- Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs
John L Rinn
Program in Epithelial Biology, Stanford University School of Medicine, Stanford, CA 94305, USA
Cell 129:1311-23. 2007
..Thus, transcription of ncRNA may demarcate chromosomal domains of gene silencing at a distance; these results have broad implications for gene regulation in development and disease states...
- The Polycomb complex PRC2 and its mark in life
Institut Curie, 26 Rue d Ulm, 75005 Paris, France
Nature 469:343-9. 2011
..Recent studies of PRC2 have expanded our perspectives on its function and regulation, and uncovered a role for non-coding RNA in the recruitment of PRC2 to target genes...
- CTCF: master weaver of the genome
Jennifer E Phillips
Department of Biology, Emory University, Atlanta, GA 30322, USA
Cell 137:1194-211. 2009
- Snail, Zeb and bHLH factors in tumour progression: an alliance against the epithelial phenotype?
Departamento de Bioquimica, Facultad de Medicina, Universidad Autonoma de Madrid UAM, Instituto de Investigaciones Biomedicas Alberto Sols CSIC UAM, Arturo Duperier 4, 28029 Madrid, Spain
Nat Rev Cancer 7:415-28. 2007
- Polycomb proteins targeted by a short repeat RNA to the mouse X chromosome
Howard Hughes Medical Institute, Boston, MA 02115, USA
Science 322:750-6. 2008
..Likewise, PRC2 deficiency compromises Xist up-regulation. Therefore, RepA, together with PRC2, is required for the initiation and spread of XCI. We conclude that a ncRNA cofactor recruits Polycomb complexes to their target locus...
- Mechanisms of polycomb gene silencing: knowns and unknowns
Jeffrey A Simon
Department of Genetics, Cell Biology and Development, University of Minnesota, Minneapolis 55455, USA
Nat Rev Mol Cell Biol 10:697-708. 2009
..These findings have an impact on the epigenetic programming of gene expression in many biological systems...
- Genomewide analysis of PRC1 and PRC2 occupancy identifies two classes of bivalent domains
Molecular Pathology Unit and Center for Cancer Research, Massachusetts General Hospital, Charlestown, MA, USA
PLoS Genet 4:e1000242. 2008
..We propose that large CpG islands depleted of activating motifs confer epigenetic memory by recruiting the full repertoire of Polycomb complexes in pluripotent cells...
- Genome-wide mapping of in vivo protein-DNA interactions
David S Johnson
Department of Genetics, Stanford University School of Medicine, Stanford, CA, 94305 5120, USA
Science 316:1497-502. 2007
..96] and statistical confidence (P <10(-4)), properties that were important for inferring new candidate interactions. These include key transcription factors in the gene network that regulates pancreatic islet cell development...
- CTCF-mediated functional chromatin interactome in pluripotent cells
Genome Institute of Singapore, Singapore
Nat Genet 43:630-8. 2011
..This highly complex nuclear organization offers insights toward the unifying principles that govern genome plasticity and function...
- Histone deacetylases (HDACs): characterization of the classical HDAC family
Annemieke J M de Ruijter
Academic Medical Centre, University of Amsterdam, Amsterdam, The, Netherlands
Biochem J 370:737-49. 2003
..This challenging field has generated many fascinating results which will ultimately lead to a better understanding of the mechanism of gene transcription as a whole...
- JAZ repressor proteins are targets of the SCF(COI1) complex during jasmonate signalling
Institute of Biological Chemistry, Washington State University, Pullman, Washington 99164 6340, USA
Nature 448:661-5. 2007
- Tight regulation, modulation, and high-level expression by vectors containing the arabinose PBAD promoter
L M Guzman
Department of Microbiology and Molecular Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA
J Bacteriol 177:4121-30. 1995
..We have exploited the tight regulation of the PBAD promoter to study the phenotypes of null mutations of essential genes and explored the use of pBAD vectors as an expression system...
- GC-rich sequence elements recruit PRC2 in mammalian ES cells
Eric M Mendenhall
Howard Hughes Medical Institute and Department of Pathology, Massachusetts General Hospital and Harvard Medical School, Boston, Massachusetts, United States of America
PLoS Genet 6:e1001244. 2010
- ATM signaling facilitates repair of DNA double-strand breaks associated with heterochromatin
Aaron A Goodarzi
Genome Damage and Stability Centre, University of Sussex, East Sussex BN1 9RQ, UK
Mol Cell 31:167-77. 2008
..These data suggest that the importance of ATM signaling for DSB repair increases as the heterochromatic component of a genome expands...
