Dissecting direct reprogramming through integrative genomic analysis

By Tarjei S. Mikkelsen, J. Hanna, Xiaolan Zhang, Manching Ku, Marius Wernig, Patrick Schorderet, Bradley E. Bernstein, R. Jaenisch, Eric S. Lander, Alexander Meissner. Nature, 2008

1,018 citations recorded by the source corpus.

Subfields: Molecular Biology, Surgery

View Paper: https://www.semanticscholar.org/paper/bd35991789755bf7307216aca8346572bb9c07b7

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Citations in the corpus

Molecular maps of the reorganization of genome – nuclear lamina interactions during differentiation (2010, background): “Indeed, inhibition of DNA methyltransferase or histone deacetylases facilitates the reprogramming of differentiated cells into ESCs (Huangfu et al., 2008; Mikkelsen et al., 2008; Shi et al., 2008).”
Somatic cell reprogramming and transitions between pluripotent states: facts, hypotheses, unresolved issues (2010, neutral): “The formation of iPSCs involves activation of these genes, and their demethylation is widely used to monitor successful reprogramming (Mikkelsen et al., 2008).”
Induced pluripotency: history, mechanisms, and applications. (2010, background): “The transition to a pluripotent state is also accompanied by genome-wide remodeling of chromatin modifications, such as DNA and histone tail methylation from a somatic to an ESC-like state (Maherali et al. 2007; Mikkelsen et al. 2008), although the temporal sequence of these changes remains elusive.”
Hydroxylation of 5-methylcytosine by TET1 promotes active DNA demethylation in the adult brain (2011, neutral): “, 2010), or transcription factor-based derivation of induced pluripotent stem cells (Mikkelsen et al., 2008).”
Single-cell expression analyses during cellular reprogramming reveal an early stochastic and a late hierarchic phase. (2012, methodology): “The reprogramming process is characterized by widespread epigenetic changes (Koche et al., 2011; Maherali et al., 2007; Mikkelsen et al., 2008) that C generate iPSCs that functionally and molecularly resemble embryonic stem cells (ESCs).”
Epigenetic reprogramming and induced pluripotency (2009, background): “…are implicated in the silencing of Oct4 and other pluripotency genes – histone deacetylation, histone methylation and DNA methylation – improves the efficiency of transcription factorinduced reprogramming (Huangfu et al., 2008a; Huangfu et al., 2008b; Mikkelsen et al., 2008; Shi et al., 2008b).”
A double take on bivalent promoters. (2013, background): “The chromatin state of iPSCs closely resembles that of ES cells, and the vast majority of bivalent domains are recapitulated in iPSCs (Maherali et al. 2007; Mikkelsen et al. 2008; Guenther et al. 2010).”
Epigenetic memory in induced pluripotent stem cells (2010, background): “Demethylation appears passage dependent 13 , and reprogramming efficiency correlates with the rate of cell division and the passage number 41 .”
A mesenchymal-to-epithelial transition initiates and is required for the nuclear reprogramming of mouse fibroblasts. (2010, background): “Remarkably, a series of compounds including TGF-b (transforming growth factor b) inhibitors have been identified that accelerate or improve the reprogramming (Esteban et al., 2010; Huangfu et al., 2008; Ichida et al., 2009; Maherali and Hochedlinger, 2009; Mikkelsen et al., 2008), and this may shed ”
Role of the murine reprogramming factors in the induction of pluripotency (2009, neutral): “While Thy1 downregulation occurs in the majority of cells, gain of SSEA1 and activation of pluripotency regulators happens with very low efficiency, suggesting that as yet unknown epigenetic barriers need to be overcome to induce pluripotency (Huangfu et al., 2008; Meissner et al., 2007; Mikkelsen e”