Published in Nature on April 19, 2006
Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. Nature (2007) 65.18
The epigenomics of cancer. Cell (2007) 30.91
Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. Cell (2007) 30.22
Control of developmental regulators by Polycomb in human embryonic stem cells. Cell (2006) 28.21
A user's guide to the encyclopedia of DNA elements (ENCODE). PLoS Biol (2011) 16.53
Connecting microRNA genes to the core transcriptional regulatory circuitry of embryonic stem cells. Cell (2008) 16.38
An extended transcriptional network for pluripotency of embryonic stem cells. Cell (2008) 14.64
Stem cells, the molecular circuitry of pluripotency and nuclear reprogramming. Cell (2008) 14.17
Linking DNA methylation and histone modification: patterns and paradigms. Nat Rev Genet (2009) 12.08
The Polycomb complex PRC2 and its mark in life. Nature (2011) 11.97
lincRNAs act in the circuitry controlling pluripotency and differentiation. Nature (2011) 11.31
Genomewide analysis of PRC1 and PRC2 occupancy identifies two classes of bivalent domains. PLoS Genet (2008) 11.17
A stem cell-like chromatin pattern may predispose tumor suppressor genes to DNA hypermethylation and heritable silencing. Nat Genet (2007) 9.47
Long noncoding RNAs: functional surprises from the RNA world. Genes Dev (2009) 9.14
The polycomb group protein Suz12 is required for embryonic stem cell differentiation. Mol Cell Biol (2007) 8.57
Genomic loss of microRNA-101 leads to overexpression of histone methyltransferase EZH2 in cancer. Science (2008) 7.59
Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells. Nature (2011) 7.43
Charting histone modifications and the functional organization of mammalian genomes. Nat Rev Genet (2010) 7.39
Chromatin immunoprecipitation and microarray-based analysis of protein location. Nat Protoc (2006) 7.29
Control of the embryonic stem cell state. Cell (2011) 6.89
Genome-wide identification of polycomb-associated RNAs by RIP-seq. Mol Cell (2010) 6.88
EZH1 mediates methylation on histone H3 lysine 27 and complements EZH2 in maintaining stem cell identity and executing pluripotency. Mol Cell (2008) 6.86
The Polycomb group proteins bind throughout the INK4A-ARF locus and are disassociated in senescent cells. Genes Dev (2007) 6.77
An integrated network of androgen receptor, polycomb, and TMPRSS2-ERG gene fusions in prostate cancer progression. Cancer Cell (2010) 6.76
Pharmacologic disruption of Polycomb-repressive complex 2-mediated gene repression selectively induces apoptosis in cancer cells. Genes Dev (2007) 6.71
Dual functions of Tet1 in transcriptional regulation in mouse embryonic stem cells. Nature (2011) 6.48
Long noncoding RNAs in mouse embryonic stem cell pluripotency and differentiation. Genome Res (2008) 6.43
A Myc network accounts for similarities between embryonic stem and cancer cell transcription programs. Cell (2010) 6.00
Global transcription in pluripotent embryonic stem cells. Cell Stem Cell (2008) 5.81
Foxp3 occupancy and regulation of key target genes during T-cell stimulation. Nature (2007) 5.81
Ezh2 orchestrates gene expression for the stepwise differentiation of tissue-specific stem cells. Cell (2009) 5.51
Promoter CpG methylation contributes to ES cell gene regulation in parallel with Oct4/Nanog, PcG complex, and histone H3 K4/K27 trimethylation. Cell Stem Cell (2008) 5.40
Large intergenic non-coding RNA-RoR modulates reprogramming of human induced pluripotent stem cells. Nat Genet (2010) 5.37
Jarid2/Jumonji coordinates control of PRC2 enzymatic activity and target gene occupancy in pluripotent cells. Cell (2009) 5.26
Erasing the methyl mark: histone demethylases at the center of cellular differentiation and disease. Genes Dev (2008) 5.25
An Oct4-centered protein interaction network in embryonic stem cells. Cell Stem Cell (2010) 5.00
Induced pluripotency: history, mechanisms, and applications. Genes Dev (2010) 4.89
Tcf3 is an integral component of the core regulatory circuitry of embryonic stem cells. Genes Dev (2008) 4.77
Ring1B compacts chromatin structure and represses gene expression independent of histone ubiquitination. Mol Cell (2010) 4.69
