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

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.