentifier: http://uri.interlex.org/base/ilx_0103641
knowledgeSpaceLink: https://knowledge-space.org/wiki/PR:000014972#excitatory-amino-acid-transporter-3
name: excitatory amino acid transporter 3
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_000014972

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excitatoryAminoAcidTransporter4

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/excitatoryAminoAcidTransporter4
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The excitatory amino acid transporter 4 belongs to the EAAT family. It is expressed predominantly in the cerebellum, has high affinity for the excitatory amino acids L-aspartate and L-glutamate.
interlexIdentifier: http://uri.interlex.org/base/ilx_0103642
knowledgeSpaceLink: https://knowledge-space.org/wiki/PR:000014977#excitatory-amino-acid-transporter-4
name: excitatory amino acid transporter 4
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_000014977

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excitatoryAminoAcidTransporter5

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/excitatoryAminoAcidTransporter5
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The excitatory amino acid transporter 5 belongs to the EAAT family. It is expressed predominantly in the retina, has high affinity for the excitatory amino acid L-glutamate.
knowledgeSpaceLink: https://knowledge-space.org/wiki/PR:000014978#excitatory-amino-acid-transporter-5
name: excitatory amino acid transporter 5
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_000014978

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flumazenil

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/flumazenil
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Flumazenil is a selective GABAA receptor antagonist that binds to the benzodiazepine recognition site on the GABAA/benzodiazepine receptor complex.
interlexIdentifier: http://uri.interlex.org/base/ilx_0104307
name: flumazenil
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_5103

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fluorescentMicrospheres

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/fluorescentMicrospheres
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Fluorescent microspheres are non-toxic, non-biologically reactive small polymers embedded with fluorescent dye which are used in medical imaging, as markers for fluorescent microscopy and as standards for flow cytometry fluorescent cell sorting.
name: fluorescent microspheres

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formaldehyde

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/formaldehyde
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Formaldehyde is an organic compound with the formula CH2O and structure H-CHO. [adapted from Wikipedia (https://en.wikipedia.org/wiki/Formaldehyde)]
description: Formaldehyde is a pungent, colourless gas that polymerises spontaneously into paraformaldehyde . It is stored as aqueous solutions (formalin), which consists mainly of the hydrate CH2(OH)2. It is the simplest of the aldehydes (R-CHO). It is produced commercially as a precursor to many other materials and chemical compounds. In 2006, the global production rate of formaldehyde was estimated at 12 million tons per year. It is mainly used in the production of industrial resins, e.g., for particle board and coatings. Small amounts also occur naturally. [adapted from Wikipedia (https://en.wikipedia.org/wiki/Formaldehyde)]
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:16842#formaldehyde
name: formaldehyde
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_16842

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gabazine

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/gabazine
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Gabazine is a competitive and selective GABAA antagonist.
interlexIdentifier: http://uri.interlex.org/base/ilx_0572043
name: gabazine
preferredOntologyIdentifier: http://id.nlm.nih.gov/mesh/2018/M0142643

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galanin

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/galanin
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Galanin is a biologically active neuropeptide, encoded by the GAL gene, that is widely distributed in the central and peripheral nervous systems and the endocrine system.
interlexIdentifier: http://uri.interlex.org/base/ilx_0104529
knowledgeSpaceLink: https://knowledge-space.org/wiki/NIFEXT:5074#galanin
name: galanin
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nifext_5074

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gluconicAcid

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/gluconicAcid
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Gluconic acid is an organic compound with molecular formula C6H12O7 and condensed structural formula HOCH2(CHOH)4CO2H. [adapted from wikipedia (https://en.wikipedia.org/wiki/Gluconic_acid)]
description: A white solid, it is forms the gluconate anion in neutral aqueous solution. The salts of gluconic acid are known as 'gluconates'. Gluconic acid, gluconate salts, and gluconate esters occur widely in nature because such species arise from the oxidation of glucose. Some drugs are injected in the form of gluconates. [adapted from Wikipedia (https://en.wikipedia.org/wiki/Gluconic_acid)]
interlexIdentifier: http://uri.interlex.org/base/ilx_0402003
name: gluconic acid
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_33198

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glucose

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/glucose
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Glucose is a sugar with the molecular formula C6H12O6. Glucose is overall the most abundant monosaccharide, a subcategory of carbohydrates. [adapted from Wikipedia (https://en.wikipedia.org/wiki/Glucose)]
interlexIdentifier: http://uri.interlex.org/base/ilx_0104670
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:17234#glucose
name: glucose
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_17234

