Published in Mol Cell on February 04, 2005
Mediator and cohesin connect gene expression and chromatin architecture. Nature (2010) 14.34
Chromosome Conformation Capture Carbon Copy (5C): a massively parallel solution for mapping interactions between genomic elements. Genome Res (2006) 13.32
Architectural protein subclasses shape 3D organization of genomes during lineage commitment. Cell (2013) 6.37
CTCF mediates long-range chromatin looping and local histone modification in the beta-globin locus. Genes Dev (2006) 6.32
Enhancer function: new insights into the regulation of tissue-specific gene expression. Nat Rev Genet (2011) 5.27
Functional and mechanistic diversity of distal transcription enhancers. Cell (2011) 5.22
Profile of histone lysine methylation across transcribed mammalian chromatin. Mol Cell Biol (2006) 5.01
Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data. Nat Rev Genet (2013) 4.38
Concern Enhancing nuclear receptor-induced transcription requires nuclear motor and LSD1-dependent gene networking in interchromatin granules. Proc Natl Acad Sci U S A (2008) 4.31
A decade of 3C technologies: insights into nuclear organization. Genes Dev (2012) 4.25
Discovering hematopoietic mechanisms through genome-wide analysis of GATA factor chromatin occupancy. Mol Cell (2009) 3.96
The hierarchy of the 3D genome. Mol Cell (2013) 3.54
8q24 prostate, breast, and colon cancer risk loci show tissue-specific long-range interaction with MYC. Proc Natl Acad Sci U S A (2010) 3.37
Exchange of GATA factors mediates transitions in looped chromatin organization at a developmentally regulated gene locus. Mol Cell (2008) 3.24
Long-range chromosomal interactions regulate the timing of the transition between poised and active gene expression. EMBO J (2007) 2.99
Transcriptional silencing of {gamma}-globin by BCL11A involves long-range interactions and cooperation with SOX6. Genes Dev (2010) 2.93
Controlling long-range genomic interactions at a native locus by targeted tethering of a looping factor. Cell (2012) 2.87
Erythroid GATA1 function revealed by genome-wide analysis of transcription factor occupancy, histone modifications, and mRNA expression. Genome Res (2009) 2.64
Long-range chromosomal interactions and gene regulation. Mol Biosyst (2008) 2.56
Enhancers: the abundance and function of regulatory sequences beyond promoters. Dev Biol (2009) 2.50
A positive role for NLI/Ldb1 in long-range beta-globin locus control region function. Mol Cell (2007) 2.43
GATA switches as developmental drivers. J Biol Chem (2010) 2.32
SCL and associated proteins distinguish active from repressive GATA transcription factor complexes. Blood (2008) 2.19
Mechanisms that regulate localization of a DNA double-strand break to the nuclear periphery. Genes Dev (2009) 2.13
Characterization of genome-wide enhancer-promoter interactions reveals co-expression of interacting genes and modes of higher order chromatin organization. Cell Res (2012) 2.09
Dynamics of the epigenetic landscape during erythroid differentiation after GATA1 restoration. Genome Res (2011) 2.07
Topology of mammalian developmental enhancers and their regulatory landscapes. Nature (2013) 2.02
The active FMR1 promoter is associated with a large domain of altered chromatin conformation with embedded local histone modifications. Proc Natl Acad Sci U S A (2006) 2.00
Genome-wide transcription factor binding: beyond direct target regulation. Trends Genet (2011) 1.97
Chromatin domain activation via GATA-1 utilization of a small subset of dispersed GATA motifs within a broad chromosomal region. Proc Natl Acad Sci U S A (2005) 1.96
Distinct functions of dispersed GATA factor complexes at an endogenous gene locus. Mol Cell Biol (2006) 1.94
Dynamic interactions between the promoter and terminator regions of the mammalian BRCA1 gene. Proc Natl Acad Sci U S A (2008) 1.93
Integrating one-dimensional and three-dimensional maps of genomes. J Cell Sci (2010) 1.92
CTCF-dependent enhancer-blocking by alternative chromatin loop formation. Proc Natl Acad Sci U S A (2008) 1.90
Enhancer and promoter interactions-long distance calls. Curr Opin Genet Dev (2011) 1.88
