NASCArrays: Experiment Browse

Welcome to NASCArrays.

NASCArrays is the Nottingham Arabidopsis Stock Centre's microarray database. The database contains a wide selection of microarray data from Affymetrix genechips. Currently most of the data is for Arabidopsis thaliana experiments run by the NASC Affymetrix Facility. There are also experiments from other species, and experiments run by other centres too.

News

  • 3rd August 2004: Some file formats have changed. If you have scripts that parse files generated by this website, then you may need to edit them
  • 12th July 2004: Website rewritten to be faster and more stable. Integration with Ensembl.
  • 11th September 2003: Minor updates to website: Help now more helpful. Tutorial added. Various bugfixes. Super bulk download added. Spot history now works on Macintosh
  • 17th June 2003: New website released! There are now many more features!

To navigate around this website, use the orange menus at the top of every page. "start again" will always bring you back to this page. To get the most out of this website, why not follow the tutorial (available from the "tutorial" link at the top of this page). Full documentation for all of the features on the website is available from the "help" section.

If you want to get large amounts of data from the database, you need AffyWatch! Affywatch is a CD subscription service, that for £50 will allow you quick access to all of the data on this website. Click here for more information.

For more information on NASC's Affymetrix service, you can visit our Affymetrix site by choosing Affymetrix site from the orange menu at the top, or by using Help.

There are three main ways into the data:

1) Search

Experiment Search

You can search for keywords to help you identify experiments you might be interested in.

Search for:

Hints

  • Type in as many words as you like
  • Type in words that you think are likely to be specific to what you are looking for rather than used a lot
  • Consider words as "keywords" not phrases.

Slide Search

This search allows you to search for slides that match your criteria. Type in terms you wish to search for, and the fields you wish to search for them in, below.

  contains
AND contains
AND contains
AND contains
AND contains

2) Use a data-mining tool

There are currently four data mining tools available. All of these tools allow you to type in a gene(s) of interest, and identify experiments or slides that you might be interested in. Click on the links to use.

  • Spot History: This tool allows you to see the pattern of gene expression over all slides in the database. Easily identify slides (and therefore experimental treatments) where genes are highly, lowly, or unusually expressed
  • Two gene scatter plot: This tool allows you to see the pattern of gene expression over all slides for two genes as a scatter plot. If you are interested in two genes, you can find out if they act in tandem, and highlight slides (and therefore experimental conditions) where these two genes behave in an unusual manner.
  • Gene Swinger: If you have a gene of interest, this tool will show you which experiment the gene expression varied most
  • Bulk Gene Download: This tool allows you to download the expression of a list of genes over all experiments

3) Treeview

The treeview allows you to browse the list of experiments. We have categorised all the experiments using various criteria.

To work the treeview, click on the categories. The branches below will expand, showing you all of the experiments in that category. To visit an experiment you are interested in, click on the link and you will be taken to a page about that experiment. One experiment can appear under more than one branch of the tree.

This page has recently changed. If you would like to look at the old index page, click here,