Chromatin dynamics during cellular reprogramming

Genome-wide Chromatin State Transitions Associated with Developmental and Environmental Cues

(2013) Jiang Zhu et al.   CELL

Transcriptional and Epigenetic Dynamics during Specification of Human Embryonic Stem Cells

(2013) Casey A. Gifford et al.   CELL

Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes

(2013) Warren A. Whyte et al.   CELL

Jmjd3 Inhibits Reprogramming by Upregulating Expression of INK4a/Arf and Targeting PHF20 for Ubiquitination

(2013) Wei Zhao et al.   CELL

Induction of Pluripotency in Mouse Somatic Cells with Lineage Specifiers

(2013) Jian Shu et al.   CELL

Epigenomic Analysis of Multilineage Differentiation of Human Embryonic Stem Cells

(2013) Wei Xie et al.   CELL

Architectural Protein Subclasses Shape 3D Organization of Genomes during Lineage Commitment

(2013) Jennifer E. Phillips-Cremins et al.   CELL

Replacement of Oct4 by Tet1 during iPSC Induction Reveals an Important Role of DNA Methylation and Hydroxymethylation in Reprogramming

(2013) Yawei Gao et al.   Cell Stem Cell

PRDM14 Ensures Naive Pluripotency through Dual Regulation of Signaling and Epigenetic Pathways in Mouse Embryonic Stem Cells

(2013) Masashi Yamaji et al.   Cell Stem Cell

Klf4 Organizes Long-Range Chromosomal Interactions with the Oct4 Locus in Reprogramming and Pluripotency

(2013) Zong Wei et al.   Cell Stem Cell

Genome-wide Chromatin Interactions of the Nanog Locus in Pluripotency, Differentiation, and Reprogramming

(2013) Effie Apostolou et al.   Cell Stem Cell

Intrachromosomal Looping Is Required for Activation of Endogenous Pluripotency Genes during Reprogramming

(2013) He Zhang et al.   Cell Stem Cell

Histone variants in pluripotency and disease

(2013) P. J. Skene et al.   DEVELOPMENT

Combined Deficiency of Tet1 and Tet2 Causes Epigenetic Abnormalities but Is Compatible with Postnatal Development

(2013) Meelad M. Dawlaty et al.   DEVELOPMENTAL CELL

Widespread resetting of DNA methylation in glioblastoma-initiating cells suppresses malignant cellular behavior in a lineage-dependent manner

(2013) S. H. Stricker et al.   GENES & DEVELOPMENT

Different Roles for Tet1 and Tet2 Proteins in Reprogramming-Mediated Erasure of Imprints Induced by EGC Fusion

(2013) Francesco M. Piccolo et al.   MOLECULAR CELL

TET enzymes, TDG and the dynamics of DNA demethylation

(2013) Rahul M. Kohli et al.   NATURE

Topology of mammalian developmental enhancers and their regulatory landscapes

(2013) Wouter de Laat et al.   NATURE

High-resolution analysis with novel cell-surface markers identifies routes to iPS cells

(2013) James O’Malley et al.   NATURE

Vitamin C induces Tet-dependent DNA demethylation and a blastocyst-like state in ES cells

(2013) Kathryn Blaschke et al.   NATURE

NANOG-dependent function of TET1 and TET2 in establishment of pluripotency

(2013) Yael Costa et al.   NATURE

Establishment of totipotency does not depend on Oct4A

(2013) Guangming Wu et al.   NATURE CELL BIOLOGY

Proteomic and genomic approaches reveal critical functions of H3K9 methylation and heterochromatin protein-1γ in reprogramming to pluripotency

(2013) Rupa Sridharan et al.   NATURE CELL BIOLOGY

A unique Oct4 interface is crucial for reprogramming to pluripotency

(2013) Daniel Esch et al.   NATURE CELL BIOLOGY

Proteomic and bioinformatic analysis of mammalian SWI/SNF complexes identifies extensive roles in human malignancy

(2013) Cigall Kadoch et al.   NATURE GENETICS

Naive pluripotency is associated with global DNA hypomethylation

(2013) Harry G Leitch et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Maturation, not initiation, is the major roadblock during reprogramming toward pluripotency from human fibroblasts

(2013) K. Tanabe et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transcription factors interfering with dedifferentiation induce cell type-specific transcriptional profiles

(2013) T. Hikichi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

H1 linker histone promotes epigenetic silencing by regulating both DNA methylation and histone H3 methylation