- The bifunctional microRNA miR-9/miR-9* regulates REST and CoREST and is downregulated in Huntington's disease
Amy N Packer
Department of Internal Medicine, University of Iowa, Iowa City, Iowa 52242, USA
J Neurosci 28:14341-6. 2008
..These data provide evidence for a double negative feedback loop between the REST silencing complex and the miRNAs it regulates...
- Cellular defenses against superoxide and hydrogen peroxide
James A Imlay
Department of Microbiology, University of Illinois, Urbana, IL 61801, USA
Annu Rev Biochem 77:755-76. 2008
..Current research seeks to identify these, and bacteria comprise an exceptionally accessible experimental system that has provided many of the answers. This manuscript reviews recent developments and identifies remaining puzzles...
- Genome regulation by polycomb and trithorax proteins
Institute of Human Genetics, CNRS, 141, rue de la Cardonille, 34396 Montpellier Cedex 5, France
Cell 128:735-45. 2007
..Recent work suggests that PcG proteins regulate the nuclear organization of their target genes and that PcG-mediated gene silencing involves noncoding RNAs and the RNAi machinery...
- Transcriptional repression by the methyl-CpG-binding protein MeCP2 involves a histone deacetylase complex
Institute of Cell and Molecular Biology, University of Edinburgh, UK
Nature 393:386-9. 1998
..The data suggest that two global mechanisms of gene regulation, DNA methylation and histone deacetylation, can be linked by MeCP2...
- Batf3 deficiency reveals a critical role for CD8alpha+ dendritic cells in cytotoxic T cell immunity
Department of Pathology and Immunology, Washington University School of Medicine, 660 South Euclid Avenue, St Louis, MO 63110, USA
Science 322:1097-100. 2008
..Importantly, rejection of highly immunogenic syngeneic tumors was impaired in Batf3-/- mice. These results suggest an important role for CD8alpha+ dendritic cells and cross-presentation in responses to viruses and in tumor rejection...
- Polycomb complexes repress developmental regulators in murine embryonic stem cells
Laurie A Boyer
Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA
Nature 441:349-53. 2006
..Our results indicate that dynamic repression of developmental pathways by Polycomb complexes may be required for maintaining ES cell pluripotency and plasticity during embryonic development...
- Drosophila enhancer of Zeste/ESC complexes have a histone H3 methyltransferase activity that marks chromosomal Polycomb sites
Adolf Butenandt Institut, University of Munich, Schillerstrasse 44, 80336 Munich, Germany
Cell 111:185-96. 2002
..Histone H3 methylated in vitro by the E(Z)/ESC complex binds specifically to Polycomb protein...
- Lineage-specific polycomb targets and de novo DNA methylation define restriction and potential of neuronal progenitors
Friedrich Miescher Institute for Biomedical Research, Maulbeerstrasse 66, 4058 Basel, Switzerland
Mol Cell 30:755-66. 2008
..These data suggest a model how de novo DNA methylation and dynamic switches in Polycomb targets restrict pluripotency and define the developmental potential of progenitor cells...
- Targeting of the Bmi-1 oncogene/stem cell renewal factor by microRNA-128 inhibits glioma proliferation and self-renewal
Dardinger Laboratory for Neuro oncology and Neurosciences, Department of Neurological Surgery, The Ohio State University Medical Center and James Comprehensive Cancer Center, Columbus, Ohio 43210
Cancer Res 68:9125-30. 2008
- Dynamic equilibrium and heterogeneity of mouse pluripotent stem cells with distinct functional and epigenetic states
Wellcome Trust Cancer Research UK Gurdon Institute, The Henry Wellcome Building of Cancer and Developmental Biology, University of Cambridge, Tennis Court Road, Cambridge CB2 1QN, UK
Cell Stem Cell 3:391-401. 2008
- The HPV-16 E6 and E6-AP complex functions as a ubiquitin-protein ligase in the ubiquitination of p53
Laboratory of Tumor Virus Biology, National Cancer Institute, Bethesda, Maryland 20892
Cell 75:495-505. 1993
..The ubiquitination of p53 requires the E1 enzyme and a novel E2 in mammalian cells, while E3 activity is conferred by the E6-E6-AP complex. Furthermore, E6-AP appears to have ubiquitin-protein ligase activity in the absence of E6...
- HES and HERP families: multiple effectors of the Notch signaling pathway
Institute for Genetic Medicine, Department of Biochemistry and Molecular Biology, Keck School of Medicine of the University of Southern California, Los Angeles, California 90089, USA
J Cell Physiol 194:237-55. 2003
..The identification of the HERP family as a Notch effector that cooperates with HES/E(spl) family has opened a new avenue to our understanding of the Notch signaling pathway...
