TableInfo: biosample.tsv - nih-cfde/published-documentation GitHub Wiki
The biosample.tsv table will contain one row for each biosample in your program.
| Field | Field Description | Required? | Field Value Type | Extra Info |
|---|---|---|---|---|
| id_namespace | A CFDE-cleared identifier representing the top-level data space containing this biosample [part 1 of 2-component composite primary key] | Required | string |
id_namespace is a unique URI prefix pre-registered with CFDE and attached to your program (or a subset of your program) that identifies anything labeled with it as belonging to you. Please see the technical documentation for a full discussion of how this information is built and used. |
| local_id | An identifier representing this biosample, unique within this id_namespace [part 2 of 2-component composite primary key] | Required | string | The string formed by concatenating the id_namespace and local_id field values must be unique for each row in this table. Please see the technical documentation for a full discussion of how this information is to be used. |
| project_id_namespace | The id_namespace of the primary project within which this biosample was created [part 1 of 2-component composite foreign key] | Required | string | This will be the value of id_namespace in the row in project.tsv corresponding to the primary project that generated this biosample. If your program has not registered multiple CFDE identifier namespaces, this will be exactly the same value for all rows. |
| project_local_id | The local_id of the primary project within which this biosample was created [part 2 of 2-component composite foreign key] | Required | string | This will be the value of local_id in the row in project.tsv corresponding to the primary project that generated this biosample. |
| persistent_id | A persistent, resolvable (not necessarily retrievable) URI or compact ID permanently attached to this biosample | Optional | string | Meant to serve as a permanent address to which landing pages (which summarize metadata associated with this biosample) and other relevant annotations and functions can optionally be attached. Please see the technical documentation for a full discussion of how this information is to be used. |
| creation_time | An ISO 8601 -; RFC 3339 (subset)-compliant timestamp documenting this biosample's creation time | Optional | (string) YYYY-MM-DDTHH:MM:SS±NN:NN | Examples: 2021-01-08T00:00:00-00:00 ("Jan 8, 2021") 2021-00-00T00:00:00-00:00 ("2021") 2021-01-08T00:45:40-04:00 ("Jan 8, 2021, 12:45:40AM, Zulu minus 4") Please see the technical documentation for a complete treatment. |
| sample_prep_method | An OBI CV term ID (from the "planned process" branch of the vocabulary, excluding the "assay" subtree) describing the preparation method that produced this biosample | Optional | A valid OBI term |
OBI lookup service Example: OBI:0000341
|
| anatomy | An UBERON CV term ID used to locate the origin of this biosample within the physiology of its source or host organism | Optional | A valid UBERON term |
UBERON lookup service Example: UBERON:0006956
|