Reactome: A Curated Pathway Database
THIS SITE IS USED FOR CURATION AND TESTING
IT IS NOT STABLE, IS LINKED TO AN INCOMPLETE DATA SET, AND IS NOT MONITORED FOR PERFORMANCE. WE STRONGLY RECOMMEND THE USE OF OUR PUBLIC SITE

Attributes of class 'PhysicalEntity'
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 + INSTANCE CellType 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
reviewed + INSTANCE InstanceEdit PhysicalEntity   INTEGER(10) UNSIGNED
revised + INSTANCE InstanceEdit PhysicalEntity   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 'PhysicalEntity' instances
Class name Attribute name Cardinality
PhysicalEntity inferredTo +
SimpleEntity inferredTo +
Polymer inferredTo +
RNADrug inferredTo +
Drug inferredTo +
Complex inferredTo +
GenomeEncodedEntity inferredTo +
ProteinDrug inferredTo +
EntitySet inferredTo +
Cell inferredTo +
CandidateSet inferredTo +
OtherEntity inferredTo +
ChemicalDrug inferredTo +
EntityWithAccessionedSequence inferredTo +
DefinedSet inferredTo +
PhysicalEntityCellType physicalEntity 1
CatalystActivity physicalEntity 1
NegativeGeneExpressionRegulation regulator 1
PositiveGeneExpressionRegulation regulator 1
PositiveRegulation regulator 1
Requirement regulator 1
NegativeRegulation regulator 1
Regulation regulator 1
FailedReaction output +
Polymerisation output +
Reaction output +
Depolymerisation output +
ReactionlikeEvent output +
BlackBoxEvent output +
EntityFunctionalStatus diseaseEntity 1
Requirement activeUnit +
NegativeRegulation activeUnit +
Regulation activeUnit +
CatalystActivity activeUnit +
PositiveRegulation activeUnit +
PositiveGeneExpressionRegulation activeUnit +
NegativeGeneExpressionRegulation activeUnit +
_Deleted replacementInstances +
_UpdateTracker updatedInstance 1
BlackBoxEvent entityOnOtherCell +
Reaction entityOnOtherCell +
ReactionlikeEvent entityOnOtherCell +
CellDevelopmentStep entityOnOtherCell +
Complex entityOnOtherCell +
Depolymerisation entityOnOtherCell +
FailedReaction entityOnOtherCell +
Polymerisation entityOnOtherCell +
Polymer repeatedUnit +
CandidateSet hasMember +
EntitySet hasMember +
DefinedSet hasMember +
ReactionlikeEvent input +
BlackBoxEvent input +
Polymerisation input +
FailedReaction input +
Reaction input +
Depolymerisation input +
PhysicalEntity inferredFrom +
SimpleEntity inferredFrom +
Polymer inferredFrom +
Drug inferredFrom +
Complex inferredFrom +
RNADrug inferredFrom +
GenomeEncodedEntity inferredFrom +
ProteinDrug inferredFrom +
EntitySet inferredFrom +
Cell inferredFrom +
CandidateSet inferredFrom +
OtherEntity inferredFrom +
EntityWithAccessionedSequence inferredFrom +
ChemicalDrug inferredFrom +
DefinedSet inferredFrom +
Complex hasComponent +
BlackBoxEvent requiredInputComponent +
ReactionlikeEvent requiredInputComponent +
CellDevelopmentStep requiredInputComponent +
Reaction requiredInputComponent +
Depolymerisation requiredInputComponent +
Polymerisation requiredInputComponent +
FailedReaction requiredInputComponent +
CandidateSet hasCandidate +
InteractionEvent partners +
EntityFunctionalStatus normalEntity 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.

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