- A genome-wide RNAi screen reveals determinants of human embryonic stem cell identity
Na Yu Chia
Gene Regulation Laboratory, Genome Institute of Singapore, 60 Biopolis Street, Singapore 138672
Nature 468:316-20. 2010
..Altogether, our study uncovers a wealth of novel hESC regulators wherein PRDM14 exemplifies a key transcription factor required for the maintenance of hESC identity and the reacquisition of pluripotency in human somatic cells...
- Isolation of a human gene that inhibits HIV-1 infection and is suppressed by the viral Vif protein
Ann M Sheehy
Department of Microbiology, The Children s Hospital of Philadelphia, University of Pennsylvania School of Medicine, Philadelphia, Pennsylvania 19104, USA
Nature 418:646-50. 2002
..Because the Vif:CEM15 regulatory circuit is critical for HIV-1 replication, perturbing the circuit may be a promising target for future HIV/AIDS therapies...
- Polycomb complexes act redundantly to repress genomic repeats and genes
Research Institute of Molecular Pathology, Dr Bohr Gasse 7, 1030 Vienna, Austria
Genes Dev 24:265-76. 2010
..This indicates a contribution of the Polycomb group system to the defense against parasitic DNA, and a potential role of genomic repeats in Polycomb-mediated gene regulation...
- Bmi-1 is a novel molecular marker of nasopharyngeal carcinoma progression and immortalizes primary human nasopharyngeal epithelial cells
Li Bing Song
State Key Laboratory of Oncology in Southern China, Sun Yat sen University Cancer Center, Guangzhou, China
Cancer Res 66:6225-32. 2006
- Mosaic analysis with a repressible cell marker for studies of gene function in neuronal morphogenesis
Department of Biological Sciences, Stanford University, California 94305, USA
Neuron 22:451-61. 1999
..As an example, we show that the short stop gene is required in mushroom body neurons for the extension and guidance of their axons...
- Methylated DNA and MeCP2 recruit histone deacetylase to repress transcription
P L Jones
Laboratory of Molecular Embryology, National Institute of Child Health and Human Development, National Institute of Health, Bethesda, Maryland 20892 5431, USA
Nat Genet 19:187-91. 1998
..These results establish a direct causal relationship between DNA methylation-dependent transcriptional silencing and the modification of chromatin...
- A mouse Mecp2-null mutation causes neurological symptoms that mimic Rett syndrome
Wellcome Centre for Cell Biology, Institute of Cell and Molecular Biology, University of Edinburgh, The King s Buildings, Edinburgh, UK
Nat Genet 27:322-6. 2001
- Ezh1 and Ezh2 maintain repressive chromatin through different mechanisms
Department of Biochemistry, New York University Medical School, 522 First Avenue, New York, NY 10016, USA
Mol Cell 32:503-18. 2008
..These results might reflect subfunctionalization of a PcG protein during evolution...
- The TetR family of transcriptional repressors
Juan L Ramos
Department of Plant Biochemistry and Molecular and Cellular Biology, Estacion Experimental del Zaidin, Consejo Superior de Investigaciones Cientificas, Granada, Spain
Microbiol Mol Biol Rev 69:326-56. 2005
..Information related to the TetR family of regulators has been updated in a database that can be accessed at www.bactregulators.org...
- The transcription factor snail controls epithelial-mesenchymal transitions by repressing E-cadherin expression
Instituto de Investigaciones Biomedicas, Arturo Duperier 4, 28029 Madrid, Spain
Nat Cell Biol 2:76-83. 2000
..Snail may thus be considered as a marker for malignancy, opening up new avenues for the design of specific anti-invasive drugs...
- Quorum-sensing regulators control virulence gene expression in Vibrio cholerae
Department of Microbiology and Molecular Genetics, Harvard Medical School, 200 Longwood Avenue, Boston, MA 02115, USA
Proc Natl Acad Sci U S A 99:3129-34. 2002
..Together these data suggest a role for quorum sensing in modulating expression of blocks of virulence genes in a reciprocal fashion in vivo...
- Polycomb group proteins: navigators of lineage pathways led astray in cancer
Adrian P Bracken
The Smurfit Institute of Genetics, Trinity College Dublin and The Adelaide and Meath Hospital, including The National Children s Hospital, Dublin, Ireland
Nat Rev Cancer 9:773-84. 2009
..We also speculate about how their deregulation contributes to tumorigenesis...
- Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression
Ahmad M Khalil
The Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, MA 02142, USA
Proc Natl Acad Sci U S A 106:11667-72. 2009
..We propose a model in which some lincRNAs guide chromatin-modifying complexes to specific genomic loci to regulate gene expression...
- Recruitment of chromatin-modifying enzymes by CTIP2 promotes HIV-1 transcriptional silencing
INSERM unité 575 Pathophysiology of Nervous System, Centre de Neurochimie, Strasbourg, France
EMBO J 26:412-23. 2007
..Altogether, our findings uncover new therapeutic opportunities for purging latent HIV-1 viruses from their cellular reservoirs...