Maintenance of long-range DNA interactions after inhibition of ongoing RNA polymerase II transcription. PLoS One (2008) 1.82
Antagonism of FOG-1 and GATA factors in fate choice for the mast cell lineage. J Exp Med (2008) 1.79
Mapping cis- and trans- chromatin interaction networks using chromosome conformation capture (3C). Methods Mol Biol (2009) 1.78
GATA3 acts upstream of FOXA1 in mediating ESR1 binding by shaping enhancer accessibility. Genome Res (2012) 1.77
Finding cis-regulatory elements using comparative genomics: some lessons from ENCODE data. Genome Res (2007) 1.75
Advances in the understanding of haemoglobin switching. Br J Haematol (2010) 1.74
Active chromatin hub of the mouse alpha-globin locus forms in a transcription factory of clustered housekeeping genes. Mol Cell Biol (2006) 1.72
Role of LDB1 in the transition from chromatin looping to transcription activation. Genes Dev (2014) 1.71
The 3D genome in transcriptional regulation and pluripotency. Cell Stem Cell (2014) 1.70
Chromatin conformation signatures of cellular differentiation. Genome Biol (2009) 1.68
Oct4 dependence of chromatin structure within the extended Nanog locus in ES cells. Genes Dev (2008) 1.68
A downstream intergenic cluster of regulatory enhancers contributes to the induction of CYP24A1 expression by 1alpha,25-dihydroxyvitamin D3. J Biol Chem (2010) 1.67
Regulation of cartilage-specific gene expression in human chondrocytes by SirT1 and nicotinamide phosphoribosyltransferase. J Biol Chem (2008) 1.66
BRG1 requirement for long-range interaction of a locus control region with a downstream promoter. Proc Natl Acad Sci U S A (2009) 1.65
Reactivation of developmentally silenced globin genes by forced chromatin looping. Cell (2014) 1.64
Genome organization and long-range regulation of gene expression by enhancers. Curr Opin Cell Biol (2013) 1.63
Regulation of human fetal hemoglobin: new players, new complexities. Blood (2005) 1.60
Chromatin loops in gene regulation. Biochim Biophys Acta (2008) 1.57
Mechanism of action of a distal NF-kappaB-dependent enhancer. Mol Cell Biol (2006) 1.53
Pomalidomide and lenalidomide regulate erythropoiesis and fetal hemoglobin production in human CD34+ cells. J Clin Invest (2008) 1.50
Transcription-dependent gene looping of the HIV-1 provirus is dictated by recognition of pre-mRNA processing signals. Mol Cell (2008) 1.50
AP-2γ regulates oestrogen receptor-mediated long-range chromatin interaction and gene transcription. EMBO J (2011) 1.49
Enhancers: five essential questions. Nat Rev Genet (2013) 1.46
Dynamic long-range chromatin interactions control Myb proto-oncogene transcription during erythroid development. EMBO J (2011) 1.41
Master regulatory GATA transcription factors: mechanistic principles and emerging links to hematologic malignancies. Nucleic Acids Res (2012) 1.38
The three-dimensional architecture of Hox cluster silencing. Nucleic Acids Res (2010) 1.36
Clustering of tissue-specific sub-TADs accompanies the regulation of HoxA genes in developing limbs. PLoS Genet (2013) 1.35
Dissecting molecular steps in chromatin domain activation during hematopoietic differentiation. Mol Cell Biol (2007) 1.34
Phospho-MED1-enhanced UBE2C locus looping drives castration-resistant prostate cancer growth. EMBO J (2011) 1.33
Transcriptional control of the TNF gene. Curr Dir Autoimmun (2010) 1.32
Chromosomal periodicity of evolutionarily conserved gene pairs. Proc Natl Acad Sci U S A (2007) 1.30
In the loop: long range chromatin interactions and gene regulation. Brief Funct Genomics (2011) 1.30
Study of the functional interaction between Mcp insulators from the Drosophila bithorax complex: effects of insulator pairing on enhancer-promoter communication. Mol Cell Biol (2007) 1.29
Transcription factor networks in erythroid cell and megakaryocyte development. Blood (2011) 1.29
Cohesin mediates chromatin interactions that regulate mammalian β-globin expression. J Biol Chem (2011) 1.29
BRG1 directly regulates nucleosome structure and chromatin looping of the alpha globin locus to activate transcription. Nucleic Acids Res (2009) 1.28
Long-range communication between the silencers of HMR. Mol Cell Biol (2008) 1.28
