Published in Cell on April 21, 2006
Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. Nature (2007) 65.18
Human DNA methylomes at base resolution show widespread epigenomic differences. Nature (2009) 34.27
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Direct reprogramming of fibroblasts into functional cardiomyocytes by defined factors. Cell (2010) 15.58
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FoxA1 translates epigenetic signatures into enhancer-driven lineage-specific transcription. Cell (2008) 14.18
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Dynamic changes in the human methylome during differentiation. Genome Res (2010) 7.96
Inactivating mutations of the histone methyltransferase gene EZH2 in myeloid disorders. Nat Genet (2010) 7.96
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Comprehensive analysis of the chromatin landscape in Drosophila melanogaster. Nature (2010) 6.87
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
Covalent histone modifications--miswritten, misinterpreted and mis-erased in human cancers. Nat Rev Cancer (2010) 6.27
Distinctive chromatin in human sperm packages genes for embryo development. Nature (2009) 6.18
The genomic landscape of histone modifications in human T cells. Proc Natl Acad Sci U S A (2006) 6.09
Mechanisms underlying lineage commitment and plasticity of helper CD4+ T cells. Science (2010) 6.06
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Forcing cells to change lineages. Nature (2009) 5.99
The transcriptional and epigenomic foundations of ground state pluripotency. Cell (2012) 5.87
Global transcription in pluripotent embryonic stem cells. Cell Stem Cell (2008) 5.81
Jmjd1a and Jmjd2c histone H3 Lys 9 demethylases regulate self-renewal in embryonic stem cells. Genes Dev (2007) 5.79
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Histone methylation: a dynamic mark in health, disease and inheritance. Nat Rev Genet (2012) 5.42
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
Erasing the methyl mark: histone demethylases at the center of cellular differentiation and disease. Genes Dev (2008) 5.25
Transcriptional control of the inflammatory response. Nat Rev Immunol (2009) 5.20
De novo mutations in histone-modifying genes in congenital heart disease. Nature (2013) 5.15
Human aging-associated DNA hypermethylation occurs preferentially at bivalent chromatin domains. Genome Res (2010) 5.08
Elite and stochastic models for induced pluripotent stem cell generation. Nature (2009) 5.06
The promise of induced pluripotent stem cells in research and therapy. Nature (2012) 5.05
Profile of histone lysine methylation across transcribed mammalian chromatin. Mol Cell Biol (2006) 5.01
CpG islands influence chromatin structure via the CpG-binding protein Cfp1. Nature (2010) 4.86
Deletion of ultraconserved elements yields viable mice. PLoS Biol (2007) 4.81
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
Retracted Bidirectional developmental potential in reprogrammed cells with acquired pluripotency. Nature (2014) 4.62
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
DOT1L/KMT4 recruitment and H3K79 methylation are ubiquitously coupled with gene transcription in mammalian cells. Mol Cell Biol (2008) 4.56
Altered nuclear retention of mRNAs containing inverted repeats in human embryonic stem cells: functional role of a nuclear noncoding RNA. Mol Cell (2009) 4.54
Coordinated activities of wild-type plus mutant EZH2 drive tumor-associated hypertrimethylation of lysine 27 on histone H3 (H3K27) in human B-cell lymphomas. Proc Natl Acad Sci U S A (2010) 4.52
Global reorganization of replication domains during embryonic stem cell differentiation. PLoS Biol (2008) 4.50
The metazoan Mediator co-activator complex as an integrative hub for transcriptional regulation. Nat Rev Genet (2010) 4.46
A molecular roadmap of reprogramming somatic cells into iPS cells. Cell (2012) 4.41
Promoter-proximal pausing of RNA polymerase II: emerging roles in metazoans. Nat Rev Genet (2012) 4.37
Short RNAs are transcribed from repressed polycomb target genes and interact with polycomb repressive complex-2. Mol Cell (2010) 4.36
Reprogramming of fibroblasts into induced pluripotent stem cells with orphan nuclear receptor Esrrb. Nat Cell Biol (2009) 4.32
Whole-genome analysis of histone H3 lysine 27 trimethylation in Arabidopsis. PLoS Biol (2007) 4.30
An RNAi screen of chromatin proteins identifies Tip60-p400 as a regulator of embryonic stem cell identity. Cell (2008) 4.27
Molecular implementation and physiological roles for histone H3 lysine 4 (H3K4) methylation. Curr Opin Cell Biol (2008) 4.25
A genome-wide RNAi screen identifies a new transcriptional module required for self-renewal. Genes Dev (2009) 4.23
Polycomb group proteins: multi-faceted regulators of somatic stem cells and cancer. Cell Stem Cell (2010) 4.18
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Initial sequencing and comparative analysis of the mouse genome. Nature (2002) 96.15
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature (2007) 75.09
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PGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes. Nat Genet (2003) 53.59
The structure of haplotype blocks in the human genome. Science (2002) 50.88