(2013) S.-M. Yang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Epigenetic Reprogramming in Cancer

(2013) M. L. Suva et al.   SCIENCE

Drosophila H1 Regulates the Genetic Activity of Heterochromatin by Recruitment of Su(var)3-9

(2013) X. Lu et al.   SCIENCE

Pluripotent Stem Cells Induced from Mouse Somatic Cells by Small-Molecule Compounds

(2013) P. Hou et al.   SCIENCE

NuRD Blocks Reprogramming of Mouse Somatic Cells into Pluripotent Stem Cells

(2013) Min Luo et al.   STEM CELLS

MacroH2A histone variants act as a barrier upon reprogramming towards pluripotency

(2013) Alexandre Gaspar-Maia et al.   Nature Communications

Stage-Specific Regulation of Reprogramming to Induced Pluripotent Stem Cells by Wnt Signaling and T Cell Factor Proteins

(2013) Ritchie Ho et al.   Cell Reports

C/EBPα Induces Highly Efficient Macrophage Transdifferentiation of B Lymphoma and Leukemia Cell Lines and Impairs Their Tumorigenicity

(2013) Francesca Rapino et al.   Cell Reports

Macrohistone Variants Preserve Cell Identity by Preventing the Gain of H3K4me2 during Reprogramming to Pluripotency

(2013) María J. Barrero et al.   Cell Reports

Bivalent Chromatin Marks Developmental Regulatory Genes in the Mouse Embryonic Germline In Vivo

(2013) Michael Sachs et al.   Cell Reports

Cell Reprogramming Requires Silencing of a Core Subset of Polycomb Targets

(2013) Giulia Fragola et al.   PLoS Genetics

Regulation of Pluripotency and Self- Renewal of ESCs through Epigenetic- Threshold Modulation and mRNA Pruning

(2012) Junling Jia et al.   CELL

The Transcriptional and Epigenomic Foundations of Ground State Pluripotency

(2012) Hendrik Marks et al.   CELL

Facilitators and Impediments of the Pluripotency Reprogramming Factors' Initial Engagement with the Genome

(2012) Abdenour Soufi et al.   CELL

A Molecular Roadmap of Reprogramming Somatic Cells into iPS Cells

(2012) Jose M. Polo et al.   CELL

Single-Cell Expression Analyses during Cellular Reprogramming Reveal an Early Stochastic and a Late Hierarchic Phase

(2012) Yosef Buganim et al.   CELL

Transcriptional Amplification in Tumor Cells with Elevated c-Myc

(2012) Charles Y. Lin et al.   CELL

A Late Transition in Somatic Cell Reprogramming Requires Regulators Distinct from the Pluripotency Network

(2012) Azadeh Golipour et al.   Cell Stem Cell

Combinatorial control of cell fate and reprogramming in the mammalian germline

(2012) Erna Magnúsdóttir et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Replication-coupled passive DNA demethylation for the erasure of genome imprints in mice

(2012) Saya Kagiwada et al.   EMBO JOURNAL

Histone variant macroH2A marks embryonic differentiation in vivo and acts as an epigenetic barrier to induced pluripotency

(2012) V. Pasque et al.   JOURNAL OF CELL SCIENCE

Embryonic Stem Cells Induce Pluripotency in Somatic Cell Fusion through Biphasic Reprogramming

(2012) Kara M. Foshay et al.   MOLECULAR CELL

Early-stage epigenetic modification during somatic cell reprogramming by Parp1 and Tet2

(2012) Claudia A. Doege et al.   NATURE

Chromatin-modifying enzymes as modulators of reprogramming

(2012) Tamer T. Onder et al.   NATURE

The H3K27 demethylase Utx regulates somatic and germ cell epigenetic reprogramming

(2012) Abed AlFatah Mansour et al.   NATURE

Kdm2b promotes induced pluripotent stem cell generation by facilitating gene activation early in reprogramming

(2012) Gaoyang Liang et al.   NATURE CELL BIOLOGY

Ascorbic acid prevents loss of Dlk1-Dio3 imprinting and facilitates generation of all–iPS cell mice from terminally differentiated B cells

(2012) Matthias Stadtfeld et al.   NATURE GENETICS

H3K9 methylation is a barrier during somatic cell reprogramming into iPSCs

(2012) Jiekai Chen et al.   NATURE GENETICS

Germline DNA Demethylation Dynamics and Imprint Erasure Through 5-Hydroxymethylcytosine

