A systematic approach to identify candidate transcription factors that control cell identity

Ana C. D'Alessio, Zi Peng Fan, Katherine J. Wert, Petr Baranov, Malkiel A. Cohen, Janmeet S. Saini, Evan Cohick, Carol Charniga, Daniel Dadon, Nancy M. Hannett, Michael J. Young, Sally Temple, Rudolf Jaenisch, Tong Ihn Lee, Richard A. Young

Research output: Contribution to journalArticle

51 Citations (Scopus)

Abstract

Hundreds of transcription factors (TFs) are expressed in each cell type, but cell identity can be induced through the activity of just a small number of core TFs. Systematic identification of these core TFs for a wide variety of cell types is currently lacking and would establish a foundation for understanding the transcriptional control of cell identity in development, disease, and cell-based therapy. Here, we describe a computational approach that generates an atlas of candidate core TFs for a broad spectrum of human cells. The potential impact of the atlas was demonstrated via cellular reprogramming efforts where candidate core TFs proved capable of converting human fibroblasts to retinal pigment epithelial-like cells. These results suggest that candidate core TFs from the atlas will prove a useful starting point for studying transcriptional control of cell identity and reprogramming in many human cell types.

Original languageEnglish (US)
Pages (from-to)763-775
Number of pages13
JournalStem Cell Reports
Volume5
Issue number5
DOIs
StatePublished - Nov 10 2015
Externally publishedYes

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Transcription Factors
Atlases
Cells
Retinal Pigments
Fibroblasts
Cell- and Tissue-Based Therapy
Epithelial Cells
Cellular Reprogramming

ASJC Scopus subject areas

  • Biochemistry
  • Genetics
  • Developmental Biology
  • Cell Biology

Cite this

D'Alessio, A. C., Fan, Z. P., Wert, K. J., Baranov, P., Cohen, M. A., Saini, J. S., ... Young, R. A. (2015). A systematic approach to identify candidate transcription factors that control cell identity. Stem Cell Reports, 5(5), 763-775. https://doi.org/10.1016/j.stemcr.2015.09.016

A systematic approach to identify candidate transcription factors that control cell identity. / D'Alessio, Ana C.; Fan, Zi Peng; Wert, Katherine J.; Baranov, Petr; Cohen, Malkiel A.; Saini, Janmeet S.; Cohick, Evan; Charniga, Carol; Dadon, Daniel; Hannett, Nancy M.; Young, Michael J.; Temple, Sally; Jaenisch, Rudolf; Lee, Tong Ihn; Young, Richard A.

In: Stem Cell Reports, Vol. 5, No. 5, 10.11.2015, p. 763-775.

Research output: Contribution to journalArticle

D'Alessio, AC, Fan, ZP, Wert, KJ, Baranov, P, Cohen, MA, Saini, JS, Cohick, E, Charniga, C, Dadon, D, Hannett, NM, Young, MJ, Temple, S, Jaenisch, R, Lee, TI & Young, RA 2015, 'A systematic approach to identify candidate transcription factors that control cell identity', Stem Cell Reports, vol. 5, no. 5, pp. 763-775. https://doi.org/10.1016/j.stemcr.2015.09.016
D'Alessio, Ana C. ; Fan, Zi Peng ; Wert, Katherine J. ; Baranov, Petr ; Cohen, Malkiel A. ; Saini, Janmeet S. ; Cohick, Evan ; Charniga, Carol ; Dadon, Daniel ; Hannett, Nancy M. ; Young, Michael J. ; Temple, Sally ; Jaenisch, Rudolf ; Lee, Tong Ihn ; Young, Richard A. / A systematic approach to identify candidate transcription factors that control cell identity. In: Stem Cell Reports. 2015 ; Vol. 5, No. 5. pp. 763-775.
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