- The transcription factor snail is a repressor of E-cadherin gene expression in epithelial tumour cells
Unitat de Biologia Cel lular i Molecular, Institut Municipal d Investigacio Medica, Universitat Pompeu Fabra, Dr Aiguader 80, 08003 Barcelona, Spain
Nat Cell Biol 2:84-9. 2000
..Inhibition of Snail function in epithelial cancer cell lines lacking E-cadherin protein restores the expression of the E-cadherin gene...
- KAP1 controls endogenous retroviruses in embryonic stem cells
Helen M Rowe
School of Life Sciences, Ecole Polytechnique Federale de Lausanne, 1015 Lausanne, Switzerland
Nature 463:237-40. 2010
..Correspondingly, IAP 5'UTR sequences can impose in cis KAP1-dependent repression on a heterologous promoter in ES cells. Our results establish that KAP1 controls endogenous retroelements during early embryonic development...
- Hedgehog signaling and Bmi-1 regulate self-renewal of normal and malignant human mammary stem cells
Comprehensive Cancer Center, Department of Internal Medicine, University of Michigan, Ann Arbor, Michigan 48109 0946, USA
Cancer Res 66:6063-71. 2006
..These studies support a cancer stem cell model in which the hedgehog pathway and Bmi-1 play important roles in regulating self-renewal of normal and tumorigenic human mammary stem cells...
- YY1 tethers Xist RNA to the inactive X nucleation center
Howard Hughes Medical Institute, Department of Molecular Biology, Massachusetts General Hospital and Department of Genetics, Harvard Medical School, Boston, MA 02114, USA
Cell 146:119-33. 2011
..Specific YY1-to-RNA and YY1-to-DNA contacts are required to load Xist particles onto X. YY1 interacts with Xist RNA through Repeat C. We propose that YY1 acts as adaptor between regulatory RNA and chromatin targets...
- Opposing effects of polyglutamine expansion on native protein complexes contribute to SCA1
Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA
Nature 452:713-8. 2008
..This model provides mechanistic insight into the molecular pathogenesis of SCA1 as well as other polyglutamine diseases...
- A region of the human HOXD cluster that confers polycomb-group responsiveness
Caroline J Woo
Department of Molecular Biology, Massachusetts General Hospital, Boston, MA 02114, USA
Cell 140:99-110. 2010
..We conclude that D11.12 is a Polycomb-dependent regulatory region with similarities to Drosophila PREs, indicating conservation in the mechanisms that target PcG function in mammals and flies...
- JARID2 regulates binding of the Polycomb repressive complex 2 to target genes in ES cells
Biotech Research and Innovation Centre BRIC, University of Copenhagen, Ole Maaløes Vej 5, 2200 Copenhagen N, Denmark
Nature 464:306-10. 2010
..Thus, these results demonstrate that JARID2 is essential for the binding of PcG proteins to target genes and, consistent with this, for the proper differentiation of embryonic stem cells and normal development...
- Peripheral CD103+ dendritic cells form a unified subset developmentally related to CD8alpha+ conventional dendritic cells
Brian T Edelson
Department of Pathology and Immunology, Washington University School of Medicine, St Louis, MO 63110, USA
J Exp Med 207:823-36. 2010
..These data provide evidence for a developmental relationship between lymphoid organ-resident CD8alpha+ cDCs and nonlymphoid CD103+ DCs...
- Jarid2/Jumonji coordinates control of PRC2 enzymatic activity and target gene occupancy in pluripotent cells
Jamy C Peng
Department of Chemical and Systems Biology, Stanford University School of Medicine, Stanford, CA 94305, USA
Cell 139:1290-302. 2009
..Our findings illuminate a mechanism of histone methylation regulation in pluripotent cells and during early cell-fate transitions...
- Differentiation of mouse embryonic stem cells into a defined neuronal lineage
Friedrich Miescher Institute, CH 4058 Basel, Switzerland
Nat Neurosci 7:1003-9. 2004
..As they do in vivo, these cells went on to generate neurons with remarkably uniform biochemical and electrophysiological characteristics...
- Ring1B compacts chromatin structure and represses gene expression independent of histone ubiquitination
MRC Human Genetics Unit, Institute of Genetics and Molecular Medicine, University of Edinburgh, Crewe Road, Edinburgh EH4 2XU, UK
Mol Cell 38:452-64. 2010
..We suggest that Ring1B-mediated chromatin compaction acts to directly limit transcription in vivo...
