Reactome: A Curated Pathway Database

Attributes of class 'GenomeEncodedEntity'

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 ANY TEXT
reviewed + INSTANCE InstanceEdit PhysicalEntity   INTEGER(10) UNSIGNED
revised + INSTANCE InstanceEdit PhysicalEntity   INTEGER(10) UNSIGNED
species 1 INSTANCE Taxon
Species
GenomeEncodedEntity 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 'GenomeEncodedEntity' instances

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

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.