Reactome: A Curated Pathway Database
Attention
The EBI data centre will be shutting down from the afternoon (BST) of Friday 26th August until the afternoon of Tuesday 30th August 2016 for essential maintenance. This might have an impact on some Reactome services and we apologize for any inconvenience.

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
__is_ghost 1 OTHER N/A DatabaseObject   ENUM('TRUE')
_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   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
_Deleted replacementInstances +
OtherEntity inferredTo +
Polymer inferredTo +
EntitySet inferredTo +
PhysicalEntity inferredTo +
EntityWithAccessionedSequence inferredTo +
OpenSet inferredTo +
GenomeEncodedEntity inferredTo +
SimpleEntity inferredTo +
Complex inferredTo +
CandidateSet inferredTo +
DefinedSet inferredTo +
CandidateSet inferredFrom +
DefinedSet inferredFrom +
EntityWithAccessionedSequence inferredFrom +
OtherEntity inferredFrom +
EntitySet inferredFrom +
PhysicalEntity inferredFrom +
Polymer inferredFrom +
Complex inferredFrom +
GenomeEncodedEntity inferredFrom +
SimpleEntity inferredFrom +
OpenSet inferredFrom +
EntityVertex representedInstance 1
ReactionlikeEvent entityOnOtherCell +
Polymerisation entityOnOtherCell +
Complex entityOnOtherCell +
FailedReaction entityOnOtherCell +
Reaction entityOnOtherCell +
Depolymerisation entityOnOtherCell +
BlackBoxEvent entityOnOtherCell +
ConcurrentEventSet focusEntity +
Complex hasComponent +
FailedReaction output +
ReactionlikeEvent output +
Polymerisation output +
Reaction output +
BlackBoxEvent output +
Depolymerisation output +
EntityFunctionalStatus physicalEntity 1
CatalystActivity physicalEntity 1
BlackBoxEvent input +
Depolymerisation input +
Reaction input +
Polymerisation input +
ReactionlikeEvent input +
FailedReaction input +
NegativeRegulation regulator 1
Regulation regulator 1
Requirement regulator 1
PositiveRegulation regulator 1
Polymer repeatedUnit +
OpenSet hasMember +
DefinedSet hasMember +
CandidateSet hasMember +
EntitySet hasMember +
BlackBoxEvent requiredInputComponent +
Depolymerisation requiredInputComponent +
Reaction requiredInputComponent +
Polymerisation requiredInputComponent +
ReactionlikeEvent requiredInputComponent +
FailedReaction requiredInputComponent +
VertexSearchableTerm termProvider +
CandidateSet hasCandidate +
NegativeRegulation activeUnit +
Regulation activeUnit +
Requirement activeUnit +
CatalystActivity activeUnit +
PositiveRegulation activeUnit +

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.