Human Cell Atlas Data Coordination Platform

Collection protocol

Information about the biomaterial collection protocol.

View JSON source: collection_protocoldoneShow required fields only


Collection protocol>Collection methodRequired (process_type_ontology object) Method used to collect the biomaterial.
Process type ontology IDcollection_protocol.method.ontologycopy (string from process_type_ontology) An ontology term identifier in the form prefix:accession. For example "EFO:0009128" or "EFO:0009121".Graph restriction: Subclasses of EFO:0002694 from obo:efo.
Process type ontology labelcollection_protocol.method.ontology_labelcopy (string from process_type_ontology) The preferred label for the ontology term referred to in the ontology field. This may differ from the user-supplied value in the text field. For example "enzymatic dissociation" or "blood draw".
Process typeRequiredcollection_protocol.method.textcopy (string from process_type_ontology) The name of a process type being used. For example "enzymatic dissociation" or "blood draw".
Collection protocol>Protocol reagents (purchased_reagents array) A list of purchased reagents used in this protocol.
Catalog numbercollection_protocol.reagents.catalog_numbercopy (string from purchased_reagents) The catalog number of the kit/reagent. For example "20014279".
Expiry datecollection_protocol.reagents.expiry_datecopy (string from purchased_reagents) The date of expiration for the kit/reagent. For example "2018-01-31" or "2018-01".
Titercollection_protocol.reagents.kit_titercopy (string from purchased_reagents) Appropriate titer and volume recommendations found in kit/reagent Certificate of Analysis. For example "3.0x10^7".
Batch/lot numbercollection_protocol.reagents.lot_numbercopy (string from purchased_reagents) The batch or lot number of the kit/reagent. For example "10001A".
Manufacturercollection_protocol.reagents.manufacturercopy (string from purchased_reagents) The manufacturer of the kit/reagent. For example "Illumina" or "ThermoFisher Scientific".
Retail namecollection_protocol.reagents.retail_namecopy (string from purchased_reagents) The retail name of the kit/reagent. For example "SureCell WTA 3' Library Prep Kit" or "CytoTune iPS 2.0 Sendai Reprogramming Kit".
Collection protocol>Protocol coreRequired (protocol_core object) Core protocol-level information.
Document filenamecollection_protocol.protocol_core.documentcopy (string from protocol_core) A filename of a PDF document containing the details of the protocol. For example "my_cool_protocol.pdf".
Protocol descriptioncollection_protocol.protocol_core.protocol_descriptioncopy (string from protocol_core) A general description of the protocol.
Protocol IDRequiredcollection_protocol.protocol_core.protocol_idcopy (string from protocol_core) A unique ID for the protocol.
Protocol namecollection_protocol.protocol_core.protocol_namecopy (string from protocol_core) A short name for the protocol. DOIcollection_protocol.protocol_core.protocols_io_doicopy (string from protocol_core) The digital object identifier (doi) for the protocol. For example "10.17504/".
Publication DOIcollection_protocol.protocol_core.publication_doicopy (string from protocol_core) The publication digital object identifier (doi) for the protocol. For example "10.1101/193219".
Collection protocol>provenance (provenance object) Provenance information provided by the system.
Accessioncollection_protocol.provenance.accessioncopy (string from provenance) A unique accession for this entity, provided by the broker.
Document IDRequiredcollection_protocol.provenance.document_idcopy (string from provenance) Identifier for document.
Schema major versioncollection_protocol.provenance.schema_major_versioncopy (integer from provenance) The major version number of the schema. For example "4" or "10".
Schema minor versioncollection_protocol.provenance.schema_minor_versioncopy (integer from provenance) The minor version number of the schema. For example "6" or "15".
Submission dateRequiredcollection_protocol.provenance.submission_datecopy (string from provenance) When project was first submitted to database.
Submitter IDcollection_protocol.provenance.submitter_idcopy (string from provenance) ID of individual who first submitted project.
Update datecollection_protocol.provenance.update_datecopy (string from provenance) When project was last updated.
Updater IDcollection_protocol.provenance.updater_idcopy (string from provenance) ID of individual who last updated project.