source

No description specified

Attributes

Name	Type	Description	PID	ISA Tag	Unit
Source Name*	String	Sources are considered as the starting biological material used in a study.	-	source	-
country*	Controlled Vocabulary - country	The geographical origin of the sample as defined by the country or sea. Country or sea names should be chosen from the INSDC country list (http://insdc.org/country.html).	-	source_characteristic	-
taxon_id*	Integer	NCBI Taxonomy Identifier number ID. This is appropriate for individual organisms and some environmental samples.	-	source_characteristic	-
species_name	String	Scientific Latin name of the species, excluding the names of people who gave the name to the species.	-	source_characteristic	-
latitude	String	The geographical origin of the sample as defined by latitude.	-	source_characteristic	-
longitude	String	The geographical origin of the sample as defined by longitude.	-	source_characteristic	-
altitude	String	Altitude of the sample origin location, provided in metres (m). Can be found at https://en-gb.topographic-map.com/	-	source_characteristic	-
age	Real number	Age of the plant from the start of germination in days. Age of subject at the time of sample collection.	-	source_characteristic	-
genotype	String	Name or code for genotype of plant in a genebank.	-	source_characteristic	-
genebank	String	Name of the genebank.	-	source_characteristic	-
ecotype	String	A population within a given species displaying genetically based, phenotypic traits that reflect adaptation to a local habitat.	-	source_characteristic	-
cultivar	String	Cultivar (cultivated variety) of plant from which sample was obtained.	-	source_characteristic	-
sex	String	Sex of the plant under study.	-	source_characteristic	-
seed_batch_id	String	ID of the seed batch often used for crop plants, where genotyping is not feasible for research purposes; one genotypem might have multiple seed batch IDs.	-	source_characteristic	-
growth_conditions	String	Description of growth conditions before the treatment.	-	source_characteristic	-
growth_facility	String	Type of facility where the sampled plant was grown.	-	source_characteristic	-
growth_medium	String	Substrate on which the plants are grown, before the treatment	-	source_characteristic	-
growth_light_regimen	String	Information about treatment involving an exposure to light, this includes both light intensity and quality. Photoperiod day/night in hours, before the treatment	-	source_characteristic	-
growth_temperature_day	Real number	Growth temperature during the light phase, before the treatment; in degrees Celsius	-	source_characteristic	-
growth_temperature_night	Real number	Growth temperature during the dark phase, before the treatment; in degrees Celsius	-	source_characteristic	-
growth_light_intensity	Real number	Approximate light intensity, before the treatment; in micromol/sec/m2	-	source_characteristic	-
growth_light_rfr_ratio	String	Ratio of red and far red irradiation in the light spectrum, before the treatment	-	source_characteristic	-
treatment	String	Short description of treatment	-	source_characteristic	-
treatment_ontology	String	Ontology term for treatment as deposited on Planteome	-	source_characteristic	-
treatment_growth_medium	String	Substrate on which the plants are grown during the treatment	-	source_characteristic	-
treatment_light_regimen	String	Photoperiod day/night in hours during the treatment (day_night)	-	source_characteristic	-
treatment_temperature_day	Real number	Growth temperature during the light phase during the treatment; in degrees Celsius	-	source_characteristic	-
treatment_temperature_night	Real number	Growth temperature during the dark phase during the treatment; in degrees Celsius	-	source_characteristic	-
treatment_light_intensity	Real number	Approximate light intensity, duirng the treatment; in micromol/sec/m2	-	source_characteristic	-
treatment_light_rfr_ratio	String	Ratio of red and far red irradiation in the light spectrum during the treatment	-	source_characteristic	-
treatment_time_duration	String	Time of treatment (use 'minute', 'hour', 'day' as singular, not plural)	-	source_characteristic	-
treatment_time_of_day	String	Time of treatment of day. Use either Zeitgeber time or local time.	-	source_characteristic	-
treatment_chemical	String	Description of the chemical treatment	-	source_characteristic	-
treatment_chemical_cas_id	String	CAS ID for the chemical	-	source_characteristic	-
experimental_group	Controlled Vocabulary - experimental_group	Short description of the sample type in the experimental design (control, treatment, mock)	-	source_characteristic	-

