High-resolution DNA analysis of human embryonic stem cell lines reveals culture-induced copy number changes and loss of heterozygosity - Nature Biotechnology

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Authors and Affiliations

1. Turku Centre for Biotechnology, University of Turku and Åbo Akademi University, Turku, Finland

   Elisa Närvä, Reija Autio, Nelly Rahkonen, Omid Rasool & Riitta Lahesmaa

2. Department of Signal Processing, Tampere University of Technology, Tampere, Finland

   Reija Autio, Lingjia Kong & Olli Yli-Harja

3. Centre for Stem Cell Biology and the Department of Biomedical Science, University of Sheffield, Sheffield, UK

   Neil Harrison & Peter W Andrews

4. Stem Cell Technologies Ltd., Jerusalem, Israel

   Danny Kitsberg

5. Institute of Reconstructive Neurobiology, Life & Brain Center, University of Bonn and Hertie Foundation, Bonn, Germany

   Lodovica Borghese & Oliver Brüstle

6. Technion-Israel Institute of Technology and Department of Obstetrics and Gynecology, Faculty of Medicine, Rambam Health Care Campus, Haifa, Israel

   Joseph Itskovitz-Eldor

7. Department of Biology, Masaryk University & Department of Molecular Embryology, Faculty of Medicine, Institute of Experimental Medicine, Academy of Sciences of the Czech Republic, Brno, Czech Republic

   Petr Dvorak

8. Department CLINTEC, Karolinska Institutet, Karolinska University Hospital Huddinge, Stockholm, Sweden

   Outi Hovatta

9. Program of Molecular Neurology, Biomedicum Stem Cell Center, University of Helsinki, Helsinki, Finland

   Timo Otonkoski & Timo Tuuri

10. Children's Hospital, University of Helsinki, Helsinki, Finland

    Timo Otonkoski

11. Institute of Reproductive and Developmental Biology, Faculty of Medicine, Imperial College London, Hammersmith Campus, London, UK

    Wei Cui

12. Sheffield Diagnostic Genetic Services, Sheffield Children's NHS Trust, Sheffield, UK

    Duncan Baker & Edna Maltby

13. Centre for Stem Cell Biology and the Department of Molecular Biology and Biotechnology, University of Sheffield, Sheffield, UK

    Harry D Moore

14. Department of Genetics, Stem Cell Unit, The Institute of Life Sciences, The Hebrew University, Jerusalem, Israel

    Nissim Benvenisty

15. Institute for Systems Biology, Seattle, Washington, USA

    Olli Yli-Harja

Contributions

E.N., R.A., N.B., P.W.A., O.Y.-H. and R.L. designed the experiments, E.N. and R.L. were responsible for the coordination of the project and microarray experiments. R.A., E.N. and O.Y.-H. were responsible for data analysis, integration and statistical analysis. N.R. performed RNA extractions. L.K. built the gene annotation list of genes overlapping CNVs. D.B. performed conventional karyotyping. E.N. and N.R. performed copy-number state validations with RT-PCR. J.I.-E. provided I3 and I6 lines for the study. P.D., O.H., T.O., T.T., N.B., W.C., O.B., E.M., H.D.M., P.W.A., O.Y.-H. and R.L. provided the samples and coordinated the project in their groups. E.N., R.A., N.R., L.K., N.H., D.K., L.B., J.I.-E., O.R., P.D., O.H., T.O., T.T., N.B., W.C., O.B., D.B., E.M., H.D.M., P.W.A., O.Y.-H. and R.L. contributed to writing the paper.

Corresponding authors

Correspondence to Elisa Närvä or Riitta Lahesmaa.

Competing interests

D.K. is affiliated with Stem Cell Technologies, Ltd. (However, the study was not supported by the company.)

Cite this article

Närvä, E., Autio, R., Rahkonen, N. et al. High-resolution DNA analysis of human embryonic stem cell lines reveals culture-induced copy number changes and loss of heterozygosity. Nat Biotechnol 28, 371–377 (2010). https://doi.org/10.1038/nbt.1615

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• Received: 24 June 2009

• Accepted: 16 February 2010

• Published: 28 March 2010

• Issue Date: April 2010

• DOI: https://doi.org/10.1038/nbt.1615