This site interfaces with a database of results from analysis of StemBase Affymetrix Mouse MOE430 microarray data with our marker identification algorithms. The objectives of the algorithms are to identify 1) Which probe sets on the Affymetrix arrays can possibly act as biomarkers (in the context of our database of stem cell related array data), and 2) If the probe sets are acting as markers, which samples are they acting as markers for?
You can search the database for genes/probe sets that are potential markers for various combinations of samples. You can begin from a particular pattern of samples you are interested in (e.g. Can I find markers that are common for mammospheres and hematopoietic cells?), or search by probe sets directly.
Select an option on the left to begin.
At any point, if you see the 
symbol, a help page is available in a pop-up window.
A brief example of usage (Browsing genes of interest)
By using the pattern search you can obtain lists of probes to fit patterns of expression you are interested in. For instance, this group shows probes that are most highly expressed in hematopoietic cells.
Once you are in each group of probe sets, you can click on the 'graph' links to show histograms of the expression levels of each probe. Here, you can see that probe set 1455626_at.A (Homeobox A9) is most highly expressed in group 72, the hematopoietic group linked to above.
Annotation update: March 2009
Probe to gene annotations were updated to reflect annotations in NetAffx Release 27. If multiple gene annotations were available, priority was given to the most verbose available (Using automated ID numbers was avoided, if possible).
Publication
Krzyzanowski PM, Andrade-Navarro MA. Identification of novel stem cell markers using gap analysis of gene expression data. Genome Biology, 2007. (Medline)
Contact Information
Paul Krzyzanowski
Email: 