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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
The landscape of somatic copy-number alteration across human cancers. Nature (2010) 31.88
Systematic discovery of regulatory motifs in human promoters and 3' UTRs by comparison of several mammals. Nature (2005) 31.60
Genome-scale DNA methylation maps of pluripotent and differentiated cells. Nature (2008) 30.29
Somatic mutations affect key pathways in lung adenocarcinoma. Nature (2008) 30.02
Comprehensive mapping of long-range interactions reveals folding principles of the human genome. Science (2009) 29.83
Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature (2003) 29.16
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
Solution hybrid selection with ultra-long oligonucleotides for massively parallel targeted sequencing. Nat Biotechnol (2009) 27.17
The Connectivity Map: using gene-expression signatures to connect small molecules, genes, and disease. Science (2006) 25.99
Polycomb complexes repress developmental regulators in murine embryonic stem cells. Nature (2006) 25.90
Mapping and analysis of chromatin state dynamics in nine human cell types. Nature (2011) 24.37
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
Genome sequence, comparative analysis and haplotype structure of the domestic dog. Nature (2005) 23.04
High-quality draft assemblies of mammalian genomes from massively parallel sequence data. Proc Natl Acad Sci U S A (2010) 22.97
ARACHNE: a whole-genome shotgun assembler. Genome Res (2002) 22.72
Detecting recent positive selection in the human genome from haplotype structure. Nature (2002) 22.00
The Jalview Java alignment editor. Bioinformatics (2004) 21.74
Directly reprogrammed fibroblasts show global epigenetic remodeling and widespread tissue contribution. Cell Stem Cell (2007) 21.58
A molecular signature of metastasis in primary solid tumors. Nat Genet (2002) 21.36
Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proc Natl Acad Sci U S A (2009) 20.66
ALLPATHS: de novo assembly of whole-genome shotgun microreads. Genome Res (2008) 20.61
International network of cancer genome projects. Nature (2010) 20.35
Genomic maps and comparative analysis of histone modifications in human and mouse. Cell (2005) 18.96
Assessing the significance of chromosomal aberrations in cancer: methodology and application to glioma. Proc Natl Acad Sci U S A (2007) 18.83
A lentiviral RNAi library for human and mouse genes applied to an arrayed viral high-content screen. Cell (2006) 18.81
Direct conversion of fibroblasts to functional neurons by defined factors. Nature (2010) 18.76
Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs. Nat Biotechnol (2010) 18.44
The M2 splice isoform of pyruvate kinase is important for cancer metabolism and tumour growth. Nature (2008) 18.20
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Initial genome sequencing and analysis of multiple myeloma. Nature (2011) 17.28
Genome-wide detection and characterization of positive selection in human populations. Nature (2007) 17.27
Risk alleles for multiple sclerosis identified by a genomewide study. N Engl J Med (2007) 17.06
The mutational landscape of head and neck squamous cell carcinoma. Science (2011) 16.88
Meta-analysis of genetic association studies supports a contribution of common variants to susceptibility to common disease. Nat Genet (2003) 16.51
Characterizing the cancer genome in lung adenocarcinoma. Nature (2007) 16.48
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
Assessing the impact of population stratification on genetic association studies. Nat Genet (2004) 16.28
Gene expression correlates of clinical prostate cancer behavior. Cancer Cell (2002) 16.27
Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples. Nat Biotechnol (2013) 16.13
Active genes are tri-methylated at K4 of histone H3. Nature (2002) 15.68
Prediction of central nervous system embryonal tumour outcome based on gene expression. Nature (2002) 15.36
Histone H3K27ac separates active from poised enhancers and predicts developmental state. Proc Natl Acad Sci U S A (2010) 15.13
Genetic mapping in human disease. Science (2008) 15.12
The genomic complexity of primary human prostate cancer. Nature (2011) 14.06
Diffuse large B-cell lymphoma outcome prediction by gene-expression profiling and supervised machine learning. Nat Med (2002) 14.01
The NIH Roadmap Epigenomics Mapping Consortium. Nat Biotechnol (2010) 13.99
MLL translocations specify a distinct gene expression profile that distinguishes a unique leukemia. Nat Genet (2001) 13.79
Parkinson's disease patient-derived induced pluripotent stem cells free of viral reprogramming factors. Cell (2009) 13.02
A landscape of driver mutations in melanoma. Cell (2012) 12.61
High-resolution mapping of copy-number alterations with massively parallel sequencing. Nat Methods (2008) 12.56
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
Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae. Nature (2004) 12.32
Whole-genome sequence assembly for mammalian genomes: Arachne 2. Genome Res (2003) 12.30
Targeted deletion reveals essential and overlapping functions of the miR-17 through 92 family of miRNA clusters. Cell (2008) 12.29
Sequential expression of pluripotency markers during direct reprogramming of mouse somatic cells. Cell Stem Cell (2008) 12.29