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

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.