Protein Mapping Simp
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SubtitleBioschemas specification describing a Protein (BioChemEntity profile) in Life SciencesFor instructions please see:https://goo.gl/VKYRUf
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DescriptionThis Protein profile specification presents the BioChemEntity usage when describing a Protein.
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schema.orgbioschemas
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PropertyExpected TypeDescriptionBSC DescriptionMarginalityCardinalityControlled Vocabulary
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Extends Thing
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additionalTypeURL
An additional type for the item, typically used for adding more specific types from external vocabularies in microdata syntax. This is a relationship between something and a class that the thing is in. In RDFa syntax, it is better to use the native RDFa syntax - the 'typeof' attribute - for multiple types. Schema.org tools may have only weaker understanding of extra types, in particular those defined externally.
Any ontology term describing the protein concept. This is in addition to the official type to describe a protein

Official proposed term: http://purl.obolibrary.org/obo/PR_000000001
OptionalMANYSIO, PR, SO, others
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alternateNameTextAn alias for the item.OptionalMANY
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descriptionTextA description of the item.
Protein function. We recommend to start the description with "Function: [...]"
RecommendedONE
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disambiguatingDescriptionText
A sub property of description. A short description of the item used to disambiguate from other, similar items. Information from other properties (in particular, name) may be necessary for the description to be useful for disambiguation.
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identifier
PropertyValue or
Text or
URL
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.
MinimumONE
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image
ImageObject or
URL
An image of the item. This can be a URL or a fully described ImageObject.RecommendedMANY
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mainEntityOfPage
CreativeWork or
URL
Indicates a page (or other CreativeWork) for which this thing is the main entity being described. See background notes for details.
Inverse property: mainEntity.


Link via Record or URL to the main Record representing this entity in a dataset
OptionalONE
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nameTextThe name of the item.MinimumONE
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potentialActionActionIndicates a potential Action, which describes an idealized action in which this thing would play an 'object' role.
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sameAsURL
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.
OptionalMANY
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subjectOf
CreativeWork or
Event
A CreativeWork or Event about this Thing..
Inverse property: about.
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urlURLURL of the item.Link to the official webpage associated to this entity.RecommendedONE
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New Properties
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additionalPropertyPropertyValueA 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.
Additional to the use of name and description to describe this property in a human-readable way, additionalType should be used to specify the nature of the property/relation. For instance, if the property refers to a gene/protein disease association, you could use http://semanticscience.org/resource/SIO_000983 as additionalType for the additionalProperty. If appropriate terms/properties exist in controlled vocabularies, those should be used directly.
OptionalMANY
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bioschemas:associatedDisease
MedicalCondition or URL
Disease associated to this protein, if any
Proposed official property: SO:associated_with, see http://purl.obolibrary.org/obo/so#associated_with
RecommendedMANYSIO:000983, SIO:010299, OMIM, any other well-known ontology describing diseases
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bioschemas:transcribedFrom
BioChemEntity, bioschemas:Gene or URL
Gene(s) from which this protein was transcribed from. In addtion to the schema:BioChemEntity type, this property also expects a bioschemas:Gene profile
Proposed official property: SIO:010081, see http://semanticscience.org/resource/SIO_010081.rdf
RecommendedMANYSIO:010081, SIO:010035
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isContainedIn
BioChemEntity or URL
Indicates a BioChemEntity that is (in some sense) a part of this BioChemEntity. Inverse property: isContainedIn.
For proteins, it is recommended to at least specify the taxon/organism associated to it
RecommendedMANYNCBI Taxon, UniProt taxonomy
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contains
BioChemEntity or URL
Indicates a BioChemEntity that is (in some sense) a part of this BioChemEntity. Inverse property: isContainedIn.OptionalMANY
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location
Place, PostalAddress, PropertyValue, Text or URL
The location of for example where the event is happening, an organization is located, or where an action takes place.
In Bioschemas location can be refer to a position in a chromosome or sequence or to a physical place where, for instance, a sample is stored. Using additionalType is advised to make the distinction. For instance, FALDO can be used for sequence coordinates.
OptionalMANY
Yes, as it better suits to describe the location.
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hasRepresentation
PropertyValue, Text or URL
A representation for this entity other than, for instance, an image (used image property for that) or the main web page/record (use mainEntityOfPage for that, and see background notes, http://schema.org/docs/datamodel.html#mainEntityBackground, for sameAs and url).
This property could be used, for instance, to register a sequence protein as it is a representation of the protein. If you want to better define the nature of the representation, use a PropertyValue as described in additionalProperty.
OptionalMANY
Yes, as it better suits to describe the nature of the representation
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Schema.org mapping
Authors
Bioschemas fields