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TECHNOLOGY DEVELOPMENT

High-Throughput Screening of Gene Function in Stem Cells Using Clonal Microarrays

^aThe Howard P. Isermann Department of Chemical and Biological Engineering, Rensselaer Polytechnic Institute, Troy, New York, USA;
^bDepartment of Chemical Engineering and the Helen Wills Neuroscience Institute, University of California Berkeley, Berkeley, California, USA;
^cCenter for Neuropharmacology and Neuroscience, Albany Medical College, Albany, New York, USA

Key Words. Sox2 transcription factor • Akt1 • Neural progenitor cells • Soft lithography

Correspondence: Ravi S. Kane, Ph.D., The Howard P. Isermann Department of Chemical and Biological Engineering, Rensselaer Polytechnic Institute, Troy, New York 12180, USA. Telephone: (518) 276-2536; Fax: (518) 276-4030; e-mail: kaner{at}rpi.edu; or David V. Schaffer, Ph.D., Department of Chemical Engineering and the Helen Wills Neuroscience Institute, University of California Berkeley, Berkeley, California 94720, USA. Telephone: (510) 643-5963; Fax: (510) 642-4778; e-mail: schaffer{at}berkeley.edu

Received June 14, 2007; accepted for publication July 23, 2007.
First published online in STEM CELLS EXPRESS   August 2, 2007.



We describe a microarray-based approach for the high-throughput screening of gene function in stem cells and demonstrate the potential of this method by growing and isolating clonal populations of both adult and embryonic neural stem cells. Clonal microarrays are constructed by seeding a population of cells at clonal density on micropatterned surfaces generated using soft lithographic microfabrication techniques. Clones of interest can be isolated after assaying in parallel for various cellular processes and functions, including proliferation, signal transduction, and differentiation. We demonstrate the compatibility of the technique with both gain- and loss-of-function studies using cell populations infected with cDNA libraries or DNA constructs that induce RNA interference. The infection of cells with a library prior to seeding and the compact but isolated growth of clonal cell populations will facilitate the screening of large libraries in a wide variety of mammalian cells, including those that are difficult to transfect by conventional methods.

Disclosure of potential conflicts of interest is found at the end of this article.