Multiple functions of Ldb1 required for beta-globin activation during erythroid differentiation. Blood (2010) 1.27
Highly specific epigenome editing by CRISPR-Cas9 repressors for silencing of distal regulatory elements. Nat Methods (2015) 1.27
CTCF controls expression and chromatin architecture of the human major histocompatibility complex class II locus. Mol Cell Biol (2010) 1.26
Chromatin and epigenetic features of long-range gene regulation. Nucleic Acids Res (2013) 1.26
Maturation stage-specific regulation of megakaryopoiesis by pointed-domain Ets proteins. Blood (2006) 1.25
3D shortcuts to gene regulation. Curr Opin Cell Biol (2010) 1.25
Gene associations: true romance or chance meeting in a nuclear neighborhood? J Cell Biol (2008) 1.23
Analysis of long-range chromatin interactions using Chromosome Conformation Capture. Methods (2012) 1.23
The complex transcription regulatory landscape of our genome: control in three dimensions. EMBO J (2011) 1.22
Nuclear organization and genome function. Annu Rev Cell Dev Biol (2012) 1.21
Word frequency analysis reveals enrichment of dinucleotide repeats on the human X chromosome and [GATA]n in the X escape region. Genome Res (2006) 1.20
Organization of transcription. Cold Spring Harb Perspect Biol (2010) 1.20
USF and NF-E2 cooperate to regulate the recruitment and activity of RNA polymerase II in the beta-globin gene locus. J Biol Chem (2010) 1.20
Ikaros and GATA-1 combinatorial effect is required for silencing of human gamma-globin genes. Mol Cell Biol (2008) 1.19
Thermodynamic pathways to genome spatial organization in the cell nucleus. Biophys J (2009) 1.18
Activation-dependent intrachromosomal interactions formed by the TNF gene promoter and two distal enhancers. Proc Natl Acad Sci U S A (2007) 1.18
Long-Range Chromatin Interactions. Cold Spring Harb Perspect Biol (2015) 1.16
The BCL2 gene is regulated by a special AT-rich sequence binding protein 1-mediated long range chromosomal interaction between the promoter and the distal element located within the 3'-UTR. Nucleic Acids Res (2011) 1.16
HBS1L-MYB intergenic variants modulate fetal hemoglobin via long-range MYB enhancers. J Clin Invest (2014) 1.14
H4R3 methylation facilitates beta-globin transcription by regulating histone acetyltransferase binding and H3 acetylation. Blood (2010) 1.14
DNA binding by GATA transcription factor suggests mechanisms of DNA looping and long-range gene regulation. Cell Rep (2012) 1.12
Gene positioning. Cold Spring Harb Perspect Biol (2010) 1.12
Do chromatin loops provide epigenetic gene expression states? Curr Opin Genet Dev (2010) 1.12
Study of long-distance functional interactions between Su(Hw) insulators that can regulate enhancer-promoter communication in Drosophila melanogaster. Mol Cell Biol (2006) 1.11
3C-based technologies to study the shape of the genome. Methods (2012) 1.11
An Overview of Genome Organization and How We Got There: from FISH to Hi-C. Microbiol Mol Biol Rev (2015) 1.10
GC- and AT-rich chromatin domains differ in conformation and histone modification status and are differentially modulated by Rpd3p. Genome Biol (2007) 1.10
Lineage-specific activators affect beta-globin locus chromatin in multipotent hematopoietic progenitors. EMBO J (2006) 1.10
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature (2007) 75.09
Comprehensive mapping of long-range interactions reveals folding principles of the human genome. Science (2009) 29.83
The accessible chromatin landscape of the human genome. Nature (2012) 16.86
Mediator and cohesin connect gene expression and chromatin architecture. Nature (2010) 14.34
Chromosome Conformation Capture Carbon Copy (5C): a massively parallel solution for mapping interactions between genomic elements. Genome Res (2006) 13.32
A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression. Nature (2011) 11.59
Spatial partitioning of the regulatory landscape of the X-inactivation centre. Nature (2012) 9.75
The long-range interaction landscape of gene promoters. Nature (2012) 9.20
Evidence that the packaging signal of Moloney murine leukemia virus extends into the gag region. J Virol (1987) 8.81
Controlling the double helix. Nature (2003) 8.61
