Characterization of DNA Methylomic Signatures in Induced Pluripotent Stem Cells During Neuronal Differentiation

J. Imm, E. Pishva, M. Ali, T.L. Kerrigan, A. Jeffries, J. Burrage, E. Glaab, E.L. Cope, K.M. Jones, N.D. Allen, K. Lunnon*

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review


In development, differentiation from a pluripotent state results in global epigenetic changes, although the extent to which this occurs in induced pluripotent stem cell-based neuronal models has not been extensively characterized. In the present study, induced pluripotent stem cell colonies (33Qn1 line) were differentiated and collected at four time-points, with DNA methylation assessed using the Illumina Infinium Human Methylation EPIC BeadChip array. Dynamic changes in DNA methylation occurring during differentiation were investigated using a data-driven trajectory inference method. We identified a large number of Bonferroni-significant loci that showed progressive alterations in DNA methylation during neuronal differentiation. A gene-gene interaction network analysis identified 60 densely connected genes that were influential in the differentiation of neurons, with STAT3 being the gene with the highest connectivity.
Original languageEnglish
Article number647981
Number of pages9
JournalFrontiers in Cell and Developmental Biology
Publication statusPublished - 1 Jul 2021


  • aging
  • DNA methylation
  • EPIC array
  • epigenetics
  • epigenome-wide association study
  • induced pluripotent stem cells
  • neuronal differentiation
  • trajectory inference

Cite this