Pioneer transcription factors in cell reprogramming

Biochemical and genomic studies have shown that transcription factors with the highest reprogramming activity often have the special ability to engage their target sites on nucleosomal DNA, thus behaving as “pioneer factors” to initiate events in closed chromatin. This review by Iwafuchi-Doi and Zaret focuses on the most recent studies of pioneer factors in cell programming and reprogramming, how pioneer factors have special chromatin-binding properties, and facilitators and impediments to chromatin binding.

• Publication year

  2014

• Venue

  Genes & Development

• Publication date

  2014-12-15

• Fields of study

  Biology, Medicine

• Identifiers
  DOI 10.1101/gad.253443.114PMID 25512556PMCID 4265672
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

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  2014cited by this paper
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  2014cited by this paper
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  2014cited by this paper
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• SOX2 controls tumour initiation and cancer stem-cell functions in squamous-cell carcinoma

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  2014influential reference
• Genome reactivation after the silence in mitosis: recapitulating mechanisms of development?

  2014cited by this paper
• Single-molecule dynamics of enhanceosome assembly in embryonic stem cells.

  2014cited by this paper
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  2014cited by this paper
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• Looping back to leap forward: transcription enters a new era.

  2014cited by this paper
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  2014influential reference
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  2014cited by this paper
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  2013cited by this paper
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  2013cited by this paper
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  2013influential reference
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  2013cited by this paper
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  2013influential reference
• Nanog, Pou5f1 and SoxB1 activate zygotic gene expression during the maternal-to-zygotic transition

  2013cited by this paper
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  2013cited by this paper
• Nucleosome-driven transcription factor binding and gene regulation.

  2013cited by this paper
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  2013cited by this paper
• Organization of the Mitotic Chromosome

  2013cited by this paper
• Pioneer factors in hormone-dependent cancers

  2012cited by this paper
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  2012cited by this paper
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  2012influential reference
• The accessible chromatin landscape of the human genome

  2012cited by this paper
• The selector gene Pax7 dictates alternate pituitary cell fates through its pioneer action on chromatin remodeling.

  2012influential reference
• Genome-wide nucleosome positioning during embryonic stem cell development

  2012cited by this paper
• Genome-wide roles of Foxa2 in directing liver specification.

  2012cited by this paper
• Controls of Nucleosome Positioning in the Human Genome

  2012cited by this paper
• Tissue-specific mitotic bookmarking by hematopoietic transcription factor GATA1.

  2012influential reference
• Single-cell expression analyses during cellular reprogramming reveal an early stochastic and a late hierarchic phase.

  2012cited by this paper
• Facilitators and impediments of the pluripotency reprogramming factors' initial engagement with the genome.

  2012influential reference
• Foxa2 and H2A.Z mediate nucleosome depletion during embryonic stem cell differentiation.

  2012cited by this paper
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  2011cited by this paper
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  2011cited by this paper
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  2011influential reference
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  2011cited by this paper
• Determinants of nucleosome organization in primary human cells

  2011cited by this paper
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  2011cited by this paper
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  2011cited by this paper
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  2011influential reference
• Direct conversion of mouse fibroblasts to hepatocyte-like cells by defined factors

  2011cited by this paper
• Epigenetic switch involved in activation of pioneer factor FOXA1-dependent enhancers.

  2011cited by this paper
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  2011cited by this paper
• Pioneer transcription factors: establishing competence for gene expression.

  2011cited by this paper
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  2011cited by this paper
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  2011cited by this paper
• Tbx3 improves the germ-line competency of induced pluripotent stem cells

  2010influential reference
• Direct conversion of fibroblasts to functional neurons by defined factors

  2010cited by this paper
• Comprehensive analysis of the chromatin landscape in Drosophila

  2010cited by this paper
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  2010influential reference
• Direct reprogramming of fibroblasts into functional cardiomyocytes by defined factors.

  2010cited by this paper
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  2010cited by this paper
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  2010cited by this paper
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  2010influential reference
• Foxa1 Functions as a Pioneer Transcription Factor at Transposable Elements to Activate Afp during Differentiation of Embryonic Stem Cells*

  2010cited by this paper
• p53 binds preferentially to genomic regions with high DNA-encoded nucleosome occupancy.

  2010cited by this paper
• Surprising new roles for PU.1 in the adaptive immune response

  2010cited by this paper
• Mitotic bookmarking of genes: a novel dimension to epigenetic control

  2010cited by this paper
• Foxa1 and Foxa2 regulate bile duct development in mice.

  2010cited by this paper
• Epigenetic reprogramming and induced pluripotency

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• The maternal-to-zygotic transition: a play in two acts

  2009cited by this paper
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  2009cited by this paper
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  2009cited by this paper
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  2009cited by this paper
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  2009influential reference
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  2008cited by this paper
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  2008cited by this paper
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  2008cited by this paper
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  2008cited by this paper
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  2008cited by this paper
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  2007cited by this paper
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  2007cited by this paper
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  2006cited by this paper
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  2006cited by this paper
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  2005cited by this paper
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  2004cited by this paper
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  2003cited by this paper
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  2003cited by this paper
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  2002influential reference
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  2002cited by this paper

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  2026cites this paper
• Pioneer-factor activity requires stable chromatin occupancy mediated by both sequence-specific binding and disordered protein domains

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• Deciphering Sequence Determinants of Zygotic Genome Activation Genes: Insights From Machine Learning and the ZGAExplorer Platform

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• A FOXA1/SPDEF Co-regulatory Axis Drives ERBB2 and Suppresses TEAD/YAP-Driven EMT to Maintain Luminal Identity in HER2+ Breast Cancer

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• Feed-forward loops by NR5A2 ensure robust gene activation during pre-implantation development

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• Genome-wide rules of transcription factor cooperativity revealed through in silico binding site ablation

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• Increased chromatin accessibility underpins senescence

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• A thermodynamic chromatin polymer model characterizes the epigenetic conditions for Hox collinearity

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• Breaking anterior-posterior symmetry in the moth fly Clogmia albipunctata

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• DNA-guided transcription factor interactions extend human gene regulatory code

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• Trps1 regulates mouse zygotic genome activation and preimplantation embryo development via the PDE4D/AKT/CREB signaling pathway

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• Bulk-level maps of pioneer factor binding dynamics during the Drosophila maternal-to-zygotic transition

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• Zebrahub-Multiome: Uncovering Gene Regulatory Network Dynamics During Zebrafish Embryogenesis

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  2024influential citation
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