The histone modification pattern of active genes revealed through genome-wide chromatin analysis of a higher eukaryote. Genes Dev (2004) 7.57
An expansive human regulatory lexicon encoded in transcription factor footprints. Nature (2012) 7.27
Architectural protein subclasses shape 3D organization of genomes during lineage commitment. Cell (2013) 6.37
Quantitative analysis of chromosome conformation capture assays (3C-qPCR). Nat Protoc (2007) 6.28
Histone H3 lysine 9 methylation and HP1gamma are associated with transcription elongation through mammalian chromatin. Mol Cell (2005) 5.96
Functional and mechanistic diversity of distal transcription enhancers. Cell (2011) 5.22
Profile of histone lysine methylation across transcribed mammalian chromatin. Mol Cell Biol (2006) 5.01
Genome-wide DNA replication profile for Drosophila melanogaster: a link between transcription and replication timing. Nat Genet (2002) 4.68
Genomic binding by the Drosophila Myc, Max, Mad/Mnt transcription factor network. Genes Dev (2003) 4.68
DOT1L/KMT4 recruitment and H3K79 methylation are ubiquitously coupled with gene transcription in mammalian cells. Mol Cell Biol (2008) 4.56
Iterative correction of Hi-C data reveals hallmarks of chromosome organization. Nat Methods (2012) 4.26
Global regulation of erythroid gene expression by transcription factor GATA-1. Blood (2004) 4.22
An encyclopedia of mouse DNA elements (Mouse ENCODE). Genome Biol (2012) 4.15
Spatial organization of the mouse genome and its role in recurrent chromosomal translocations. Cell (2012) 4.02
Intragenic DNA methylation alters chromatin structure and elongation efficiency in mammalian cells. Nat Struct Mol Biol (2004) 4.00
Activating RNAs associate with Mediator to enhance chromatin architecture and transcription. Nature (2013) 3.98
Stress-induced apoptosis associated with null mutation of ADAR1 RNA editing deaminase gene. J Biol Chem (2003) 3.93
The locus control region is required for association of the murine beta-globin locus with engaged transcription factories during erythroid maturation. Genes Dev (2006) 3.91
The three-dimensional architecture of a bacterial genome and its alteration by genetic perturbation. Mol Cell (2011) 3.61
The hierarchy of the 3D genome. Mol Cell (2013) 3.54
Organization of the mitotic chromosome. Science (2013) 3.50
Developmental and species-divergent globin switching are driven by BCL11A. Nature (2009) 3.49
A mechanical basis for chromosome function. Proc Natl Acad Sci U S A (2004) 3.48
The three-dimensional folding of the α-globin gene domain reveals formation of chromatin globules. Nat Struct Mol Biol (2010) 3.39
Defining functional DNA elements in the human genome. Proc Natl Acad Sci U S A (2014) 3.35
GATA-1-dependent transcriptional repression of GATA-2 via disruption of positive autoregulation and domain-wide chromatin remodeling. Proc Natl Acad Sci U S A (2003) 3.32
Exchange of GATA factors mediates transitions in looped chromatin organization at a developmentally regulated gene locus. Mol Cell (2008) 3.24
Form follows function: The genomic organization of cellular differentiation. Genes Dev (2004) 3.20
A GATA-1-regulated microRNA locus essential for erythropoiesis. Proc Natl Acad Sci U S A (2008) 3.10
A complex chromatin landscape revealed by patterns of nuclease sensitivity and histone modification within the mouse beta-globin locus. Mol Cell Biol (2003) 3.09
Insights into GATA-1-mediated gene activation versus repression via genome-wide chromatin occupancy analysis. Mol Cell (2009) 3.05
Mitoferrin is essential for erythroid iron assimilation. Nature (2006) 2.99
My5C: web tools for chromosome conformation capture studies. Nat Methods (2009) 2.96
Controlling long-range genomic interactions at a native locus by targeted tethering of a looping factor. Cell (2012) 2.87
Polycomb response elements mediate the formation of chromosome higher-order structures in the bithorax complex. Nat Cell Biol (2007) 2.72
Mapping networks of physical interactions between genomic elements using 5C technology. Nat Protoc (2007) 2.69
DNA replication-timing analysis of human chromosome 22 at high resolution and different developmental states. Proc Natl Acad Sci U S A (2004) 2.66
