Single-Cell Profiling Identifies Key Pathways Expressed by iPSCs Cultured in Different Commercial Media

Maciej Daniszewski, Quan Nguyen, Hun S. Chy, Vikrant Singh, Duncan E. Crombie, Tejal Kulkarni, Helena H. Liang, Priyadharshini Sivakumaran, Grace E. Lidgerwood, Damián Hernández, Alison Conquest, Louise A. Rooney, Sophie Chevalier, Stacey B. Andersen, Anne Senabouth, James C. Vickers, David A. Mackey, Jamie E. Craig, Andrew L. Laslett, Alex W. HewittJoseph E. Powell, Alice Pébay

Research output: Contribution to journalArticleResearchpeer-review

16 Citations (Scopus)


We assessed the pluripotency of human induced pluripotent stem cells (iPSCs)maintained on an automated platform using StemFlex and TeSR-E8 media. Analysis of transcriptome of single cells revealed similar expression of core pluripotency genes, as well as genes associated with naive and primed states of pluripotency. Analysis of individual cells from four samples consisting of two different iPSC lines each grown in the two culture media revealed a shared subpopulation structure with three main subpopulations different in pluripotency states. By implementing a machine learning approach, we estimated that most cells within each subpopulation are very similar between all four samples. The single-cell RNA sequencing analysis of iPSC lines grown in both media reports the molecular signature in StemFlex medium and how it compares to that observed in the TeSR-E8 medium.

Original languageEnglish
Pages (from-to)30-39
Number of pages10
Publication statusPublished - 28 Sept 2018


  • Automation
  • Stem Cells Research
  • Transcriptomics

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