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