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

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.