Molecular Analyses of Human Induced Pluripotent Stem Cells and Embryonic Stem Cells

Recent work from our group and others has argued that human induced pluripotent stem cells (hiPSCs) generated by the introduction of four viruses bearing reprogramming factors differ from human embryonic stem cells (hESCs) at the level of gene expression (Chin et al., 2009). Many of the differences...

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Bibliographic Details
Published inCell stem cell Vol. 7; no. 2; pp. 263 - 269
Main Authors Chin, Mark H., Pellegrini, Matteo, Plath, Kathrin, Lowry, William E.
Format Journal Article
LanguageEnglish
Published Cambridge, MA Elsevier Inc 06.08.2010
Cell Press
Subjects
Bayes Theorem
Biological and medical sciences
Cell differentiation, maturation, development, hematopoiesis
Cell physiology
Embryonic Stem Cells - metabolism
Fundamental and applied biological sciences. Psychology
Gene Expression Profiling
Gene Expression Regulation, Developmental
Humans
Induced Pluripotent Stem Cells - metabolism
Laboratories
Molecular and cellular biology
STEMCELL
STEMCELL
Human
Induced pluripotent stem cell
Embryonic cell
Stem cell
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Summary:Recent work from our group and others has argued that human induced pluripotent stem cells (hiPSCs) generated by the introduction of four viruses bearing reprogramming factors differ from human embryonic stem cells (hESCs) at the level of gene expression (Chin et al., 2009). Many of the differences seen were common across independent labs and, at least to some extent, are thought to be a result of residual expression of donor cell-specific genes (Chin et al., 2009; Ghosh et al., 2010; Marchetto et al., 2009). Two new reports reanalyze similar expression data sets as those used in Chin et al. (2009) and come to different conclusions (Newman and Cooper, 2010; Guenther et al., 2010). We compare various approaches to perform gene expression meta-analysis that all support our original conclusions and present new data to demonstrate that polycistronic delivery of the reprogramming factors and extended culture brings hiPSCs transcriptionally closer to hESCs. ► Original study controlled for lab-specific variation ► Reanalysis of gene expression data sets confirms ESC versus iPSC differences ► Data from additional lines confirm previous findings ► Call for community discussion of “best practice” for expression data meta-analysis
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ISSN:1934-5909
1875-9777
DOI:10.1016/j.stem.2010.06.019