Name

Type

Description

PID

ISA Tag

Unit

Source Name*

String

Sources are considered as the starting biological material used in a study.

source

country*

Controlled Vocabulary - country

The geographical origin of the sample as defined by the country or sea. Country or sea names should be chosen from the INSDC country list (http://insdc.org/country.html).

source_characteristic

taxon_id*

Integer

NCBI Taxonomy Identifier number ID. This is appropriate for individual organisms and some environmental samples.

source_characteristic

species_name

String

Scientific Latin name of the species, excluding the names of people who gave the name to the species.

source_characteristic

latitude

String

The geographical origin of the sample as defined by latitude.

source_characteristic

longitude

String

The geographical origin of the sample as defined by longitude.

source_characteristic

altitude

String

Altitude of the sample origin location, provided in metres (m). Can be found at https://en-gb.topographic-map.com/

source_characteristic

age

Real number

Age of the plant from the start of germination in days. Age of subject at the time of sample collection.

source_characteristic

genotype

String

Name or code for genotype of plant in a genebank.

source_characteristic

genebank

String

Name of the genebank.

source_characteristic

ecotype

String

A population within a given species displaying genetically based, phenotypic traits that reflect adaptation to a local habitat.

source_characteristic

cultivar

String

Cultivar (cultivated variety) of plant from which sample was obtained.

source_characteristic

sex

String

Sex of the plant under study.

source_characteristic

seed_batch_id

String

ID of the seed batch often used for crop plants, where genotyping is not feasible for research purposes; one genotypem might have multiple seed batch IDs.

source_characteristic

growth_conditions

String

Description of growth conditions before the treatment.

source_characteristic

growth_facility

String

Type of facility where the sampled plant was grown.

source_characteristic

growth_medium

String

Substrate on which the plants are grown, before the treatment

source_characteristic

growth_light_regimen

String

Information about treatment involving an exposure to light, this includes both light intensity and quality. Photoperiod day/night in hours, before the treatment

source_characteristic

growth_temperature_day

Real number

Growth temperature during the light phase, before the treatment; in degrees Celsius

source_characteristic

growth_temperature_night

Real number

Growth temperature during the dark phase, before the treatment; in degrees Celsius

source_characteristic

growth_light_intensity

Real number

Approximate light intensity, before the treatment; in micromol/sec/m2

source_characteristic

growth_light_rfr_ratio

String

Ratio of red and far red irradiation in the light spectrum, before the treatment

source_characteristic

treatment

String

Short description of treatment

source_characteristic

treatment_ontology

String

Ontology term for treatment as deposited on Planteome

source_characteristic

treatment_growth_medium

String

Substrate on which the plants are grown during the treatment

source_characteristic

treatment_light_regimen

String

Photoperiod day/night in hours during the treatment (day_night)

source_characteristic

treatment_temperature_day

Real number

Growth temperature during the light phase during the treatment; in degrees Celsius

source_characteristic

treatment_temperature_night

Real number

Growth temperature during the dark phase during the treatment; in degrees Celsius

source_characteristic

treatment_light_intensity

Real number

Approximate light intensity, duirng the treatment; in micromol/sec/m2

source_characteristic

treatment_light_rfr_ratio

String

Ratio of red and far red irradiation in the light spectrum during the treatment

source_characteristic

treatment_time_duration

String

Time of treatment (use 'minute', 'hour', 'day' as singular, not plural)

source_characteristic

treatment_time_of_day

String

Time of treatment of day. Use either Zeitgeber time or local time.

source_characteristic

treatment_chemical

String

Description of the chemical treatment

source_characteristic

treatment_chemical_cas_id

String

CAS ID for the chemical

source_characteristic

experimental_group

Controlled Vocabulary - experimental_group

Short description of the sample type in the experimental design (control, treatment, mock)

source_characteristic

source

Attributes

Related items