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glutamate

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/glutamate
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Glutamate is the carboxylate anion of glutamic acid; and the major excitatory neurotransmitter in the central nervous system of vertebrates, the peripheral nervous system of invertebrates.
interlexIdentifier: http://uri.interlex.org/base/ilx_0104676
knowledgeSpaceLink: https://knowledge-space.org/wiki/SAO:1744435799#glutamate
name: glutamate
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/sao1744435799

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glutamateTransporter

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/glutamateTransporter
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The glutamate transporters are a class of transporter proteins that can move the neurotransmitter glutamate across membranes.
interlexIdentifier: http://uri.interlex.org/ilx_0104678
knowledgeSpaceLink: https://knowledge-space.org/wiki/SAO:1399894198#glutamate-transporter
name: glutamate transporter
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/sao1399894198

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glycerol

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/glycerol
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Glycerol is a triol with a structure of propane substituted at positions 1, 2 and 3 by hydroxy groups. [adapted from ChEBI (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:17754)]
description: Glycerol, also called glycerine or glycerin, is a simple triol compound. It is a colorless, odorless, viscous liquid that is sweet-tasting and non-toxic. The glycerol backbone is found in lipids known as glycerides. Because it has antimicrobial and antiviral properties, it is widely used in wound and burn treatments approved by the U.S. Food and Drug Administration. Conversely, it is also used as a bacterial culture medium. Its presence in blood can be used as an effective marker to measure liver disease. It is also widely used as a sweetener in the food industry and as a humectant in pharmaceutical formulations. Because of its three hydroxyl groups, glycerol is miscible with water and is hygroscopic in nature. [adapted from wikipedia (https://en.wikipedia.org/wiki/Glycerol)]
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:17754#glycerol
name: glycerol
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_17754

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glycineTransporter2

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/glycineTransporter2
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The glycine transporter 2 is a member of the Na+ and Cl−-coupled transporter family SLC6 that recaptures the inhibitory transmitter glycine in the spinal cord and brainstem.
knowledgeSpaceLink: https://knowledge-space.org/wiki/PR:000015190#sodium-and-chloride-dependent-glycine-transporter-2
name: glycine transporter 2
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_000015190

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growthFactor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/growthFactor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The 'growth factor' comprises signal molecules that are involved in the control of cell growth and differentiation.
interlexIdentifier: http://uri.interlex.org/ilx_0104801
name: growth factor
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/sao1671627152

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halothane

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/Halothane
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Halothane is a haloalkane comprising ethane having three fluoro substituents at the 1-position as well as bromo- and chloro substituents at the 2-position. It has a role as an inhalation anaesthetic. It is a haloalkane, an organofluorine compound, an organochlorine compound and an organobromine compound.[adapted from ChEBI (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:5615)]
name: halothane
preferredOntologyIdentifier: https://pubchem.ncbi.nlm.nih.gov/compound/3562

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histamine

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/histamine
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Histamine is produced by basophils and mast cells (in connective tissues). It is involved in local immune responses and regulating physiological function in the gut and acts as a neurotransmitter (adapted from Wikipedia).
interlexIdentifier: http://uri.interlex.org/base/ilx_0105065
knowledgeSpaceLink: https://knowledge-space.org/wiki/NIFEXT:5016#histamine
name: histamine
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nifext_5016

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insulinLikeGrowthFactor1

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/insulinLikeGrowthFactor1
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The term 'insulin-like growth factor' names a set of proteins with high sequence similarity to insulin that are part of a complex system that cells use to communicate with their physiologic environment. [adapted from [wikipedia](https://en.wikipedia.org/wiki/Insulin-like_growth_factor)]
interlexIdentifier: http://uri.interlex.org/base/ilx_0105523
knowledgeSpaceLink: https://knowledge-space.org/wiki/PR:000009182#insulin-like-growth-factor-i
name: insulin-like growth factor 1

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intrabody

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/intrabody
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: An 'intrabody' is an antibody that works within the cell to bind an intracellular protein.
name: intrabody

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ionotropicGlutamateReceptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/ionotropicGlutamateReceptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Ionotropic glutamate receptors are a class of ligand-gated ion channels that are activated by the neurotransmitter glutamate as endogenous ligand.
interlexIdentifier: http://uri.interlex.org/ilx_0105706
knowledgeSpaceLink: https://knowledge-space.org/wiki/NLXMOL:20090501#ionotropic-glutamate-receptor
name: ionotropic glutamate receptor
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nlx_mol_20090501