The beta -globin locus control region (LCR) functions primarily by enhancing the transition from transcription initiation to elongation. Genes Dev (2003) 2.65
Erythroid GATA1 function revealed by genome-wide analysis of transcription factor occupancy, histone modifications, and mRNA expression. Genome Res (2009) 2.64
Genomics tools for unraveling chromosome architecture. Nat Biotechnol (2010) 2.63
Globin gene activation during haemopoiesis is driven by protein complexes nucleated by GATA-1 and GATA-2. EMBO J (2004) 2.62
Long-range chromosomal interactions and gene regulation. Mol Biosyst (2008) 2.56
FOG-1 recruits the NuRD repressor complex to mediate transcriptional repression by GATA-1. EMBO J (2005) 2.53
GATA-1-mediated proliferation arrest during erythroid maturation. Mol Cell Biol (2003) 2.52
Enhancers: the abundance and function of regulatory sequences beyond promoters. Dev Biol (2009) 2.50
In vivo dual cross-linking for identification of indirect DNA-associated proteins by chromatin immunoprecipitation. Biotechniques (2006) 2.46
Conservation of sequence and structure flanking the mouse and human beta-globin loci: the beta-globin genes are embedded within an array of odorant receptor genes. Proc Natl Acad Sci U S A (1999) 2.39
An abundant erythroid protein that stabilizes free alpha-haemoglobin. Nature (2002) 2.33
A functional element necessary for fetal hemoglobin silencing. N Engl J Med (2011) 2.25
The beta-globin LCR is not necessary for an open chromatin structure or developmentally regulated transcription of the native mouse beta-globin locus. Mol Cell (1998) 2.22
SCL and associated proteins distinguish active from repressive GATA transcription factor complexes. Blood (2008) 2.19
Analysis of mice containing a targeted deletion of beta-globin locus control region 5' hypersensitive site 3. Mol Cell Biol (1996) 2.17
The c-MYC oncoprotein is a substrate of the acetyltransferases hGCN5/PCAF and TIP60. Mol Cell Biol (2004) 2.13
Mechanisms that regulate localization of a DNA double-strand break to the nuclear periphery. Genes Dev (2009) 2.13
An unmethylated 3' promoter-proximal region is required for efficient transcription initiation. PLoS Genet (2007) 2.11
Formation of a tissue-specific histone acetylation pattern by the hematopoietic transcription factor GATA-1. Mol Cell Biol (2003) 2.09
Role of SWI/SNF in acute leukemia maintenance and enhancer-mediated Myc regulation. Genes Dev (2013) 2.07
Dynamics of the epigenetic landscape during erythroid differentiation after GATA1 restoration. Genome Res (2011) 2.07
Design of retrovirus vectors for transfer and expression of the human beta-globin gene. J Virol (1988) 2.06
Activator-mediated recruitment of the MLL2 methyltransferase complex to the beta-globin locus. Mol Cell (2007) 2.05
Cohesin-based chromatin interactions enable regulated gene expression within preexisting architectural compartments. Genome Res (2013) 2.05
Context-dependent regulation of GATA-1 by friend of GATA-1. Proc Natl Acad Sci U S A (2003) 2.01
Hi-C: a comprehensive technique to capture the conformation of genomes. Methods (2012) 2.00
Dynamic changes in transcription factor complexes during erythroid differentiation revealed by quantitative proteomics. Nat Struct Mol Biol (2003) 2.00
The active FMR1 promoter is associated with a large domain of altered chromatin conformation with embedded local histone modifications. Proc Natl Acad Sci U S A (2006) 2.00
MORC family ATPases required for heterochromatin condensation and gene silencing. Science (2012) 1.97
Mapping chromatin interactions by chromosome conformation capture. Curr Protoc Mol Biol (2006) 1.95
Self-renewing endodermal progenitor lines generated from human pluripotent stem cells. Cell Stem Cell (2012) 1.94
Distinct functions of dispersed GATA factor complexes at an endogenous gene locus. Mol Cell Biol (2006) 1.94
Heme regulates the dynamic exchange of Bach1 and NF-E2-related factors in the Maf transcription factor network. Proc Natl Acad Sci U S A (2004) 1.92
Integrating one-dimensional and three-dimensional maps of genomes. J Cell Sci (2010) 1.92