Array design
Choose your array design (microarray platform, slide) from the dropdown list.
Examples: Barley1, ATH1, 57K Rice GeneChip, etc.
Experiment description
Describe your experiment in the text box provided. Clearly state the goal of the experiment and briefly describe the treatment structure. Relate the treatment structure to the experiment goal and to the plant samples.
The reader should get a very clear picture of your experiment from this
description and be able to unambiguously relate all other items to this
description.
This is the appropriate place to place/explain items that do not fit anywhere else on the form (e.g., acknowledgement to the funding agency). Some users give the general description of treatment conditions, growth and environment in this section and describe/mention the 'specific variation' in the appropriate samples and treatments.
Experiment name
Provide a unique name that describes your experiment submission and help you
differentiate it from others.
Examples: "Long-term Salt & Water Stess in Grapes";
"Response to Erysiphe orontii infection, time course experiment";
"Expression analysis of Arabidopsis suspension cells during sucrose
starvation";
"Transcription patterns during barley development"; etc.
It pays to have a concise and self explanatory title: Many database users
take cues from this title to decide if they want to look further into your
experiment.
The Experiment name will be used for tracking your submission.
In case of a problem or a need to contact us during submission, please
reference the Experiment name and your name in the e-mail.
Experiment type
Experiment type is a controlled vocabulary that helps classify the experiment.
A drop down list of experiment types is provided. Select one or more of
these items to describe your experiment.
Examples: "Treated vs. untreated comparison"; "Resistant vs. susceptible";
"mutant vs. wildtype"; "time course"; "effect of gene knock-out", etc.
You are free to choose multiple types as along as they relate to the category
of your experiemnt. Database users can then easily find your experiment
under different classifications.
If your experiment type is not on the list, please specify a description in
the text box provided. The curator may add the new type to the list. We may contact you for further information.
Experiment visibility
PLEXdb is committed to making microarray data publicly available to researchers world-wide. The default assumption is that all submissions to PLEXdb are public unless you advise us otherwise during the submission process.
Experiment visibility is used to determine who can view your experiment after submission. If you are not making your experiment 'public' immediately, you may define it as 'group consortium' during submission and select 'user groups' you would grant access to your data. You may also submit it as 'private', and later on create group(s) for users who can access your submission.
Make visible to reviewers
If you check the box labeled "Make your experiment visible to reviewers", you will receive an e-mail containing an access code that you can send to reviewers so that they can see your experiment information and data.
Submit to GEO
If you check the box labeled "Submit to GEO", PLEXdb will submit your experiment to GEO for you, once the experiment is made public.
Quality control description
Describe other quality control steps taken in the text box provided.
Examples: "Quality of each mRNA preparation checked to be good before use", " Six seedlings were used for treatment and subsequent RNA isolation...", "biological replicates", etc.
Type of replicates
Select one or both of 'biological replicate', 'technical replicate'.
Experimenter
Provide requested information about the experimenter (who may not be the same person as the one submitting the experiment).