Slot: sample collection device (samp_collec_device)

The device used to collect an environmental sample. Recommended values are subclasses of specimen collection device (http://purl.obolibrary.org/obo/OBI_0002814). OBI itself contains only swab/wipe subclasses; environmental sampling devices (corers, grab samplers, passive samplers, etc.) are defined in GENEPIO under the same OBI:0002814 parent. Free-text values are accepted for backward compatibility; new submissions should prefer the form: label [PREFIX:LOCALID].

URI: MIXS:0000002

Applicable Classes

Name	Description	Modifies Slot
Biosample	Biological source material which can be characterized by an experiment	no

Properties

Range: String
Regex pattern: ^([^\[\]]+|.+ \[[A-Za-z][A-Za-z0-9_]*:[A-Za-z0-9_]+\])$

Examples

Value
specimen collection swab stick [OBI:0002820]
PONAR grab sampler [GENEPIO:0100929]
trowel

Comments

GENEPIO's subtree of OBI:0002814 includes grouping classes such as GENEPIO:0100941 (grab sampling device), GENEPIO:0100942 (composite sampling device), GENEPIO:0100943 (core sampling device), and GENEPIO:0100948 (passive sampling device).
ENVO has no device classes; do not use ENVO terms here.
Existing NMDC biosamples populate this slot with free text (e.g., "corer", "Van Dorn"). New submissions are encouraged to use the form: label [PREFIX:LOCALID].

Identifier and Mapping Information

Schema Source

from schema: https://w3id.org/nmdc/nmdc

Mappings

Mapping Type	Mapped Value
self	MIXS:0000002

LinkML Source

name: samp_collec_device
description: 'The device used to collect an environmental sample. Recommended values
  are subclasses of specimen collection device (http://purl.obolibrary.org/obo/OBI_0002814).
  OBI itself contains only swab/wipe subclasses; environmental sampling devices (corers,
  grab samplers, passive samplers, etc.) are defined in GENEPIO under the same OBI:0002814
  parent. Free-text values are accepted for backward compatibility; new submissions
  should prefer the form: label [PREFIX:LOCALID].'
title: sample collection device
comments:
- GENEPIO's subtree of OBI:0002814 includes grouping classes such as GENEPIO:0100941
  (grab sampling device), GENEPIO:0100942 (composite sampling device), GENEPIO:0100943
  (core sampling device), and GENEPIO:0100948 (passive sampling device).
- ENVO has no device classes; do not use ENVO terms here.
- 'Existing NMDC biosamples populate this slot with free text (e.g., "corer", "Van
  Dorn"). New submissions are encouraged to use the form: label [PREFIX:LOCALID].'
examples:
- value: specimen collection swab stick [OBI:0002820]
- value: PONAR grab sampler [GENEPIO:0100929]
- value: trowel
from_schema: https://w3id.org/nmdc/nmdc
rank: 1000
keywords:
- device
- sample
slot_uri: MIXS:0000002
alias: samp_collec_device
domain_of:
- Biosample
range: string
pattern: ^([^\[\]]+|.+ \[[A-Za-z][A-Za-z0-9_]*:[A-Za-z0-9_]+\])$