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iperoxo

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/iperoxo
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Iperoxo is an organic chemical molecule that is used as a muscarinic M2 receptor agonist.
interlexIdentifier: http://uri.interlex.org/ilx_0630403
name: iperoxo
preferredOntologyIdentifier: http://id.nlm.nih.gov/mesh/2018/M000598130

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iron

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/iron
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Iron is a chemical element; it has symbol Fe (from Latin ferrum 'iron') and atomic number 26. [adapted from wikipedia (https://en.wikipedia.org/wiki/Iron)]
interlexIdentifier: http://uri.interlex.org/base/ilx_0105721
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:24873#iron-molecular-entity
name: iron
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_24873

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isoflurane

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/isoflurane
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Isoflurane is a stable, non-explosive inhalation anesthetic, relatively free from significant side effects.
interlexIdentifier: http://uri.interlex.org/ilx_0105740
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:6015#isoflurane
name: isoflurane
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_6015

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kainateReceptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/kainateReceptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The kainate receptors belong to the class of ionotropic glutamate receptors that can be involved in excitatory neurotransmission (postsynaptic) as well as inhibitory neurotransmission (presynaptic).
interlexIdentifier: http://uri.interlex.org/ilx_0105822
knowledgeSpaceLink: https://knowledge-space.org/wiki/NIFEXT:5252#kainate-glutamate-gated-cationic-channel
name: kainate receptor
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nifext_5252

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kallikrein-relatedPeptidase8

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/kallikrein-relatedPeptidase8
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The kallikrein-related peptidase 8 is a protein that is a translation product of the mouse Klk1b8 gene or a 1:1 ortholog thereof.
knowledgeSpaceLink: https://knowledge-space.org/wiki/PR:000009614#kallikrein-1-related-peptidase-b8
name: kallikrein-related peptidase 8
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_000009614

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ketamine

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/ketamine
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Ketamine is a cyclohexanone derivative used for induction of anesthesia.
interlexIdentifier: http://uri.interlex.org/ilx_0105850
knowledgeSpaceLink: https://knowledge-space.org/wiki/NIFSTD:DB01221#ketamine
name: ketamine
preferredOntologyIdentifier: https://www.drugbank.ca/drugs/DB01221

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luciferYellow

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/luciferYellow
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Lucifer yellow is a fluorescent dye used that it can be readily visualized in both living and fixed cells using a fluorescence microscope.
interlexIdentifier: http://uri.interlex.org/base/ilx_0439021
name: lucifer yellow
preferredOntologyIdentifier: http://id.nlm.nih.gov/mesh/2018/M0068243

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magnesiumChloride

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/magnesiumChloride
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: A magnesium salt comprising of two chlorine atoms bound to a magnesium atom. [adapted from ChEBI (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:6636)]
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:6636#magnesium-dichloride
name: magnesium chloride
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_6636

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magnesiumSulfate

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/magnesiumSulfate
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: A magnesium salt with the formula MgSO4, consisting of magnesium cations Mg2+ (20.19% by mass) and sulfate anions (SO4)2-. [adapted from wikipedia (https://en.wikipedia.org/wiki/Magnesium_sulfate)]
interlexIdentifier: http://uri.interlex.org/base/ilx_0106452
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:32599#magnesium-sulfate
name: magnesium sulfate
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_32599

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medetomidine

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/medetomidine
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Medetomidine is a synthetic drug used as both a surgical anesthetic and analgesic.
interlexIdentifier: http://uri.interlex.org/ilx_0488544
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:48552#medetomidine
name: medetomidine
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_48552

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metabotropicGlutamateReceptor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/metabotropicGlutamateReceptor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Metabotropic glutamate receptors are active through an indirect metabotropic process and respond to glutamate as endogenous ligand.
interlexIdentifier: http://uri.interlex.org/base/ilx_0106829
knowledgeSpaceLink: https://knowledge-space.org/wiki/NLXMOL:20090503#metabotropic-glutamate-receptor
name: metabotropic glutamate receptor
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nlx_mol_20090503

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metabotropicGlutamateReceptor1

