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

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.