Jarid2 and PRC2, partners in regulating gene expression. Genes Dev (2010) 4.65
Regulated fluctuations in nanog expression mediate cell fate decisions in embryonic stem cells. PLoS Biol (2009) 4.60
Chromatin structure and gene expression programs of human embryonic and induced pluripotent stem cells. Cell Stem Cell (2010) 4.59
Ezh1 and Ezh2 maintain repressive chromatin through different mechanisms. Mol Cell (2008) 4.44
Polycomb group proteins: navigators of lineage pathways led astray in cancer. Nat Rev Cancer (2009) 4.40
Short RNAs are transcribed from repressed polycomb target genes and interact with polycomb repressive complex-2. Mol Cell (2010) 4.36
JARID2 regulates binding of the Polycomb repressive complex 2 to target genes in ES cells. Nature (2010) 4.35
Whole-genome analysis of histone H3 lysine 27 trimethylation in Arabidopsis. PLoS Biol (2007) 4.30
Targets and dynamics of promoter DNA methylation during early mouse development. Nat Genet (2010) 4.27
An RNAi screen of chromatin proteins identifies Tip60-p400 as a regulator of embryonic stem cell identity. Cell (2008) 4.27
Identification of JmjC domain-containing UTX and JMJD3 as histone H3 lysine 27 demethylases. Proc Natl Acad Sci U S A (2007) 4.20
Polycomb group proteins: multi-faceted regulators of somatic stem cells and cancer. Cell Stem Cell (2010) 4.18
Chd1 regulates open chromatin and pluripotency of embryonic stem cells. Nature (2009) 4.13
Distinct DNA methylation patterns characterize differentiated human embryonic stem cells and developing human fetal liver. Genome Res (2009) 4.11
SetDB1 contributes to repression of genes encoding developmental regulators and maintenance of ES cell state. Genes Dev (2009) 4.09
An embryonic stem cell chromatin remodeling complex, esBAF, is an essential component of the core pluripotency transcriptional network. Proc Natl Acad Sci U S A (2009) 4.07
Wdr5 mediates self-renewal and reprogramming via the embryonic stem cell core transcriptional network. Cell (2011) 4.04
Mesenchymal stromal cells. Biology of adult mesenchymal stem cells: regulation of niche, self-renewal and differentiation. Arthritis Res Ther (2007) 3.97
Repression of E-cadherin by the polycomb group protein EZH2 in cancer. Oncogene (2008) 3.92
H2AZ is enriched at polycomb complex target genes in ES cells and is necessary for lineage commitment. Cell (2008) 3.90
Genome-wide views of chromatin structure. Annu Rev Biochem (2009) 3.89
Global mapping of DNA methylation in mouse promoters reveals epigenetic reprogramming of pluripotency genes. PLoS Genet (2008) 3.89
An embryonic stem cell chromatin remodeling complex, esBAF, is essential for embryonic stem cell self-renewal and pluripotency. Proc Natl Acad Sci U S A (2009) 3.82
Epigenomic analysis of multilineage differentiation of human embryonic stem cells. Cell (2013) 3.81
Polycomb repressive complex 2 is dispensable for maintenance of embryonic stem cell pluripotency. Stem Cells (2008) 3.81
Jumonji modulates polycomb activity and self-renewal versus differentiation of stem cells. Cell (2009) 3.75
seqMINER: an integrated ChIP-seq data interpretation platform. Nucleic Acids Res (2010) 3.74
Regulating RNA polymerase pausing and transcription elongation in embryonic stem cells. Genes Dev (2011) 3.55
Loss of miR-200 inhibition of Suz12 leads to polycomb-mediated repression required for the formation and maintenance of cancer stem cells. Mol Cell (2010) 3.53
Occupying chromatin: Polycomb mechanisms for getting to genomic targets, stopping transcriptional traffic, and staying put. Mol Cell (2013) 3.50
Noncoding RNA in development. Mamm Genome (2008) 3.42
Zfx controls the self-renewal of embryonic and hematopoietic stem cells. Cell (2007) 3.41
The role of YAP transcription coactivator in regulating stem cell self-renewal and differentiation. Genes Dev (2010) 3.37
Braveheart, a long noncoding RNA required for cardiovascular lineage commitment. Cell (2013) 3.35
Control of differentiation in a self-renewing mammalian tissue by the histone demethylase JMJD3. Genes Dev (2008) 3.32
Deconstructing repression: evolving models of co-repressor action. Nat Rev Genet (2010) 3.29
