FAQ

How can I add studies to AraQTL?
Send an email to araqtl@bioinformatics.nl
Does AraQTL work in all browsers?
In principle it should work on all browsers that support Javascript. We do recommend using Firefox, since AraQTL was extensively tested with that browser.
What are the error and interval size of the eQTLs?
The maps are linked by the physical position of the markers. The exact marker positions can be downloaded from the website. If the confidence intervals (for instance of 2-LOD) of two eQTLs overlap it is likely the same eQTL, especially in the case of cis-eQTLs.

To view all eQTL profiles for a certain gene, type its name or ID in the text box and click the Search button.

To see a cis-trans plot with all eQTL peaks for a certain experiment, click on the experiment name.

You can search with a keyword to find genes and gene ontology (GO) categories.

Select the examples menu to see some example analyses with AraQTL.

Find correlating eQTL profiles

Show all genes for which the eQTL profile correlates with that of the query gene above the set cut-off, in the selected experiment.

Strongly correlating eQTL profiles could indicate that the genes are regulated by the same loci.

Query per locus

Show the eQTL profiles of genes with a LOD score above the threshold at the selected locus in the selected experiment.

A locus can be a marker, a gene name, gene id or a genomic position (i.e. 2:11095452).

What is AraQTL?

AraQTL is the Arabidopsis workbench and database for eQTL analysis.

It allows easy access to the data of all published Arabidopsis thaliana genetical genomics experiments.

A paper describing AraQTL was published in the Plant Journal:
AraQTL - Workbench and Archive for systems genetics in Arabidopsis thaliana

What is an eQTL?

An eQTL is a genetic locus that was shown to affect the expression of the current gene.

eQTLs are the result of combining genomics with genetics, in "genetical genomics" Jansen and Nap Trends in Genetics 17(7):388-91 (2001)