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BioSample DRAFT Profile

Version: 0.1-DRAFT (12 November 2019)

A bioschema's profile describing a biological sample.


If you spot any errors or omissions with this type, please file an issue in our GitHub.


Contributors

The following people have been involved in the creation of this specification document. They are all members of the Samples group.

Group Leader(s)
Other team members

Schema.org hierarchy

This Profile fits into the schema.org hierarchy as follows:

Thing > BioChemEntity

Description

A biological material entity that is representative of a whole. Comments: Typically samples are intended to be representative of the whole or aspects thereof. Examples of samples include biomedical samples (blood, urine) and plant specimens held at herbaria.





Key to specification table

Schema.org properties where the Expected Types have been changed, or new (i.e., Bioschemas created) properties/types are green.

Schema.org properties/types are red.

Pending Schema.org properties/types are blue.

External (i.e., from 3rd party ontology) properties/types are black.


CD = Cardinality


Property Expected Type Description CD Controlled Vocabulary Example
Marginality: Minimum.
description Text
Schema:

A description of the item.


identifier PropertyValue or Text or URL
Schema:

The identifier property represents any kind of identifier for any kind of Thing, such as ISBNs, GTIN codes, UUIDs etc. Schema.org provides dedicated properties for representing many of these, either as textual strings or as URL (URI) links. See background notes for more details.


name Text
Schema:

The name of the item.


url URL
Schema:

URL of the item.


Marginality: Optional.
additionalProperty PropertyValue
Schema:

A property-value pair representing an additional characteristics of the entitity, e.g. a product feature or another characteristic for which there is no matching property in schema.org. Note: Publishers should be aware that applications designed to use specific schema.org properties (e.g. http://schema.org/width, http://schema.org/color, http://schema.org/gtin13, …) will typically expect such data to be provided using those properties, rather than using the generic property/value mechanism.


associatedDisease MedicalCondition or PropertyValue or URL
Schema:

Disease associated to this BioChemEntity. Such a disease can be a MedicalCondition or a URL. If you want to add an evidence supporting the association, please use PropertyValue.


bioChemInteraction BioChemEntity
Schema:

A BioChemEntity that is know to interact with this item.


bioChemSimilarity BioChemEntity
Schema:

A similar molecular entity, e.g., obtained by fingerprint similarity algorithm.


biogicalRole DefinedTerm
Schema:

A role played by the molecular entity within a biological context.


collector Organization or Person
Schema:

The Person or Organization who collected the Sample.


custodian Organization or Person
Schema:

The Person or Organization who is responsible for the Sample.


dateCreated Date or DateTime
Schema:

The date on which the CreativeWork was created or the item was added to a DataFeed.


gender GenderType or Text
Schema:

Gender of the person. While http://schema.org/Male and http://schema.org/Female may be used, text strings are also acceptable for people who do not identify as a binary gender


hasBioChemEntityPart BioChemEntity
Schema:

Indicates a BioChemEntity that (in some sense) has this BioChemEntity as a part. Inverse property:isPartOfBioChemEntity


hasMolecularFunction DefinedTerm or PropertyValue or URL
Schema:

Molecular function performed by this BioChemEntity; please use PropertyValue if you want to include any evidence.


hasRepresentation PropertyValue or Text or URL
Schema:

A common representation such as a protein sequence or chemical structure for this entity. For images use schema.org/image.


image ImageObject or URL
Schema:

An image of the item. This can be a URL or a fully described ImageObject.


isControl Boolean
Schema:

Indicates whether the sample is being used as a normal control, may be in combination with another sample.


isEncodedByBioChemEntity Gene
Schema:

Another BioChemEntity encoding this one. Inverse property:encodesBioChemEntity.


isInvolvedInBiologicalProcess DefinedTerm or PropertyValue or URL
Schema:

Biological process this BioChemEntity is involved in; please use PropertyValue if you want to include any evidence.


isLocatedInSubcellularLocation DefinedTerm or PropertyValue or URL
Schema:

Subcellular location where this BioChemEntity is located; please use PropertyValue if you want to include any evidence.


isPartOfBioChemEntity BioChemEntity
Schema:

Indicates a BioChemEntity that is (in some sense) a part of this BioChemEntity. Inverse property:hasBioChemEntityPart


itemLocation Place or PostalAddress or Text
Schema:

Current location of the item.


locationCreated Place
Schema:

The location where the CreativeWork was created, which may not be the same as the location depicted in the CreativeWork.


sameAs URL
Schema:

URL of a reference Web page that unambiguously indicates the item’s identity. E.g. the URL of the item’s Wikipedia page, Wikidata entry, or official website.


samplingAge Integer
Schema:

The age of the object when the Sample was created.


taxonomicRange DefinedTerm or Taxon or Text or URL
Schema:

The taxonomic grouping of the organism that expresses, encodes, or in someway related to the BioChemEntity.


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