- Ring1-mediated ubiquitination of H2A restrains poised RNA polymerase II at bivalent genes in mouse ES cells
Julie K Stock
Nuclear Organisation, MRC Clinical Sciences Centre, Imperial College School of Medicine, Hammersmith Hospital Campus, Du Cane Road, London W12 0NN, UK
Nat Cell Biol 9:1428-35. 2007
..These observations provide an insight into the molecular mechanisms that allow ES cells to self-renew and yet retain the ability to generate multiple lineage outcomes...
- Methylation of a CTCF-dependent boundary controls imprinted expression of the Igf2 gene
A C Bell
Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland 20892 0540, USA
Nature 405:482-5. 2000
..Our results reveal that DNA methylation can control gene expression by modulating enhancer access to the gene promoter through regulation of an enhancer boundary...
- Signalling downstream of activated mammalian Notch
Unité de Biologie Moléculaire de l Expression Génique, URA 1149 CNRS, Institut Pasteur, Paris, France
Nature 377:355-8. 1995
..Here we show that activated forms of mNotch associate with the human analogue of Su(H), KBF2/RBP-J kappa (refs 8,9) and act as transcriptional activators through the KBF2-binding sites of the HES-1 promoter...
- Jumonji modulates polycomb activity and self-renewal versus differentiation of stem cells
Department of Pediatric Oncology, Dana Farber Cancer Institute, Children s Hospital, and Harvard Medical School, Boston, MA 02115, USA
Cell 139:1303-14. 2009
..Our results demonstrate that dynamic regulation of Polycomb complex activity orchestrated by JMJ balances self-renewal and differentiation, highlighting the involvement of chromatin dynamics in cell-fate transitions...
- Rett syndrome is caused by mutations in X-linked MECP2, encoding methyl-CpG-binding protein 2
R E Amir
Department of Pediatrics, Baylor College of Medicine, Houston, Texas 77030, USA
Nat Genet 23:185-8. 1999
..This suggests that the mother is a germline mosaic for this mutation. Our study reports the first disease-causing mutations in RTT and points to abnormal epigenetic regulation as the mechanism underlying the pathogenesis of RTT...
- The transmembrane kinase Ire1p is a site-specific endonuclease that initiates mRNA splicing in the unfolded protein response
Department of Biochemistry and Biophysics, University of California, School of Medicine, San Francisco 94143 0448, USA
Cell 90:1031-9. 1997
..The addition of purified tRNA ligase completes splicing; we therefore have reconstituted HAC1 mRNA splicing in vitro from purified components...
- An early T cell lineage commitment checkpoint dependent on the transcription factor Bcl11b
Division of Biology 156 29, California Institute of Technology, Pasadena, CA 91125, USA
Science 329:89-93. 2010
- The histone H3 lysine-27 demethylase Jmjd3 links inflammation to inhibition of polycomb-mediated gene silencing
Francesca De Santa
Department of Experimental Oncology, European Institute of Oncology, Campus IFOM IEO, Via Adamello 16, 20139 Milan, Italy
Cell 130:1083-94. 2007
- CAG expansions in a novel gene for Machado-Joseph disease at chromosome 14q32.1
Department of Pharmacology, Kyoto University Faculty of Medicine, Japan
Nat Genet 8:221-8. 1994
..Southern blot analyses and genomic cloning demonstrates the existence of related genes. These results raise the possibility that similar abnormalities in related genes may give rise to diseases similar to MJD...
- Engineering stability in gene networks by autoregulation
EMBL, Structures and Biocomputing, Heidelberg, Germany
Nature 405:590-3. 2000
..Here we have designed and constructed simple gene circuits consisting of a regulator and transcriptional repressor modules in Escherichia coli and we show the gain of stability produced by negative feedback...
- Role of the polycomb protein EED in the propagation of repressive histone marks
Howard Hughes Medical Institute and Department of Biochemistry, New York University Medical School, 522 First Avenue, New York, New York 10016, USA
Nature 461:762-7. 2009
..These findings suggest a model for the propagation of the H3K27me3 mark that accounts for the maintenance of repressive chromatin domains and for the transmission of a histone modification from mother to daughter cells...
- Genome-wide mapping of Polycomb target genes unravels their roles in cell fate transitions
Adrian P Bracken
Biotech Research and Innovation Centre BRIC, 2100 Copenhagen Ø, Denmark
Genes Dev 20:1123-36. 2006
- The MuvB complex sequentially recruits B-Myb and FoxM1 to promote mitotic gene expression
Department of Medical Oncology, Dana Farber Cancer Institute, Boston, Massachusetts 02215, USA
Genes Dev 26:474-89. 2012
..Our results reveal a novel role for the MuvB complex in recruiting B-Myb and FoxM1 to promote late cell cycle gene expression and in regulating cell cycle gene expression from quiescence through mitosis...
