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

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.