Reactome: A Curated Pathway Database

Attributes of class 'SimpleEntity'

Attribute name Cardinality Value type Allowed classes Attribute origin Value defines instance Db column type
DB_ID 1 INTERNAL_ID N/A DatabaseObject   INTEGER(10) UNSIGNED
_displayName 1 TEXT N/A DatabaseObject   TEXT
_timestamp 1 OTHER N/A DatabaseObject   TIMESTAMP
authored 1 INSTANCE InstanceEdit PhysicalEntity   INTEGER(10) UNSIGNED
cellType 1 INSTANCE CellType PhysicalEntity ALL INTEGER(10) UNSIGNED
compartment + INSTANCE EntityCompartment PhysicalEntity ALL INTEGER(10) UNSIGNED
created 1 INSTANCE InstanceEdit DatabaseObject   INTEGER(10) UNSIGNED
crossReference + INSTANCE DatabaseIdentifier PhysicalEntity   INTEGER(10) UNSIGNED
definition 1 TEXT N/A PhysicalEntity   TEXT
disease + INSTANCE Disease PhysicalEntity   INTEGER(10) UNSIGNED
edited + INSTANCE InstanceEdit PhysicalEntity   INTEGER(10) UNSIGNED
figure + INSTANCE Figure PhysicalEntity   INTEGER(10) UNSIGNED
goCellularComponent 1 INSTANCE GO_CellularComponent PhysicalEntity   INTEGER(10) UNSIGNED
inferredFrom + INSTANCE PhysicalEntity PhysicalEntity   INTEGER(10) UNSIGNED
inferredTo + INSTANCE PhysicalEntity PhysicalEntity   INTEGER(10) UNSIGNED
literatureReference + INSTANCE Publication PhysicalEntity   INTEGER(10) UNSIGNED
modified + INSTANCE InstanceEdit DatabaseObject   INTEGER(10) UNSIGNED
name + TEXT N/A PhysicalEntity   TEXT
referenceEntity 1 INSTANCE ReferenceMolecule SimpleEntity ALL INTEGER(10) UNSIGNED
reviewed + INSTANCE InstanceEdit PhysicalEntity   INTEGER(10) UNSIGNED
revised + INSTANCE InstanceEdit PhysicalEntity   INTEGER(10) UNSIGNED
species 1 INSTANCE Species SimpleEntity ALL INTEGER(10) UNSIGNED
stableIdentifier 1 INSTANCE StableIdentifier DatabaseObject   INTEGER(10) UNSIGNED
summation + INSTANCE Summation PhysicalEntity   INTEGER(10) UNSIGNED
systematicName 1 TEXT N/A PhysicalEntity   TEXT

Referers of class 'SimpleEntity' instances

Class name Attribute name Cardinality
CatalystActivity physicalEntity 1
EntityFunctionalStatus physicalEntity 1
RNADrug inferredTo +
GenomeEncodedEntity inferredTo +
EntitySet inferredTo +
Complex inferredTo +
EntityWithAccessionedSequence inferredTo +
SimpleEntity inferredTo +
Polymer inferredTo +
ProteinDrug inferredTo +
CandidateSet inferredTo +
DefinedSet inferredTo +
OtherEntity inferredTo +
Drug inferredTo +
PhysicalEntity inferredTo +
ChemicalDrug inferredTo +
OpenSet inferredTo +
VertexSearchableTerm termProvider +
ConcurrentEventSet focusEntity +
Polymer repeatedUnit +
_Deleted replacementInstances +
Depolymerisation input +
BlackBoxEvent input +
Polymerisation input +
Reaction input +
ReactionlikeEvent input +
FailedReaction input +
Depolymerisation output +
Polymerisation output +
BlackBoxEvent output +
Reaction output +
ReactionlikeEvent output +
FailedReaction output +
DefinedSet inferredFrom +
Polymer inferredFrom +
CandidateSet inferredFrom +
ProteinDrug inferredFrom +
ChemicalDrug inferredFrom +
OpenSet inferredFrom +
Drug inferredFrom +
OtherEntity inferredFrom +
PhysicalEntity inferredFrom +
RNADrug inferredFrom +
EntitySet inferredFrom +
GenomeEncodedEntity inferredFrom +
SimpleEntity inferredFrom +
EntityWithAccessionedSequence inferredFrom +
Complex inferredFrom +
PositiveGeneExpressionRegulation regulator 1
NegativeGeneExpressionRegulation regulator 1
PositiveRegulation regulator 1
Requirement regulator 1
NegativeRegulation regulator 1
Regulation regulator 1
Complex entityOnOtherCell +
BlackBoxEvent entityOnOtherCell +
Polymerisation entityOnOtherCell +
Reaction entityOnOtherCell +
Depolymerisation entityOnOtherCell +
FailedReaction entityOnOtherCell +
ReactionlikeEvent entityOnOtherCell +
Complex hasComponent +
EntityVertex representedInstance 1
CandidateSet hasCandidate +
Depolymerisation requiredInputComponent +
Reaction requiredInputComponent +
Polymerisation requiredInputComponent +
BlackBoxEvent requiredInputComponent +
ReactionlikeEvent requiredInputComponent +
FailedReaction requiredInputComponent +
CandidateSet hasMember +
EntitySet hasMember +
DefinedSet hasMember +
OpenSet hasMember +
Regulation activeUnit +
NegativeRegulation activeUnit +
Requirement activeUnit +
CatalystActivity activeUnit +
PositiveGeneExpressionRegulation activeUnit +
NegativeGeneExpressionRegulation activeUnit +
PositiveRegulation activeUnit +

You can find documentation for the Reactome data model here.

Sidebar on the left shows the hierarchy of Reactome classes. The number of instances of this class is shown in square brackets and is hyperlinked to a page listing all instances in this class.

The main panel shows attributes of the selected class. Own attributes, i.e. the ones which are not inherited from a parent class are indicated in colour.

'+' in 'Cardinality' column indicates that this is a multi-value attribute.

'Value defines instance' column indicates the attributes the values of which determine instance identity and are used to check if an identical instance has been stored in the database already. 'ALL' indicates that that all of the values of a given attribute must be identical while 'ANY' shows that identity of any single value of a given attribute is enough. Of course, if the identity is defined by multiple attributes each of them has to match.