StemBase top level page
 

Welcome

Expression Sets
Type Quantity
HG-U133A 123
HG-U133B 115
MG_U74Av2 127
MG_U74Bv2 108
MG_U74Cv2 105
MOE430A 303
MOE430B 300
Mouse430_2 21
RAE230A 9
RAE230B 9
SAGE lib 6
Experiment Stats
Item Quantity
Experiments 62
Samples 217
Replicates 590
Species Stats
Species Samples
Mouse 163
Human 50
Rat 3

Welcome to the StemBase application. This is where experiments can be searched for, browsed, and analyses explored for the Stem Cell Genomics database. Navigate using the menu at the left.

Please cite this paper if you use data from StemBase:

Sandie, R., G. Palidwor, M.R. Huska, C.J. Porter, P.M.Kryzanowski, E.M. Muro, C. Perez-Iratxeta, M.A. Andrade-Navarro. 2009. Recent developments in StemBase: a tool to study gene expression in human and murine stem cells. BMC Research Notes. 2:39. PMID 19284540, Epub

StemBase is also discussed in:

Sandie, R., Porter, C.J., G.A. Palidwor, F. Price, P.M. Krzyzanowski, E.M. Muro, S. Hoersch, M. Smith, P.A. Campbell, C. Perez-Iratxeta, M.A. Rudnicki, M.A. Andrade-Navarro. 2012. Paired SAGE-microarray expression data sets reveal antisense transcripts differentially expressed in embryonic stem cell differentiation. In Computational Biology of Embryonic Stem Cells. M. Zhang (Ed.). Bentham Scientific Publishers. pp. 193-215 doi:10.2174/978160805025311201010193

Perez-Iratxeta, C., G. Palidwor, C.J. Porter, N.A. Sanche, M.R. Huska, B.P. Suomela, E.M. Muro, P. Krzyzanowski, E. Hughes, P.A. Campbell, M.A. Rudnicki and M.A. Andrade. 2005. Study of stem cell function using microarray experiments. FEBS Letters. 579, 1795-1801. PMID: 15763554

Porter, C.J., G.A. Palidwor, R. Sandie, P.M. Krzyzanowski, E.M. Muro, C. Perez-Iratxeta, M.A. Andrade-Navarro. 2007. StemBase: a resource for the analysis of stem cell gene expression data. Methods Mol Biol. 407:137-148. PMID: 18453254

News

Citing StemBase

Please cite this paper if you use data from StemBase:

Perez-Iratxeta, C., G. Palidwor, C.J. Porter, N.A. Sanche, M.R. Huska, B.P. Suomela, E.M. Muro, P. Krzyzanowski, E. Hughes, P.A. Campbell, M.A. Rudnicki and M.A. Andrade. 2005. Study of stem cell function using microarray experiments. FEBS Letters. 579, 1795-1801. PubMed: 15763554

New Correlation Tool Added

A new tool that allows you to correlate probe expression values across a chip is now up and running. Available under the 'Analysis' section.

Search Cell vs Gene now supports Heatmaps

Tables of probe set signal values can be exported as hyperlinked heat maps.