GDR

Data Template


Template	qtl	download

Headers


Column	Description
* dataset_name	Name of the QTL trait study, the dataset_name should exist in 'dataset_name' column of the 'Dataset' sheet.
* QTL_label	Official unique label of QTL given by the curator. Follow each database's naming convention.
published_symbol	Published Symbol for the QTL.
* genus	The genus of the phenotyping material.
* species	The species of the phenotyping material.
trait_ontology_set	Name of the crop trait ontology (entered by the curator who loads the data into the database). If not provided, the site trait ontology will be used.
* trait_name	Descriptive name for trait, it should be one of the crop trait ontology and should match a term in 'Trait' sheet.
site_name	It should match 'site_name' in the 'Site' sheet.
alias	Other names for the QTL, separated by a semicolon (;) can be added.
R2	Fraction of the total variation explained by the QTLs.
LOD	QTL Likelihood of odds.
bayes_factor	Bayes factor.
additive_effect	The average phenotype effect of substituting a q allele for a Q allele.
dominance_effect	The deviation of the heterozygote phenotype from the mean of the homozygotes.
additivity_dominance_ratio	The average phenotype effect of substituting a q allele for a Q allele dominance effect The deviation of the heterozygote phenotype from the mean of the homozygotes.
direction	The direction of additive effect on the phenotype.
colocalized_marker	Marker locus that are mapped within the interval defined by the QTL. Multiple loci can be added, separated by a semicolon (;).
neighboring_marker	Marker locus that is mapped in the nearest flanking position outside the interval defined by the QTL. Used to estimate QTL position if no appropriate colocalized loci are found. Multiple loci can be added, separated by a semicolon (;).
screening_method	Any specific method for the phenotypic inspection.
comments	Any comments.
mean	Mean value of the phenotype (if one QTL has multiple mean values based on the condition and/or population, enter them in QTL_trait_Data sheet.
p_value	p-value.
kw_score	KW score.
PVE	Phenotypic variance explained.
QTL_intensity	QTL intensity.
variance	variance.
population_low_value	Lowest phenotypic value.
population_high_value	Maximum phenotypic value.
contact	Contact person for the QTL. It should match 'contact_name' in Contact sheet.
image	Image ID of any associated image (Detailed info in 'Image' sheet.) Multiple images, separated by comma, can be added.
* reference	pub ID of the QTL paper.
##property_name	Special columns (##) : followed by name of the custom property.

* Required field

cvterms


cv.name	cvterm.name
MAIN	additive_effect
MAIN	additivity_dominance_ratio
MAIN	alias
MAIN	bayes_factor
MAIN	clone
MAIN	comments
MAIN	direction
MAIN	dominance_effect
MAIN	kw_score
MAIN	lod
MAIN	marker_locus
MAIN	p_value
MAIN	population_high_value
MAIN	population_low_value
MAIN	published_symbol
MAIN	pve
MAIN	qtl_intensity
MAIN	r2
MAIN	screening_method
sequence	genetic_marker
sequence	qtl
relationship	adjacent_to
relationship	located_in

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