Human Cell Atlas Data Coordination Platform
Metadata

Treatment protocol

Information about how cells are subjected to a treatment or stimulus, such as an immune activator or a drug.

View JSON source: treatment_protocoldoneShow required fields only

Properties

Treatment mediatreatment_protocol.mediacopy (string) Culture media used to induce a specific treatment response. For example "RPMI 1640" or "Complete Medium".
Treatment protocol>Treatment methodRequired (treatment_method_ontology array) Method applied to cell culture to induce a specific treatment response.
Treatment ontology IDtreatment_protocol.method.ontologycopy (string from treatment_method_ontology) An ontology term identifier in the form prefix:accession. For example "EFO:0030037".Graph restriction: Subclasses of OBI:0000070 from obo:efo or obo:obi.
Treatment ontology labeltreatment_protocol.method.ontology_labelcopy (string from treatment_method_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 "T cell activation assay".
Treatment methodRequiredtreatment_protocol.method.textcopy (string from treatment_method_ontology) The name of a treatment method or approach being used. For example "T cell activation assay".
Treatment protocol>Treatment reagents (purchased_reagents array) A list of purchased reagents used in the treatment protocol.
Catalog numbertreatment_protocol.reagents.catalog_numbercopy (string from purchased_reagents) The catalog number of the kit/reagent. For example "20014279".
Expiry datetreatment_protocol.reagents.expiry_datecopy (string from purchased_reagents) The date of expiration for the kit/reagent. For example "2018-01-31" or "2018-01".
Titertreatment_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 numbertreatment_protocol.reagents.lot_numbercopy (string from purchased_reagents) The batch or lot number of the kit/reagent. For example "10001A".
Manufacturertreatment_protocol.reagents.manufacturercopy (string from purchased_reagents) The manufacturer of the kit/reagent. For example "Illumina" or "ThermoFisher Scientific".
Retail nametreatment_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".
Treatment protocol>Target pathway (target_pathway_ontology array) Targeted pathway for specific treatment response. For example "insulin signalling pathway", "immune cell activation" or "chemokine signalling pathway.".
Target pathway ontology IDtreatment_protocol.target_pathway.ontologycopy (string from target_pathway_ontology) An ontology term identifier in the form prefix:accession. For example "GO:0043382".Graph restriction: Subclasses of GO:0050789 from obo:hcao.
Target pathway ontology labeltreatment_protocol.target_pathway.ontology_labelcopy (string from target_pathway_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 "positive regulation of memory T cell differentiation".
Target pathwayRequiredtreatment_protocol.target_pathway.textcopy (string from target_pathway_ontology) The name of the treatment target pathway. For example "positive regulation of memory T cell differentiation".
Treatment protocol>Protocol coreRequired (protocol_core object) Core protocol-level information.
Document filenametreatment_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 descriptiontreatment_protocol.protocol_core.protocol_descriptioncopy (string from protocol_core) A general description of the protocol.
Protocol IDRequiredtreatment_protocol.protocol_core.protocol_idcopy (string from protocol_core) A unique ID for the protocol.
Protocol nametreatment_protocol.protocol_core.protocol_namecopy (string from protocol_core) A short name for the protocol.
protocols.io DOItreatment_protocol.protocol_core.protocols_io_doicopy (string from protocol_core) The protocols.io digital object identifier (doi) for the protocol. For example "10.17504/protocols.io.mgjc3un".
Publication DOItreatment_protocol.protocol_core.publication_doicopy (string from protocol_core) The publication digital object identifier (doi) for the protocol. For example "10.1101/193219".
Treatment protocol>provenance (provenance object) Provenance information provided by the system.
Accessiontreatment_protocol.provenance.accessioncopy (string from provenance) A unique accession for this entity, provided by the broker.
Document IDRequiredtreatment_protocol.provenance.document_idcopy (string from provenance) Identifier for document.
Schema major versiontreatment_protocol.provenance.schema_major_versioncopy (integer from provenance) The major version number of the schema. For example "4" or "10".
Schema minor versiontreatment_protocol.provenance.schema_minor_versioncopy (integer from provenance) The minor version number of the schema. For example "6" or "15".
Submission dateRequiredtreatment_protocol.provenance.submission_datecopy (string from provenance) When project was first submitted to database.
Submitter IDtreatment_protocol.provenance.submitter_idcopy (string from provenance) ID of individual who first submitted project.
Update datetreatment_protocol.provenance.update_datecopy (string from provenance) When project was last updated.
Updater IDtreatment_protocol.provenance.updater_idcopy (string from provenance) ID of individual who last updated project.