- Short RNAs are transcribed from repressed polycomb target genes and interact with polycomb repressive complex-2
Division of Infection and Immunity, University College London, London W1T 4JF, UK
Mol Cell 38:675-88. 2010
..We propose that short RNAs play a role in the association of PRC2 with its target genes...
- Establishment of histone h3 methylation on the inactive X chromosome requires transient recruitment of Eed-Enx1 polycomb group complexes
X Inactivation Group, MRC Clinical Sciences Centre, ICSM, Hammersmith Hospital, Du Cane Road, London W12 0NN, United Kingdom
Dev Cell 4:481-95. 2003
..Functional analysis demonstrates that Eed-Enx1 is required to establish methylation of histone H3 at lysine 9 and/or lysine 27 on Xi and that this, in turn, is required to stabilize the Xi chromatin structure...
- A dual-kinase mechanism for Wnt co-receptor phosphorylation and activation
Neurobiology Program, Children s Hospital Boston, Department of Neurology, Harvard Medical School, Boston, Massachusetts 02115, USA
Nature 438:873-7. 2005
- Maternal Rnf12/RLIM is required for imprinted X-chromosome inactivation in mice
Program in Gene Function and Expression, University of Massachusetts Medical School UMMS, Worcester, Massachusetts 01605, USA
Nature 467:977-81. 2010
..These results assign crucial functions to the maternal deposit of Rnf12/RLIM for the initiation of imprinted XCI...
- CTCF physically links cohesin to chromatin
Eric D Rubio
Department of Radiation Oncology, University of Washington School of Medicine, Seattle WA 98195, USA
Proc Natl Acad Sci U S A 105:8309-14. 2008
..These results have implications for the functional role of cohesin subunits in the pathogenesis of Cornelia de Lange syndrome and Roberts syndromes...
- The two-handed E box binding zinc finger protein SIP1 downregulates E-cadherin and induces invasion
Molecular Cell Biology Unit, Department of Molecular Biology, VIB Ghent University, B 9000, Ghent, Belgium
Mol Cell 7:1267-78. 2001
..SIP1 therefore appears to be a promoter of invasion in malignant epithelial tumors...
- The miR-200 family determines the epithelial phenotype of cancer cells by targeting the E-cadherin repressors ZEB1 and ZEB2
Sun Mi Park
The Ben May Department for Cancer Research, The University of Chicago, Chicago, Illinois 60637, USA
Genes Dev 22:894-907. 2008
..Conversely, inhibition of miR-200 reduced E-cadherin expression, increased expression of Vimentin, and induced EMT. Our data identify miR-200 as a powerful marker and determining factor of the epithelial phenotype of cancer cells...
- Stochastic gene expression in a single cell
Michael B Elowitz
Laboratory of Cancer Biology, Center for Studies in Physics and Biology, Rockefeller University, New York, NY 10021, USA
Science 297:1183-6. 2002
..These results establish a quantitative foundation for modeling noise in genetic networks and reveal how low intracellular copy numbers of molecules can fundamentally limit the precision of gene regulation...
- Functional specialization within the Fur family of metalloregulators
Jin Won Lee
Department of Microbiology, Cornell University, Wing Hall, Ithaca, NY 14853 8101, USA
Biometals 20:485-99. 2007
..Despite numerous studies, the mechanism of metal ion sensing by Fur family proteins is still controversial. Other family members use metal catalyzed oxidation reactions to sense peroxide-stress (PerR) or the availability of heme (Irr)...
- FOXP2 as a molecular window into speech and language
Simon E Fisher
Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford, OX3 7BN, UK
Trends Genet 25:166-77. 2009
..This body of research represents the first functional genetic forays into neural mechanisms contributing to human spoken language...
- Toxin production by an emerging strain of Clostridium difficile associated with outbreaks of severe disease in North America and Europe
Acambis Inc, Cambridge, MA, USA
Lancet 366:1079-84. 2005
..We characterised the dominant strain of this epidemic to determine whether it produces higher amounts of toxins A and B than those produced by non-epidemic strains...
- Gene-specific repression of the p53 target gene PUMA via intragenic CTCF-Cohesin binding
Nathan P Gomes
Howard Hughes Medical Institute, Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, Colorado 80309, USA
Genes Dev 24:1022-34. 2010
..Therefore, CTCF plays a pivotal role in dampening the p53 apoptotic response by acting as a gene-specific repressor...
- Stable X chromosome inactivation involves the PRC1 Polycomb complex and requires histone MACROH2A1 and the CULLIN3/SPOP ubiquitin E3 ligase
Division of Molecular Genetics, The Netherlands Cancer Institute, 1066CX Amsterdam, The Netherlands
Proc Natl Acad Sci U S A 102:7635-40. 2005
..We further demonstrate that MACROH2A1 deposition is regulated by the CULLIN3/SPOP ligase complex and is actively involved in stable X inactivation, likely through the formation of an additional layer of epigenetic silencing...
