Regulatory networks define phenotypic classes of human stem cell lines

Franz-Josef Müller (), Louise C. Laurent, Dennis Kostka, Igor Ulitsky, Roy Williams, Christina Lu, In-Hyun Park, Mahendra S. Rao, Ron Shamir, Philip H. Schwartz, Nils O. Schmidt and Jeanne F. Loring ()
Additional contact information
Franz-Josef Müller: Center for Regenerative Medicine, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
Louise C. Laurent: Center for Regenerative Medicine, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
Dennis Kostka: Max Planck Institute for Molecular Genetics, Ihnestrasse 63-73, D-14195 Berlin, Germany
Igor Ulitsky: School of Computer Science, Tel Aviv University
Roy Williams: The Burnham Institute for Medical Research, 10901 North Torrey Pines Road, La Jolla, California 92037, USA
Christina Lu: Center for Regenerative Medicine, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
In-Hyun Park: Children’s Hospital Boston and Dana Farber Cancer Institute, Boston, Massachusetts 02115, USA
Mahendra S. Rao: Invitrogen Co, 3705 Executive Way, Frederick, Maryland 21704, USA
Ron Shamir: School of Computer Science, Tel Aviv University
Philip H. Schwartz: Center for Neuroscience Research, Children’s Hospital of Orange County Research Institute, 455 South Main Street, Orange, California 92868, USA
Nils O. Schmidt: Martinistrasse 52, D-20246 Hamburg, Germany
Jeanne F. Loring: Center for Regenerative Medicine, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, USA

Nature, 2008, vol. 455, issue 7211, 401-405

Abstract: Human stem cells: surfing the PluriNet Hundreds of different human cell lines are grouped under the catch-all term 'stem cells'. They can be from embryos, fetuses or adults. And they can be pluripotent — able to produce a broad range of cells — or fated to produce a limited repertoire of cell types. Müller et al. set out to establish a 'stem cell diagnostic' to bring order to the characterization and classification of human stem cells, based on a database of transcriptional profiles derived from more than 150 cell samples. Bioinformatic analyses revealed that pluripotent stem cell lines share many properties and all possess a characteristic protein–protein network, dubbed 'PluriNet'. Other cell types, including brain-derived neural stem cell lines, are much more diverse. These results offer a new strategy for classifying stem cells and support the idea that pluripotency and self-renewal are under tight control by specific molecular networks.

Date: 2008
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DOI: 10.1038/nature07213

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