Stemformatics

Stemformatics provides a fast way to find and visualise interesting genes in exemplar stem cell datasets.
Stemformatics revealing data on NANOG
Stemformatics has been developed by Professor Christine Wells and her laboratory as a collaboration between the stem cell and bioinformatics communities. We are motivated by the plethora of exciting cell models in the public and private domains, and the realisation that for many biologists these are not easily accessible. 

All of the data on the Stemformatics site has been hand-picked, curated and checked for experimental reproducibility and design quality, and normalised in-house.

At the heart of Stemformatics lies high-quality gene expression and anotation data of interest to the stem cell biologist that has been designed to be quick and easy to use.

The Stemformatic Workbench allows you to answer the following questions:
  • Where is my gene of interest expressed (YuGene graph)
  • What else behaves like my gene of interest? (Gene Neighbourhood)
  • What are the genes that best discriminate between these cell types? (Comparative Marker Selection)
  • How similar are these samples? (Hierarchical Cluster)
  • What pathways are associated with my gene set? (Annotate a Gene Set)
  • The Rohart review of MSC data and associated classification tool (Rohart MSC test).
These analyses gives the user a basic idea of how their gene(s) of interest are behaving in a particular dataset. Click here for a brief overview of what the Stemformatics Workbench contains.

Stemformatics will continue to add new datasets and analyses that are of interest to the stem cell community.

If you would like to know more, or request a dataset to be uploaded to Stemformatics, please click on http://www.stemformatics.org or email info@stemformatics.org.