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/metabotropicGlutamateReceptor1
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The metabotropic glutamate receptor 1 belongs to group I of the MGluR family.
interlexIdentifier: http://uri.interlex.org/ilx_0106891
name: metabotropic glutamate receptor 1
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nlx_mol_20090504

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metabotropicGlutamateReceptor2

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/metabotropicGlutamateReceptor2
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The metabotropic glutamate receptor 2 belongs to group II of the MGluR family. When activated by its endogenous ligand glutamate, it inhibits the emptying of vesicular contents at the presynaptic terminal of glutamatergic neurons.
interlexIdentifier: http://uri.interlex.org/base/ilx_0106892
knowledgeSpaceLink: https://knowledge-space.org/wiki/PR:000008264#metabotropic-glutamate-receptor-2
name: metabotropic glutamate receptor 2
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nlx_mol_20090505

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metabotropicGlutamateReceptor3

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/metabotropicGlutamateReceptor3
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The metabotropic glutamate receptor 3 belongs to group II of the MGluR family. When activated by its endogenous ligand glutamate, it inhibits the emptying of vesicular contents at the presynaptic terminal of glutamatergic neurons.
interlexIdentifier: http://uri.interlex.org/base/ilx_0106893
knowledgeSpaceLink: https://knowledge-space.org/wiki/PR:000008265#metabotropic-glutamate-receptor-3
name: metabotropic glutamate receptor 3
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nlx_mol_20090506

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metabotropicGlutamateReceptor5

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/metabotropicGlutamateReceptor5
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The metabotropic glutamate receptor 5 belongs to group I of the MGluR family.
interlexIdentifier: http://uri.interlex.org/ilx_0106895
name: metabotropic glutamate receptor 5
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nlx_mol_20090508

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methanol

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/methanol
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Methanol is an organic chemical and the simplest aliphatic alcohol, with the formula CH3OH (a methyl group linked to a hydroxyl group, often abbreviated as MeOH). [adapted from Wikipedia (https://en.wikipedia.org/wiki/Methanol)]
description: Methanol is a light, volatile, colorless and flammable liquid with a distinctive alcoholic odour similar to that of ethanol (potable alcohol). Methanol acquired the name wood alcohol because it was once produced chiefly by the destructive distillation of wood. Today, methanol is mainly produced industrially by hydrogenation of carbon monoxide. [adapted from Wikipedia (https://en.wikipedia.org/wiki/Methanol)]
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:17790#methanol
name: methanol
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_17790

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monosodiumPhosphate

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/monosodiumPhosphate
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Monosodium phosphate (MSP), is an inorganic compound of sodium with a dihydrogen phosphate (H2PO4) anion. [adapted from Wikipedia (https://en.wikipedia.org/wiki/Monosodium_phosphate)]
description: Monosodium phosphate, one of many sodium phosphates, it is a common industrial chemical. The salt exists in an anhydrous form, as well as mono- and dihydrates. [adapted from Wikipedia (https://en.wikipedia.org/wiki/Monosodium_phosphate)]
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:37585#sodium-dihydrogenphosphate
name: monosodium phosphate
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_37585

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muscimol

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/muscimol
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Muscimol is a potent and selective orthosteric agonist for the GABAA receptors and displays sedative-hypnotic, depressant and hallucinogenic psychoactivity
interlexIdentifier: http://uri.interlex.org/base/ilx_0485557
name: muscimol
preferredOntologyIdentifier: http://id.nlm.nih.gov/mesh/2018/M0014231

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neurobiotin

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/neurobiotin
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Neurobiotin is a biotin derivative with moleular weight 286 kDa that can be used as an anterograde and retrograde tracer in the nervous system.
interlexIdentifier: http://uri.interlex.org/ilx_0107453
knowledgeSpaceLink: https://knowledge-space.org/wiki/NLXMOL:1012015#neurobiotin
name: neurobiotin
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nlx_157299

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neuroligin-3

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/neuroligin-3
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Neuroligin-3 is a protein that is a translation product of the NLGN3 gene or a 1:1 ortholog thereof.
interlexIdentifier: http://uri.interlex.org/ilx_0107485
knowledgeSpaceLink: https://knowledge-space.org/wiki/PR:000011256#neuroligin-3
name: neuroligin-3
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_000011256

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neuronalNuclearAntigen

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/neuronalNuclearAntigen
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Neuronal nuclear antigen is a 46/48KD DNA-binding, neuron-specific protein found in nuclei which is present in most vertebrate CNS and PNS neuronal cell types.
interlexIdentifier: http://uri.interlex.org/ilx_0107517
name: neuronal nuclear antigen
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nlx_152221

