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Sample DRAFT Profile

Version: 0.1-DRAFT-2018_02_25 (25 February 2018)

Bioschemas specification for describing Samples in the life-science.


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


Key to specification table

CD = Cardinality

Property Expected Type Description CD Controlled Vocabulary Example
Marginality: Minimum.
@context URL Used to provide the context (namespaces) for the JSON-LD file.
Not needed in other serialisations.		 ONE
@type Text Schema.org/Bioschemas class for the resource declared using JSON-LD syntax. For other serialisations please use the appropriate mechanism.
While it is permissible to provide multiple types, it is preferred to use a single type.		 MANY Schema.org, Bioschemas
@id IRI Used to distinguish the resource being described in JSON-LD. For other serialisations use the appropriate approach. ONE
dct:conformsTo IRI Used to state the Bioschemas profile that the markup relates to. The versioned URL of the profile must be used.
Note that we use a CURIE in the table here but the full URL for Dublin Core terms must be used in the markup (http://purl.org/dc/terms/conformsTo), see example.		 ONE Bioschemas profile versioned URL
identifier PropertyValue
Text
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.


Bioschemas:

Unique sample IDs. Where possible this should be an identifiers.org compliant prefixed id e.g. a BioSamples ID biosample:SAME12345.

 MANY
rdf:type URL
 Bioschemas:

This is used by validation tools to indentify the profile used. You must use the value specified in the Controlled Vocabulary column.

 ONE

OBI:material sample
Marginality: Recommended.
url URL
 Schema:

URL of the item.


Bioschemas:

An access URL for this sample, e.g., in BioSamples or in a Biobank or elsewhere.

 ONE
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.


Bioschemas:

A property-value pair representing an additional characteristics of the entity, e.g. “Organism: Homo sapiens” or “tissue type: leaf”. For details of how to use PropertyValue see below.

 MANY
dataset URL
 Schema:

A dataset contained in this catalog.


Bioschemas:

An access URL that provides a link to a dataset that contains data about this sample record. Note: Bioschemas has changed the Expected Type from Dataset to URL.

 MANY
description Text
 Schema:

A description of the item.


Bioschemas:

A description of the sample in free text. This should not contain information that could be better expressed as key/value pairs. These should be expressed using additionalProperty.

 ONE
name Text
 Schema:

The name of the item.


Bioschemas:

A human readable name for the sample. This should not be an additional identifier. Additional identifiers should be added to the identifier field.

 MANY

PropertyValue

Property Expected Type Description CD Controlled Vocabulary
Marginality: Minimum
name Text Schema: The name of the item.
Bioschemas: The name of the additional property. Otherwise known as a key or attribute. 		ONE
value Boolean
Number
Text 		Schema: The value of the quantitative value or property value node.
  • For QuantitativeValue and MonetaryAmount, the recommended type for values is 'Number'.
  • For PropertyValue, it can be 'Text;', 'Number', 'Boolean', or 'StructuredValue'.

    • Bioschemas: Attribute value.
    Note: Bioschemas have removed StructuredValue from the Expected Types.
ONE
Marginality: Recommended
valueReference CategoryCode Schema: A pointer to a secondary value that provides additional information on the original value, e.g. a reference temperature.
Bioschemas: Catagory code to enhance the value this could be a link to an ontology term in the Ontology Lookup Service.
Note: Bioschemas has added CategoryCode to the ExpectedTypes (of valueReference) and removed Enumeration, PropertyValue, QualitativeValue QuantitativeValue, and StructuredValue. 		MANY
Marginality: Optional
unitCode Text
URL 		Schema: The unit of measurement given using the UN/CEFACT Common Code (3 characters) or a URL. Other codes than the UN/CEFACT Common Code may be used with a prefix followed by a colon. ONE
unitText Text Schema: A string or text indicating the unit of measurement. Useful if you cannot provide a standard unit code for unitCode. ONE

CategoryCode

Property Expected Type Description CD Controlled Vocabulary
Marginality: Minimum
name Text Schema: The name of the item.
Bioschemas: A human readable label. 		MANY
codeValue Text Schema: A short textual code that uniquely identifies the value. MANY
url URL Schema: URL of the item.
Bioschemas: The URI for the vocabulary code. 		MANY