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.