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neurotrophicFactor

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/neurotrophicFactor
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The 'neurotrophic factor' is a family of biomolecules that support growth, survival, and differentiation of both developing and mature neurons.
name: neurotrophic factor

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nickel

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/nickel
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Nickel is a chemical element; it has symbol Ni and atomic number 28.
interlexIdentifier: http://uri.interlex.org/base/ilx_0107575
name: nickel
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_28112

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parvalbumin

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/parvalbumin
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Parvalbumin is a calcium-binding albumin protein with low molecular weight (typically 9-11 kDa).
interlexIdentifier: http://uri.interlex.org/ilx_0108558
knowledgeSpaceLink: https://knowledge-space.org/wiki/NIFEXT:6#parvalbumin
name: parvalbumin
preferredOntologyIdentifier: http://uri.neuinfo.org/nif/nifstd/nifext_6

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pentobarbital

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/pentobarbital
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: A member of the class of barbiturates, the structure of which is that of barbituric acid substituted at C-5 by ethyl and sec-pentyl groups.
description: A short-acting barbiturate that is effective as a sedative and hypnotic (but not as an anti-anxiety) agent and is usually given orally. It is prescribed more frequently for sleep induction than for sedation but, like similar agents, may lose its effectiveness by the second week of continued administration. (From AMA Drug Evaluations Annual,1994, p236) Pharmacology: Pentobarbital, a barbiturate, is used for the treatment of short term insomnia. It belongs to a group of medicines called central nervous system (CNS) depressants that induce drowsiness and relieve tension or nervousness. Little analgesia is conferred by barbiturates; their use in the presence of pain may result in excitation. Mechanism of action: Pentobarbital binds at a distinct binding site associated with a Cl- ionopore at the GABAA receptor, increasing the duration of time for which the Cl- ionopore is open. The post-synaptic inhibitory effect of GABA in the thalamus is, therefore, prolonged. All of these effects are associated with marked decreases in GABA-sensitive neuronal calcium conductance (gCa). The net result of barbiturate action is acute potentiation of inhibitory GABAergic tone. Barbiturates also act through potent (if less well characterized) and direct inhibition of excitatory AMPA-type glutamate receptors, resulting in a profound suppression of glutamatergic neurotransmission. Drug type: Approved. Small Molecule. Drug category: Adjuvants, Anesthesia. Barbiturates. GABA Modulators. Hypnotics and Sedatives
interlexIdentifier: http://uri.interlex.org/base/ilx_0108667
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:7983#pentobarbital
name: pentobarbital
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_7983

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pentobarbitalSodium

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/pentobarbitalSodium
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Sodium salt of pentobarbital, which is most common form of pentobarbital.
name: pentobarbital sodium
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_7984

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potassiumChloride

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/potassiumChloride
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: A metal chloride salt with a K(+) counterion.
description: Potassium chloride (KCl, or potassium salt) is a metal halide salt composed of potassium and chlorine. It is odorless and has a white or colorless vitreous crystal appearance.
interlexIdentifier: http://uri.interlex.org/base/ilx_0109170
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:32588#potassium-chloride
name: potassium chloride
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_32588

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potassiumGluconate

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/potassiumGluconate
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Potassium gluconate is the potassium salt of the conjugate base of gluconic acid.
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:32032#potassium-gluconate
name: potassium gluconate
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_32032

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propofol

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/propofol
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: An intravenous anesthetic agent which has the advantage of a very rapid onset after infusion or bolus injection plus a very short recovery period of a couple of minutes. (From Smith and Reynard, Textbook of Pharmacology, 1992, 1st ed, p206)
description: Pharmacology: Propofol a sedative-hypnotic agent for use in the induction and maintenance of anesthesia or sedation. Intravenous injection of a therapeutic dose of propofol produces hypnosis rapidly with minimal excitation, usually within 40 seconds from the start of an injection (the time for one arm-brain circulation). Mechanism of action: The action of propofol involves a positive modulation of the inhibitory function of the neurotransmitter gama-aminobutyric acid(GABA) through GABA-A receptors. Drug type: Approved. Investigational. Small Molecule. Drug category: Anesthetics, Intravenous. Anticonvulsants. Antiemetics. Free Radical Scavengers. Hypnotics and Sedatives
interlexIdentifier: http://uri.interlex.org/ilx_0109431
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:44915#propofol
name: propofol
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_44915