(2012) J. A. Hackett et al.   SCIENCE

HIRA dependent H3.3 deposition is required for transcriptional reprogramming following nuclear transfer to Xenopus oocytes

(2012) Jerome Jullien et al.   Epigenetics & Chromatin

Highly Coordinated Proteome Dynamics during Reprogramming of Somatic Cells to Pluripotency

(2012) Jenny Hansson et al.   Cell Reports

KDM2b/JHDM1b, an H3K36me2-specific demethylase, is required for initiation and maintenance of acute myeloid leukemia

(2011) J. He et al.   BLOOD

Tet2 Loss Leads to Increased Hematopoietic Stem Cell Self-Renewal and Myeloid Transformation

(2011) Kelly Moran-Crusio et al.   CANCER CELL

Mbd3/NURD Complex Regulates Expression of 5-Hydroxymethylcytosine Marked Genes in Embryonic Stem Cells

(2011) Ozlem Yildirim et al.   CELL

Wdr5 Mediates Self-Renewal and Reprogramming via the Embryonic Stem Cell Core Transcriptional Network

(2011) Yen-Sin Ang et al.   CELL

Chromatin Connections to Pluripotency and Cellular Reprogramming

(2011) Stuart H. Orkin et al.   CELL

Polycomb-Repressed Genes Have Permissive Enhancers that Initiate Reprogramming

(2011) Phillippa C. Taberlay et al.   CELL

Somatic Oxidative Bioenergetics Transitions into Pluripotency-Dependent Glycolysis to Facilitate Nuclear Reprogramming

(2011) Clifford D.L. Folmes et al.   Cell Metabolism

Reprogramming Factor Expression Initiates Widespread Targeted Chromatin Remodeling

(2011) Richard P. Koche et al.   Cell Stem Cell

The Histone Demethylases Jhdm1a/1b Enhance Somatic Cell Reprogramming in a Vitamin-C-Dependent Manner

(2011) Tao Wang et al.   Cell Stem Cell

A Precarious Balance: Pluripotency Factors as Lineage Specifiers

(2011) Kyle M. Loh et al.   Cell Stem Cell

Histone variant macroH2A confers resistance to nuclear reprogramming

(2011) Vincent Pasque et al.   EMBO JOURNAL

Dramatic replacement of histone variants during genome remodeling in nuclear-transferred embryos

(2011) Buhe Nashun et al.   Epigenetics

De novo DNA methylation by Dnmt3a and Dnmt3b is dispensable for nuclear reprogramming of somatic cells to a pluripotent state

(2011) M. Pawlak et al.   GENES & DEVELOPMENT

Direct reprogramming of somatic cells is promoted by maternal transcription factor Glis1

(2011) Momoko Maekawa et al.   NATURE

The role of Tet3 DNA dioxygenase in epigenetic reprogramming by oocytes

(2011) Tian-Peng Gu et al.   NATURE

Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells

(2011) Ryan Lister et al.   NATURE

esBAF facilitates pluripotency by conditioning the genome for LIF/STAT3 signalling and by regulating polycomb function

(2011) Lena Ho et al.   NATURE CELL BIOLOGY

Efficient Generation of iPS Cells from Skeletal Muscle Stem Cells

(2011) Kah Yong Tan et al.   PLoS One

Defining the origins of Ras/p53-mediated squamous cell carcinoma

(2011) A. C. White et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Reprogramming within hours following nuclear transfer into mouse but not human zygotes

(2011) Dieter Egli et al.   Nature Communications

c-Myc Regulates Transcriptional Pause Release

(2010) Peter B. Rahl et al.   CELL

Chromatin-Remodeling Components of the BAF Complex Facilitate Reprogramming

(2010) Nishant Singhal et al.   CELL

When Fibroblasts MET iPSCs

(2010) Jose M. Polo et al.   Cell Stem Cell

Vitamin C Enhances the Generation of Mouse and Human Induced Pluripotent Stem Cells

(2010) Miguel Angel Esteban et al.   Cell Stem Cell

Stat3 Activation Is Limiting for Reprogramming to Ground State Pluripotency

(2010) Jian Yang et al.   Cell Stem Cell

ESCs Require PRC2 to Direct the Successful Reprogramming of Differentiated Cells toward Pluripotency

(2010) Carlos F. Pereira et al.   Cell Stem Cell

Induced pluripotency: history, mechanisms, and applications

(2010) M. Stadtfeld et al.   GENES & DEVELOPMENT

Molecular Maps of the Reorganization of Genome-Nuclear Lamina Interactions during Differentiation