Embryonic lethal phenotype reveals a function of TDG in maintaining epigenetic stability. Nature (2011) 3.28
PCGF homologs, CBX proteins, and RYBP define functionally distinct PRC1 family complexes. Mol Cell (2012) 3.28
A region of the human HOXD cluster that confers polycomb-group responsiveness. Cell (2010) 3.27
Functional anatomy of polycomb and trithorax chromatin landscapes in Drosophila embryos. PLoS Biol (2009) 3.24
Mbd3/NURD complex regulates expression of 5-hydroxymethylcytosine marked genes in embryonic stem cells. Cell (2011) 3.19
Cross talk between microRNA and epigenetic regulation in adult neurogenesis. J Cell Biol (2010) 3.16
ES cell pluripotency and germ-layer formation require the SWI/SNF chromatin remodeling component BAF250a. Proc Natl Acad Sci U S A (2008) 3.15
Control of cell identity genes occurs in insulated neighborhoods in mammalian chromosomes. Cell (2014) 3.13
Haematopoietic malignancies caused by dysregulation of a chromatin-binding PHD finger. Nature (2009) 3.13
Epigenetic dynamics of stem cells and cell lineage commitment: digging Waddington's canal. Nat Rev Mol Cell Biol (2009) 3.12
Coordinated regulation of transcriptional repression by the RBP2 H3K4 demethylase and Polycomb-Repressive Complex 2. Genes Dev (2008) 3.10
H3K27me3 forms BLOCs over silent genes and intergenic regions and specifies a histone banding pattern on a mouse autosomal chromosome. Genome Res (2008) 3.09
Aging effects on DNA methylation modules in human brain and blood tissue. Genome Biol (2012) 3.05
Selective inhibition of Ezh2 by a small molecule inhibitor blocks tumor cells proliferation. Proc Natl Acad Sci U S A (2012) 3.03
Epigenetic modifications in pluripotent and differentiated cells. Nat Biotechnol (2010) 3.02
Widespread and tissue specific age-related DNA methylation changes in mice. Genome Res (2010) 2.99
The sox family of transcription factors: versatile regulators of stem and progenitor cell fate. Cell Stem Cell (2013) 2.97
Transcriptional regulation by Polycomb group proteins. Nat Struct Mol Biol (2013) 2.96
ChIP-Seq of transcription factors predicts absolute and differential gene expression in embryonic stem cells. Proc Natl Acad Sci U S A (2009) 2.96
A gene regulatory network in mouse embryonic stem cells. Proc Natl Acad Sci U S A (2007) 2.94
The growth factor environment defines distinct pluripotent ground states in novel blastocyst-derived stem cells. Cell (2008) 2.94
Systems biology of stem cell fate and cellular reprogramming. Nat Rev Mol Cell Biol (2009) 2.93
Ezh2 requires PHF1 to efficiently catalyze H3 lysine 27 trimethylation in vivo. Mol Cell Biol (2008) 2.93
Homeobox gene methylation in lung cancer studied by genome-wide analysis with a microarray-based methylated CpG island recovery assay. Proc Natl Acad Sci U S A (2007) 2.91
Promiscuous RNA binding by Polycomb repressive complex 2. Nat Struct Mol Biol (2013) 2.91
Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. Nature (2007) 65.18
A bivalent chromatin structure marks key developmental genes in embryonic stem cells. Cell (2006) 48.80
Transcriptional regulatory networks in Saccharomyces cerevisiae. Science (2002) 43.52
Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature (2009) 35.48
Core transcriptional regulatory circuitry in human embryonic stem cells. Cell (2005) 34.93
Genome-scale DNA methylation maps of pluripotent and differentiated cells. Nature (2008) 30.29
In vitro reprogramming of fibroblasts into a pluripotent ES-cell-like state. Nature (2007) 28.24
Control of developmental regulators by Polycomb in human embryonic stem cells. Cell (2006) 28.21
Transcriptional regulatory code of a eukaryotic genome. Nature (2004) 27.21
One-step generation of mice carrying mutations in multiple genes by CRISPR/Cas-mediated genome engineering. Cell (2013) 24.00
A chromatin landmark and transcription initiation at most promoters in human cells. Cell (2007) 23.41
Directly reprogrammed fibroblasts show global epigenetic remodeling and widespread tissue contribution. Cell Stem Cell (2007) 21.58
Direct conversion of fibroblasts to functional neurons by defined factors. Nature (2010) 18.76
The polycomb group protein EZH2 is involved in progression of prostate cancer. Nature (2002) 18.30