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siliconDioxide

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/siliconDioxide
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Silicon dioxide, also known as silica, is an oxide of silicon with the chemical formula SiO2, commonly found in nature as quartz.
description: In many parts of the world, silica is the major constituent of sand. Silica is abundant as it comprises several minerals and as a synthetic products. All forms are white or colorless, although impure samples can be colored. Silicon dioxide is a common fundamental constituent of glass.
name: silicon dioxide
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_30563

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silverAmmonium

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/silverAmmonium
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Silver ammonium is an inorganic compound with chemical formula AgNH4.
name: Silver ammonium
preferredOntologyIdentifier: https://pubchem.ncbi.nlm.nih.gov/compound/57440423

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silverNitrate

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/silverNitrate
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Silver nitrate is an inorganic compound with chemical formula AgNO3.
description: Silver nitrate is a versatile precursor to many other silver compounds, such as those used in photography. It is far less sensitive to light than the halides. It was once called lunar caustic because silver was called luna by ancient alchemists who associated silver with the moon. In solid silver nitrate, the silver ions are three-coordinated in a trigonal planar arrangement.
name: Silver nitrate
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_32130

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sodiumBicarbonate

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/sodiumBicarbonate
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: A white, crystalline powder that is commonly used as a pH buffering agent, an electrolyte replenisher, systemic alkalizer and in topical cleansing solutions.
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:32139#sodium-hydrogencarbonate
name: sodium bicarbonate
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_32139

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sodiumChloride

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/sodiumChloride
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Sodium chloride commonly known as table salt, is an ionic compound with the chemical formula NaCl, representing a 1:1 ratio of sodium and chloride ions.
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:26710#sodium-chloride
name: sodium chloride
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_26710

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sucrose

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/sucrose
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: A nonreducing disaccharide composed of GLUCOSE and FRUCTOSE linked via their anomeric carbons. It is obtained commercially from SUGARCANE, sugar beet (BETA VULGARIS), and other plants and used extensively as a food and a sweetener.
description: It is produced naturally in plants and is the main constituent of white sugar. It has the molecular formula C12H22O11. For human consumption, sucrose is extracted and refined from either sugarcane or sugar beet. Sugar mills – typically located in tropical regions near where sugarcane is grown – crush the cane and produce raw sugar which is shipped to other factories for refining into pure sucrose. Sugar beet factories are located in temperate climates where the beet is grown, and process the beets directly into refined sugar. The sugar-refining process involves washing the raw sugar crystals before dissolving them into a sugar syrup which is filtered and then passed over carbon to remove any residual colour. The sugar syrup is then concentrated by boiling under a vacuum and crystallized as the final purification process to produce crystals of pure sucrose that are clear, odorless, and sweet.
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:17992#sucrose
name: sucrose
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_17992

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tungsten

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/tungsten
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: Tungsten (also called wolfram) is a chemical element; it has symbol W and atomic number 74.
description: Tungsten is a rare metal found naturally on Earth almost exclusively as compounds with other elements. It was identified as a new element in 1781 and first isolated as a metal in 1783. Its important ores include scheelite and wolframite, the latter lending the element its alternate name. The free element is remarkable for its robustness, especially the fact that it has the highest melting point of all known elements, melting at 3,422 °C (6,192 °F; 3,695 K). It also has the highest boiling point, at 5,930 °C (10,706 °F; 6,203 K). Its density is 19.30 grams per cubic centimetre (0.697 lb/cu in), comparable with that of uranium and gold, and much higher (about 1.7 times) than that of lead. Polycrystalline tungsten is an intrinsically brittle and hard material (under standard conditions, when uncombined), making it difficult to work into metal. However, pure single-crystalline tungsten is more ductile and can be cut with a hard-steel hacksaw.
name: tungsten
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_27998

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vesicularGlutamateTransporter

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/vesicularGlutamateTransporter
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The vesicular glutamate transporters are a subclass of glutamate transporters that move glutamate from the cell cytoplasm into synaptic vesicles.
name: vesicular glutamate transporter

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vesicularGlutamateTransporter1

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/vesicularGlutamateTransporter1
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The vesicular glutamate transporter 1 belongs to the VGLUT family. It is preferentially associated with the membranes of synaptic vesicles and functions in glutamate transport.
interlexIdentifier: http://uri.interlex.org/base/ilx_0112442
knowledgeSpaceLink: https://knowledge-space.org/wiki/NLXMOL:1006007#vesicular-glutamate-transporter-1
name: vesicular glutamate transporter 1
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_000014963

