Extreme Clonality in Lymphoblastoid Cell Lines with Implications for Allele Specific Expression Analyses.
, Article e2966. 10.1371/journal.pone.0002966.
Lymphoblastoid cell lines (LCL) are being actively and extensively used to examine the expression of specific genes and genome-wide expression profiles, including allele specific expression assays. However, it has recently been shown that approximately 10% of human genes exhibit random patterns of monoallelic expression within single clones of LCLs. Consequently allelic imbalance studies could be significantly compromised if bulk populations of donor cells are clonal, or near clonal. Here, using X chromosome inactivation as a readout, we confirm and quantify widespread near monoclonality in two independent sets of cell lines. Consequently, we recommend where possible the use of bulk, non cell line, ex vivo cells for allele specific expression assays.
|Title:||Extreme Clonality in Lymphoblastoid Cell Lines with Implications for Allele Specific Expression Analyses|
|Open access status:||An open access version is available from UCL Discovery|
|Additional information:||© 2008 Plagnol et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. We thank the Juvenile Diabetes Research Foundation, the National Institute for Health Research (NIHR) Cambridge Biomedical Research Centre and the Wellcome Trust for funding. The Cambridge Institute for Medical Research (CIMR) is in receipt of a Wellcome Trust Strategic Award (079895). CW is funded by the British Heart Foundation (FS/05/061/19501). VP is a Juvenile Diabetes Research Foundation postdoctoral fellow. EU and TO are supported by grants from the Scientifical and Technical Research Council of Turkey (TUBITAK-SBAG3334) an International Centre for Genetic Engineering and Biotechnology (ICGEB-CRP/TUR04-01, to TO).|
|UCL classification:||UCL > School of Life and Medical Sciences > Faculty of Life Sciences > Biosciences (Division of) > Genetics, Evolution and Environment > UCL Genetics Institute|
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