Literature DB >> 18675948

Chromatin loops in gene regulation.

Stephan Kadauke1, Gerd A Blobel.   

Abstract

The control of gene expression involves regulatory elements that can be very far from the genes they control. Several recent technological advances have allowed the direct detection of chromatin loops that juxtapose distant genomic sites in the nucleus. Here we review recent studies from various model organisms that have provided new insights into the functions of chromatin loops and the mechanisms that form them. We discuss the widespread impact of chromatin loops on gene activation, repression, genomic imprinting and the function of enhancers and insulators.

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Year:  2008        PMID： 18675948      PMCID： PMC2638769          DOI： 10.1016/j.bbagrm.2008.07.002

Source DB:  PubMed          Journal:  Biochim Biophys Acta        ISSN： 0006-3002


  97 in total

1.  Distinct domains of the GATA-1 cofactor FOG-1 differentially influence erythroid versus megakaryocytic maturation.

Authors:  Alan B Cantor; Samuel G Katz; Stuart H Orkin
Journal:  Mol Cell Biol       Date:  2002-06       Impact factor: 4.272

Review 2.  Lampbrush chromosomes and associated bodies: new insights into principles of nuclear structure and function.

Authors:  Garry T Morgan
Journal:  Chromosome Res       Date:  2002       Impact factor: 5.239

3.  Nuclear receptor-enhanced transcription requires motor- and LSD1-dependent gene networking in interchromatin granules.

Authors:  Esperanza Nunez; Young-Soo Kwon; Kasey R Hutt; Qidong Hu; Maria Dafne Cardamone; Kenneth A Ohgi; Ivan Garcia-Bassets; David W Rose; Christopher K Glass; Michael G Rosenfeld; Xiang-Dong Fu
Journal:  Cell       Date:  2008-03-21       Impact factor: 41.582

4.  Exchange of GATA factors mediates transitions in looped chromatin organization at a developmentally regulated gene locus.

Authors:  Huie Jing; Christopher R Vakoc; Lei Ying; Sean Mandat; Hongxin Wang; Xingwu Zheng; Gerd A Blobel
Journal:  Mol Cell       Date:  2008-02-01       Impact factor: 17.970

5.  Gene regulation in the third dimension.

Authors:  Job Dekker
Journal:  Science       Date:  2008-03-28       Impact factor: 47.728

6.  'Insulator bodies' are aggregates of proteins but not of insulators.

Authors:  Anton Golovnin; Larisa Melnikova; Ilya Volkov; Margarita Kostuchenko; Alexander V Galkin; Pavel Georgiev
Journal:  EMBO Rep       Date:  2008-03-28       Impact factor: 8.807

7.  Dynamic interactions between the promoter and terminator regions of the mammalian BRCA1 gene.

Authors:  Sue Mei Tan-Wong; Juliet D French; Nicholas J Proudfoot; Melissa A Brown
Journal:  Proc Natl Acad Sci U S A       Date:  2008-03-28       Impact factor: 11.205

8.  Chromatin boundaries in budding yeast: the nuclear pore connection.

Authors:  Kojiro Ishii; Ghislaine Arib; Clayton Lin; Griet Van Houwe; Ulrich K Laemmli
Journal:  Cell       Date:  2002-05-31       Impact factor: 41.582

9.  Maintenance of long-range DNA interactions after inhibition of ongoing RNA polymerase II transcription.

Authors:  Robert-Jan Palstra; Marieke Simonis; Petra Klous; Emilie Brasset; Bart Eijkelkamp; Wouter de Laat
Journal:  PLoS One       Date:  2008-02-20       Impact factor: 3.240

10.  Transcription-dependent gene looping of the HIV-1 provirus is dictated by recognition of pre-mRNA processing signals.

Authors:  Kelly J Perkins; Marina Lusic; Ivonne Mitar; Mauro Giacca; Nick J Proudfoot
Journal:  Mol Cell       Date:  2008-01-18       Impact factor: 17.970
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  88 in total

Review 1.  Enhancer and promoter interactions-long distance calls.

Authors:  Ivan Krivega; Ann Dean
Journal:  Curr Opin Genet Dev       Date:  2011-12-12       Impact factor: 5.578

Review 2.  Minimizing the unpredictability of transgene expression in plants: the role of genetic insulators.

Authors:  Stacy D Singer; Zongrang Liu; Kerik D Cox
Journal:  Plant Cell Rep       Date:  2011-10-11       Impact factor: 4.570

Review 3.  Chromatin higher-order structure and dynamics.

Authors:  Christopher L Woodcock; Rajarshi P Ghosh
Journal:  Cold Spring Harb Perspect Biol       Date:  2010-04-07       Impact factor: 10.005

4.  Type III restriction enzymes cleave DNA by long-range interaction between sites in both head-to-head and tail-to-tail inverted repeat.

Authors:  Kara van Aelst; Júlia Tóth; Subramanian P Ramanathan; Friedrich W Schwarz; Ralf Seidel; Mark D Szczelkun
Journal:  Proc Natl Acad Sci U S A       Date:  2010-04-30       Impact factor: 11.205

5.  Integrating one-dimensional and three-dimensional maps of genomes.

Authors:  Natalia Naumova; Job Dekker
Journal:  J Cell Sci       Date:  2010-06-15       Impact factor: 5.285

6.  Multiple functions of Ldb1 required for beta-globin activation during erythroid differentiation.

Authors:  Sang-Hyun Song; AeRi Kim; Tobias Ragoczy; M A Bender; Mark Groudine; Ann Dean
Journal:  Blood       Date:  2010-06-22       Impact factor: 22.113

Review 7.  Enhancer-promoter interference and its prevention in transgenic plants.

Authors:  Stacy D Singer; Kerik D Cox; Zongrang Liu
Journal:  Plant Cell Rep       Date:  2010-12-19       Impact factor: 4.570

8.  Mutation of a barrier insulator in the human ankyrin-1 gene is associated with hereditary spherocytosis.

Authors:  Patrick G Gallagher; Laurie A Steiner; Robert I Liem; Ashley N Owen; Amanda P Cline; Nancy E Seidel; Lisa J Garrett; David M Bodine
Journal:  J Clin Invest       Date:  2010-11-22       Impact factor: 14.808

Review 9.  Manipulating nuclear architecture.

Authors:  Wulan Deng; Gerd A Blobel
Journal:  Curr Opin Genet Dev       Date:  2013-12-12       Impact factor: 5.578

10.  Bridging chromatin structure and function over a range of experimental spatial and temporal scales by molecular modeling.

Authors:  Stephanie Portillo-Ledesma; Tamar Schlick
Journal:  Wiley Interdiscip Rev Comput Mol Sci       Date:  2019-08-06
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