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vesicularGlutamateTransporter2

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/vesicularGlutamateTransporter2
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The vesicular glutamate transporter 2 belongs to the VGLUT family. It mediates the uptake of glutamate into synaptic vesicles at presynaptic nerve terminals of excitatory neural cells.
interlexIdentifier: http://uri.interlex.org/base/ilx_0112443
knowledgeSpaceLink: https://knowledge-space.org/wiki/NLXMOL:1006009#vesicular-glutamate-transporter-2
name: vesicular glutamate transporter 2
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_000014962

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vesicularGlutamateTransporter3

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/vesicularGlutamateTransporter3
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: The vesicular glutamate transporter 3 belongs to the VGLUT family. It transports the neurotransmitter glutamate into synaptic vesicles before it is released into the synaptic cleft.
knowledgeSpaceLink: https://knowledge-space.org/wiki/PR:000014964#vesicular-glutamate-transporter-3
name: vesicular glutamate transporter 3
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/PR_000014964

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water

metadata sheet

@id: https://openminds.ebrains.eu/instances/molecularEntity/water
@type: https://openminds.ebrains.eu/controlledTerms/MolecularEntity
definition: An oxygen hydride consisting of an oxygen atom that is covalently bonded to two hydrogen atoms.
description: Water is an inorganic compound with the chemical formula H2O. It is a transparent, tasteless, odorless, and nearly colorless chemical substance, and it is the main constituent of Earth's hydrosphere and the fluids of all known living organisms (in which it acts as a solvent). It is vital for all known forms of life, despite not providing food energy or organic micronutrients. Its chemical formula, H2O, indicates that each of its molecules contains one oxygen and two hydrogen atoms, connected by covalent bonds. The hydrogen atoms are attached to the oxygen atom at an angle of 104.45°. 'Water' is also the name of the liquid state of H2O at standard temperature and pressure. Because Earth's environment is relatively close to water's triple point, water exists on Earth as a solid, liquid, and gas.
interlexIdentifier: http://uri.interlex.org/base/ilx_0782172
knowledgeSpaceLink: https://knowledge-space.org/wiki/CHEBI:15377#water
name: water
preferredOntologyIdentifier: http://purl.obolibrary.org/obo/CHEBI_15377

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molecularEntity.rst

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Terminologies: MolecularEntity library

4-(2-Hydroxyethyl)-1-piperazineEthanesulfonicAcid

5-HT1AReceptor

5-HT1BReceptor

5-HT2AReceptor

5-HT2Receptor

5-HT4Receptor

5-HTTransporter

6,7-Dinitro-1,4-dihydroquinoxaline-2,3-dione

A1Receptor

A2AReceptor

AMPAReceptor

AlexaFluor594

Beta-Amyloid40

D1Receptor

D2Receptor

DAB

Fluoro-Emerald

Fluoro-Gold

Fluoro-Ruby

GABA-AReceptor

GABA-A_BZ

GABA-BReceptor

GABAReceptor

JNKMapKinaseScaffoldProtein2

M1Receptor

M2Receptor

M3Receptor

MagnesiumATP

NMDAReceptor

acetylcholine

alpha-1Receptor

alpha-2Receptor

alpha-4Beta-2Receptor

anterogradeTracer

biomarker

biotinylatedDextranAmine

brainDerivedNeurotrophicFactor

c-FOS

calbindin

calciumCalmodulinProteinKinaseII

calciumCalmodulinProteinKinaseIIAlphaChain

calciumChloride

calretinin

carbonDioxide

cholecystokinin

choline

cholineAcetyltransferase

cyclicAdenosineMonophosphate

diboronTrioxide

dimethylSulfoxide

dinitrogen

dioxygen

dopamine

dopamineTransporter

dynorphin

edeticAcid

egtazicAcid

enkephalin

epibatidine

ethanol

excitatoryAminoAcidTransporter

excitatoryAminoAcidTransporter1

excitatoryAminoAcidTransporter2

excitatoryAminoAcidTransporter3

excitatoryAminoAcidTransporter4

excitatoryAminoAcidTransporter5

flumazenil

fluorescentMicrospheres

formaldehyde

gabazine

galanin

gluconicAcid

glucose