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NIA uses Genomatix in stem cell research, suggests novel transcription factors for stemness

Linkage of pluripotent stem cell-associated transcripts to regulatory gene networks

Genomatix Software GmbH

Genomatix Software with businesses in Munich, Germany and Ann Arbor, Michigan released today that the group of Kenneth R. Boheler at the National Institute on Aging, National Institutes of Health, Baltimore, Md published some remarkable work on embryonic stem (ES) cells.

In their work they first identified and validated ES cell predominant transcripts by SAGE and qRT-PCR methods. Then they employed extensive DNA promoter analysis based on the integrated Genomatix system in order to identify conserved cis-elements and putative trans-regulators. Framework analysis for promoter organization, as introduced by Genomatix, increased likeliness for functional significance of the candidate transcription factors. Predictions were experimentally verified by Chromosomal Immunoprecipitation assays.

The study led to the novel identification of two transcription factors, B-Myb and Maz which are implicated either in the maintenance of the undifferentiated stem cell state or in early steps of differentiation.


The work is e-published ahead of print on Feb. 27, 2008 in "Cells Tissues Organs" DOI: 10.1159/000118787 , PMID: 18303244

Linkage of Pluripotent Stem Cell- Associated Transcripts to Regulatory Gene Networks
Kirill V. Tarasov, Gianluca Testa, Yelena S. Tarasova, Gabriela Kania, Daniel R. Riordon, Maria Volkova, Sergey V. Anisimov, Anna M. Wobus, Kenneth R. Boheler.

Genomatix Software GmbH is a Systems Biology company focused on high quality annotation and the understanding of eukaryotic gene regulation,

Core competences at Genomatix are annotation driven microarray analysis, ChIP on chip, next generation sequencing data analysis, regulatory network/pathway mining, and promoter analysis. Genomatix has published more than 170 peer reviewed scientific papers that have been cited in more than 4,000 papers. Over 35,000 researchers worldwide currently apply Genomatix tools and databases.

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