(2010) Daan Peric-Hupkes et al.   MOLECULAR CELL

The histone variant macroH2A suppresses melanoma progression through regulation of CDK8

(2010) Avnish Kapoor et al.   NATURE

Mediator and cohesin connect gene expression and chromatin architecture

(2010) Michael H. Kagey et al.   NATURE

Nuclear reprogramming to a pluripotent state by three approaches

(2010) Shinya Yamanaka et al.   NATURE

Characterization of somatic cell nuclear reprogramming by oocytes in which a linker histone is required for pluripotency gene reactivation

(2010) J. Jullien et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Role of the Murine Reprogramming Factors in the Induction of Pluripotency

(2009) Rupa Sridharan et al.   CELL

Nanog Is the Gateway to the Pluripotent Ground State

(2009) Jose Silva et al.   CELL

A Small-Molecule Inhibitor of Tgf-β Signaling Replaces Sox2 in Reprogramming by Inducing Nanog

(2009) Justin K. Ichida et al.   Cell Stem Cell

Tgfβ Signal Inhibition Cooperates in the Induction of iPSCs and Replaces Sox2 and cMyc

(2009) Nimet Maherali et al.   CURRENT BIOLOGY

Differentiation stage determines potential of hematopoietic cells for reprogramming into induced pluripotent stem cells

(2009) Sarah Eminli et al.   NATURE GENETICS

Differential methylation of tissue- and cancer-specific CpG island shores distinguishes human induced pluripotent stem cells, embryonic stem cells and fibroblasts

(2009) Akiko Doi et al.   NATURE GENETICS

Large histone H3 lysine 9 dimethylated chromatin blocks distinguish differentiated from embryonic stem cells

(2009) Bo Wen et al.   NATURE GENETICS

Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells

(2009) Stefan Schoenfelder et al.   NATURE GENETICS

The DM domain protein DMRT1 is a dose-sensitive regulator of fetal germ cell proliferation and pluripotency

(2009) Anthony D. Krentz et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

H3K79 Methylation Profiles Define Murine and Human MLL-AF4 Leukemias

(2008) Andrei V. Krivtsov et al.   CANCER CELL

Direct Reprogramming of Terminally Differentiated Mature B Lymphocytes to Pluripotency

(2008) Jacob Hanna et al.   CELL

Defining Molecular Cornerstones during Fibroblast to iPS Cell Reprogramming in Mouse

(2008) Matthias Stadtfeld et al.   Cell Stem Cell

c-Myc Is Dispensable for Direct Reprogramming of Mouse Fibroblasts

(2008) Marius Wernig et al.   Cell Stem Cell

Sequential Expression of Pluripotency Markers during Direct Reprogramming of Mouse Somatic Cells

(2008) Tobias Brambrink et al.   Cell Stem Cell

Oct4 dependence of chromatin structure within the extended Nanog locus in ES cells

(2008) D. N. Levasseur et al.   GENES & DEVELOPMENT

Chromatin dynamics during epigenetic reprogramming in the mouse germ line

(2008) Petra Hajkova et al.   NATURE

Dissecting direct reprogramming through integrative genomic analysis

(2008) Tarjei S. Mikkelsen et al.   NATURE

Crypt stem cells as the cells-of-origin of intestinal cancer

(2008) Nick Barker et al.   NATURE

X Chromosome Activity in Mouse XX Primordial Germ Cells

(2008) Susana M. Chuva de Sousa Lopes et al.   PLoS Genetics

Reprogramming Primordial Germ Cells into Pluripotent Stem Cells

(2008) Gabriela Durcova-Hills et al.   PLoS One

Enhanced Reprogramming of Xist by Induced Upregulation of Tsix and Dnmt3a

(2008) Jeong Tae Do et al.   STEM CELLS

G9a and Jhdm2a Regulate Embryonic Stem Cell Fusion-Induced Reprogramming of Adult Neural Stem Cells

(2008) Dengke K. Ma et al.   STEM CELLS

Promotion of Reprogramming to Ground State Pluripotency by Signal Inhibition

(2008) Jose Silva et al.   PLOS BIOLOGY

Heterokaryon-Based Reprogramming of Human B Lymphocytes for Pluripotency Requires Oct4 but Not Sox2

(2008) Carlos F. Pereira et al.   PLoS Genetics

Pluripotential Reprogramming of the Somatic Genome in Hybrid Cells Occurs with the First Cell Cycle

(2007) Dong Wook Han et al.   STEM CELLS