An embryonic stem cell-like gene expression signature in poorly differentiated aggressive human tumors. Nat Genet (2008) 17.67
Dissecting direct reprogramming through integrative genomic analysis. Nature (2008) 16.47
Connecting microRNA genes to the core transcriptional regulatory circuitry of embryonic stem cells. Cell (2008) 16.38
Mesenchymal stem cells within tumour stroma promote breast cancer metastasis. Nature (2007) 15.20
Histone H3K27ac separates active from poised enhancers and predicts developmental state. Proc Natl Acad Sci U S A (2010) 15.13
Genome-wide map of nucleosome acetylation and methylation in yeast. Cell (2005) 15.08
Mediator and cohesin connect gene expression and chromatin architecture. Nature (2010) 14.34
BET bromodomain inhibition as a therapeutic strategy to target c-Myc. Cell (2011) 14.34
EZH2 is a marker of aggressive breast cancer and promotes neoplastic transformation of breast epithelial cells. Proc Natl Acad Sci U S A (2003) 13.68
Parkinson's disease patient-derived induced pluripotent stem cells free of viral reprogramming factors. Cell (2009) 13.02
Treatment of sickle cell anemia mouse model with iPS cells generated from autologous skin. Science (2007) 12.41
Efficient targeting of expressed and silent genes in human ESCs and iPSCs using zinc-finger nucleases. Nat Biotechnol (2009) 12.40
Sequential expression of pluripotency markers during direct reprogramming of mouse somatic cells. Cell Stem Cell (2008) 12.29
Targeted deletion reveals essential and overlapping functions of the miR-17 through 92 family of miRNA clusters. Cell (2008) 12.29
Control of pancreas and liver gene expression by HNF transcription factors. Science (2004) 12.05
Targeted recruitment of Set1 histone methylase by elongating Pol II provides a localized mark and memory of recent transcriptional activity. Mol Cell (2003) 11.78
Genetic engineering of human pluripotent cells using TALE nucleases. Nat Biotechnol (2011) 11.76
c-Myc regulates transcriptional pause release. Cell (2010) 11.64
An improved map of conserved regulatory sites for Saccharomyces cerevisiae. BMC Bioinformatics (2006) 11.13
Divergent transcription from active promoters. Science (2008) 11.03
Direct reprogramming of terminally differentiated mature B lymphocytes to pluripotency. Cell (2008) 10.68
E2F integrates cell cycle progression with DNA repair, replication, and G(2)/M checkpoints. Genes Dev (2002) 10.06
Role of histone H3 lysine 27 methylation in X inactivation. Science (2003) 9.85
Ectopic expression of Oct-4 blocks progenitor-cell differentiation and causes dysplasia in epithelial tissues. Cell (2005) 9.84
RNA polymerase is poised for activation across the genome. Nat Genet (2007) 9.57
RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo. Nat Genet (2007) 9.56
Master transcription factors and mediator establish super-enhancers at key cell identity genes. Cell (2013) 9.55
Role of histone H2A ubiquitination in Polycomb silencing. Nature (2004) 9.48
Cre-lox-regulated conditional RNA interference from transgenes. Proc Natl Acad Sci U S A (2004) 9.33
DGCR8 is essential for microRNA biogenesis and silencing of embryonic stem cell self-renewal. Nat Genet (2007) 9.25
HIF-1alpha is essential for myeloid cell-mediated inflammation. Cell (2003) 9.12
Direct reprogramming of genetically unmodified fibroblasts into pluripotent stem cells. Nat Biotechnol (2007) 9.04
Induction of tumors in mice by genomic hypomethylation. Science (2003) 8.86
Direct cell reprogramming is a stochastic process amenable to acceleration. Nature (2009) 8.71
Reduced representation bisulfite sequencing for comparative high-resolution DNA methylation analysis. Nucleic Acids Res (2005) 8.69
Induced pluripotent stem cells and embryonic stem cells are distinguished by gene expression signatures. Cell Stem Cell (2009) 8.62
Derepression of BDNF transcription involves calcium-dependent phosphorylation of MeCP2. Science (2003) 8.48
c-Myc is dispensable for direct reprogramming of mouse fibroblasts. Cell Stem Cell (2007) 8.46
Selective inhibition of tumor oncogenes by disruption of super-enhancers. Cell (2013) 8.37