Slot: organism count qPCR information (org_count_qpcr_info)

If qpcr was used for the cell count, the target gene name, the primer sequence and the cycling conditions should also be provided. (Example: 16S rrna; FWD:ACGTAGCTATGACGT REV:GTGCTAGTCGAGTAC; initial denaturation:90C_5min; denaturation:90C_2min; annealing:52C_30 sec; elongation:72C_30 sec; 90 C for 1 min; final elongation:72C_5min; 30 cycles)

URI: MIXS:0000099

Inheritance

core_field
- org_count_qpcr_info

Applicable Classes

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

Properties

Range: String

Examples

Value

Identifier and Mapping Information

Annotations

property	value
expected_value	gene name;FWD:forward primer sequence;REV:reverse primer sequence;initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles

Schema Source

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

Mappings

Mapping Type	Mapped Value
self	MIXS:0000099

LinkML Source

name: org_count_qpcr_info
annotations:
  expected_value:
    tag: expected_value
    value: gene name;FWD:forward primer sequence;REV:reverse primer sequence;initial
      denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final
      elongation:degrees_minutes; total cycles
  preferred_unit:
    tag: preferred_unit
    value: number of cells per gram (or ml or cm^2)
  occurrence:
    tag: occurrence
    value: '1'
description: 'If qpcr was used for the cell count, the target gene name, the primer
  sequence and the cycling conditions should also be provided. (Example: 16S rrna;
  FWD:ACGTAGCTATGACGT REV:GTGCTAGTCGAGTAC; initial denaturation:90C_5min; denaturation:90C_2min;
  annealing:52C_30 sec; elongation:72C_30 sec; 90 C for 1 min; final elongation:72C_5min;
  30 cycles)'
title: organism count qPCR information
examples:
- value: ''
from_schema: https://w3id.org/nmdc/nmdc
rank: 1000
is_a: core field
string_serialization: '{text};FWD:{dna};REV:{dna};initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final
  elongation:degrees_minutes; total cycles'
slot_uri: MIXS:0000099
alias: org_count_qpcr_info
domain_of:
- Biosample
range: string
multivalued: false