- Repression of FLOWERING LOCUS C and FLOWERING LOCUS T by the Arabidopsis Polycomb repressive complex 2 components
Department of Biological Sciences, National University of Singapore, Singapore, Republic of Singapore
PLoS ONE 3:e3404. 2008
..Given the central roles of FLC and FT in flowering-time regulation in Arabidopsis, these findings suggest that the CLF-containing PRC2-like complexes play a significant role in control of flowering in Arabidopsis...
- Bmi1 regulates mitochondrial function and the DNA damage response pathway
Translational Medicine Branch, National Heart Lung and Blood Institute, National Institutes of Health, Bethesda, Maryland 20892, USA
Nature 459:387-92. 2009
- Role of the polycomb repressive complex 2 in acute promyelocytic leukemia
Centre de Regulacio Genomica, C Dr Aiguader 88, 08003 Barcelona, Spain
Cancer Cell 11:513-25. 2007
..Our results demonstrate that the direct targeting of Polycomb group proteins by an oncogene plays a key role during carcinogenesis...
- Mutations at the PAX6 locus are found in heterogeneous anterior segment malformations including Peters' anomaly
I M Hanson
MRC Human Genetics Unit, Western General Hospital, Edinburgh, UK
Nat Genet 6:168-73. 1994
..We therefore propose that a variety of anterior segment anomalies may be associated with PAX6 mutations...
- The pluripotency factor Oct4 interacts with Ctcf and also controls X-chromosome pairing and counting
Mary E Donohoe
Howard Hughes Medical Institute, USA
Nature 460:128-32. 2009
..Thus, we have identified the first trans-factor that regulates counting, and ascribed new functions to Oct4 during X-chromosome reprogramming...
- TSC2 mediates cellular energy response to control cell growth and survival
Life Sciences Institute, University of Michigan, Ann Arbor, MI 48109, USA
Cell 115:577-90. 2003
..These observations demonstrate a model where TSC2 functions as a key player in regulation of the common mTOR pathway of protein synthesis, cell growth, and viability in response to cellular energy levels...
- Genome-wide analysis of KAP1 binding suggests autoregulation of KRAB-ZNFs
Department of Pharmacology, University of California Davis, Davis, California, United States of America
PLoS Genet 3:e89. 2007
..Because KAP1 is recruited to the DNA via interaction with KRAB-ZNF proteins, we suggest that expression of KRAB-ZNF genes may be controlled via an auto-regulatory mechanism involving KAP1...
- Cleavage of bacteriophage lambda cI repressor involves the RecA C-terminal domain
Vitold E Galkin
Department of Biochemistry and Molecular Genetics, University of Virginia, Charlottesville, VA 22908 0733, USA
J Mol Biol 385:779-87. 2009
..Under conditions where the repressor cleavage rates are the highest, cI is coordinated within the groove by contacts with RecA's CTD. These observations provide a framework for understanding previous genetic and biochemical observations...
- A minimal peptide substrate in biotin holoenzyme synthetase-catalyzed biotinylation
Department of Chemistry and Biochemistry, University of Maryland Baltimore County, Baltimore 21250, USA
Protein Sci 8:921-9. 1999
..We conclude that the 14-mer peptide efficiently mimics the biotin acceptor function of the much larger protein domain normally recognized by BirA...
- Crystal structure of the Vibrio cholerae ferric uptake regulator (Fur) reveals insights into metal co-ordination
Md Arif Sheikh
Centre for Biomolecular Sciences, University of St Andrews, St Andrews, Fife KY16 9ST, UK
Mol Microbiol 72:1208-20. 2009
..An analysis of the metal binding properties shows that V. cholerae Fur can be activated by a range of divalent metals...
- Pax 6: mastering eye morphogenesis and eye evolution
W J Gehring
Department of Cell Biology, Biozentrum, University of Basel, Klingelbergstrasse 70, 4056 Basel, Switzerland
Trends Genet 15:371-7. 1999
..It is proposed that the various eye-types found in metazoa are derived from a common prototype, monophyletically, by a mechanism called intercalary evolution...
- Polycomb group protein-mediated repression of transcription
Biotech Research and Innovation Centre BRIC, University of Copenhagen, Ole Maaløes Vej 5, 2200 Copenhagen, Denmark
Trends Biochem Sci 35:323-32. 2010
- Bypassing a kinase activity with an ATP-competitive drug
Feroz R Papa
Department of Medicine, University of California, San Francisco, CA 94143 2200, USA
Science 302:1533-7. 2003
..Thus, rather than through phosphorylation per se, a conformational change in the kinase domain triggered by occupancy of the active site with a ligand leads to activation of all known downstream functions...
- The polycomb group protein Bmi-1 represses the tumor suppressor PTEN and induces epithelial-mesenchymal transition in human nasopharyngeal epithelial cells
Li Bing Song
State Key Laboratory of Oncology in South China, Sun Yat sen University Cancer Center, Guangzhou, People s Republic of China
J Clin Invest 119:3626-36. 2009
..Our results provide functional and mechanistic links between the oncoprotein Bmi-1 and the tumor suppressor PTEN in the development and progression of cancer...
- MAGE-RING protein complexes comprise a family of E3 ubiquitin ligases
Jennifer M Doyle
Department of Biochemistry, University of Texas Southwestern Medical Center, Dallas, TX 75390 9038, USA
Mol Cell 39:963-74. 2010
..For example, MAGE-C2-TRIM28 is shown to target p53 for degradation in a proteasome-dependent manner, consistent with its tumorigenic functions. These findings define a biochemical and cellular function for the MAGE protein family...
- Genome-wide screen for modifiers of ataxin-3 neurodegeneration in Drosophila
Department of Biology, University of Pennsylvania, Philadelphia, Pennsylvania, USA
PLoS Genet 3:1950-64. 2007
..These findings provide new insight into molecular pathways of polyQ toxicity, defining novel targets for promoting neuronal survival in human neurodegenerative disease...
- Recruitment of polycomb group complexes and their role in the dynamic regulation of cell fate choice
Institut de Genetique Humaine, CNRS, 141 rue de la Cardonille, 34396 Montpellier Cedex 5, France
Development 136:3531-42. 2009
..Finally, we focus on the dynamics of PcG protein complex action during cell fate transitions and on the implications of histone modifications for cell lineage commitment...
- KRAB-zinc finger proteins and KAP1 can mediate long-range transcriptional repression through heterochromatin spreading
Anna C Groner
School of Life Sciences, Ecole Polytechnique Federale de Lausanne EPFL, Lausanne, Switzerland
PLoS Genet 6:e1000869. 2010
..This finding not only suggests auto-regulatory mechanisms in the control of KRAB-ZFP gene clusters, but also provides important cues for interpreting future genome-wide DNA binding data of KRAB-ZFPs and KAP1...
- Histone deacetylase controls adult stem cell aging by balancing the expression of polycomb genes and jumonji domain containing 3
Ji Won Jung
Adult Stem Cell Research Center, Seoul National University, Seoul, Republic of Korea
Cell Mol Life Sci 67:1165-76. 2010
..These results suggest that HDAC activity might be important for MSC self-renewal by balancing PcGs and JMJD3 expression, which govern cellular senescence by p16(INK4A) regulation...
- Cellular dynamics associated with the genome-wide epigenetic reprogramming in migrating primordial germ cells in mice
Laboratory for Mammalian Germ Cell Biology, Center for Developmental Biology, RIKEN Kobe Institute, 2 2 3 Minatojima minamimachi, Chuo Ku, Kobe, 650 0047, Japan
Development 134:2627-38. 2007
..We suggest the possibility that active repression of an essential enzyme and subsequent unique cellular dynamics ensures successful implementation of genome-wide epigenetic reprogramming in migrating PGCs...
- Regulatory circuits in Helicobacter pylori : network motifs and regulators involved in metal-dependent responses
Department of Biology, University of Bologna, Bologna, Italy
FEMS Microbiol Rev 34:738-52. 2010
..These motifs appear to confer versatile dynamics of metal-dependent responses by extensive horizontal connections between the regulators and feedback control of metal-cofactor availability...
- The many roles of the transcriptional regulator CTCF
Katherine L Dunn
Manitoba Institute of Cell Biology, University of Manitoba, Winnipeg, Canada
Biochem Cell Biol 81:161-7. 2003
..Recent studies have provided new insight into the mechanism through which this factor acts at various levels of gene regulation...
- Epigenetic silencing of the p16(INK4a) tumor suppressor is associated with loss of CTCF binding and a chromatin boundary
Regulatory Biology Laboratory, The Salk Institute, La Jolla, CA 92037, USA
Mol Cell 34:271-84. 2009
- decapentaplegic is essential for the maintenance and division of germline stem cells in the Drosophila ovary
Howard Hughes Medical Institute, Department of Embryology, Carnegie Institution of Washington, Baltimore, Maryland 21210, USA
Cell 94:251-60. 1998
..We constructed mutant germline stem cell clones to show that the dpp signal is directly received by germline stem cells. Thus, dpp signaling helps define a niche that controls germline stem cell proliferation...