Literature DB >> 21501387

Structure and function of active chromatin and DNase I hypersensitive sites.

Peter N Cockerill1.   

Abstract

Chromatin is by its very nature a repressive environment which restricts the recruitment of transcription factors and acts as a barrier to polymerases. Therefore the complex process of gene activation must operate at two levels. In the first instance, localized chromatin decondensation and nucleosome displacement is required to make DNA accessible. Second, sequence-specific transcription factors need to recruit chromatin modifiers and remodellers to create a chromatin environment that permits the passage of polymerases. In this review I will discuss the chromatin structural changes that occur at active gene loci and at regulatory elements that exist as DNase I hypersensitive sites.
© 2011 The Author Journal compilation © 2011 FEBS.

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Year:  2011        PMID: 21501387     DOI: 10.1111/j.1742-4658.2011.08128.x

Source DB:  PubMed          Journal:  FEBS J        ISSN: 1742-464X            Impact factor:   5.542


  55 in total

1.  Common, germline genetic variations in the novel tumor suppressor BAP1 and risk of developing different types of cancer.

Authors:  Moubin Lin; Liren Zhang; Michelle A T Hildebrandt; Maosheng Huang; Xifeng Wu; Yuanqing Ye
Journal:  Oncotarget       Date:  2017-08-24

2.  Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity.

Authors:  Lingyun Song; Zhancheng Zhang; Linda L Grasfeder; Alan P Boyle; Paul G Giresi; Bum-Kyu Lee; Nathan C Sheffield; Stefan Gräf; Mikael Huss; Damian Keefe; Zheng Liu; Darin London; Ryan M McDaniell; Yoichiro Shibata; Kimberly A Showers; Jeremy M Simon; Teresa Vales; Tianyuan Wang; Deborah Winter; Zhuzhu Zhang; Neil D Clarke; Ewan Birney; Vishwanath R Iyer; Gregory E Crawford; Jason D Lieb; Terrence S Furey
Journal:  Genome Res       Date:  2011-07-12       Impact factor: 9.043

3.  DNase I digestion of isolated nulcei for genome-wide mapping of DNase hypersensitivity sites in chromatin.

Authors:  Guoyu Ling; David J Waxman
Journal:  Methods Mol Biol       Date:  2013

4.  A time-series analysis of altered histone H3 acetylation and gene expression during the course of MMAIII-induced malignant transformation of urinary bladder cells.

Authors:  Jinqiu Zhu; Jie Wang; Xushen Chen; Maria Tsompana; Daniel Gaile; Michael Buck; Xuefeng Ren
Journal:  Carcinogenesis       Date:  2017-04-01       Impact factor: 4.944

5.  Regulatory cis-elements are located in accessible promoter regions of the CAT2 promoter and affect activating histone modifications in Arabidopsis thaliana.

Authors:  Miriam Laxa
Journal:  Plant Mol Biol       Date:  2016-10-12       Impact factor: 4.076

6.  Genetic and epigenetic determinants of inter-individual variability in responses to toxicants.

Authors:  Lauren Lewis; Gregory E Crawford; Terrence S Furey; Ivan Rusyn
Journal:  Curr Opin Toxicol       Date:  2017-09-12

Review 7.  3D genomics imposes evolution of the domain model of eukaryotic genome organization.

Authors:  Sergey V Razin; Yegor S Vassetzky
Journal:  Chromosoma       Date:  2016-06-10       Impact factor: 4.316

Review 8.  Next generation sequencing technology and genomewide data analysis: Perspectives for retinal research.

Authors:  Vijender Chaitankar; Gökhan Karakülah; Rinki Ratnapriya; Felipe O Giuste; Matthew J Brooks; Anand Swaroop
Journal:  Prog Retin Eye Res       Date:  2016-06-11       Impact factor: 21.198

9.  Incorporating Functional Genomic Information to Enhance Polygenic Signal and Identify Variants Involved in Gene-by-Environment Interaction for Young Adult Alcohol Problems.

Authors:  Jessica E Salvatore; Jeanne E Savage; Peter Barr; Aaron R Wolen; Fazil Aliev; Eero Vuoksimaa; Antti Latvala; Lea Pulkkinen; Richard J Rose; Jaakko Kaprio; Danielle M Dick
Journal:  Alcohol Clin Exp Res       Date:  2017-12-19       Impact factor: 3.455

Review 10.  ChIP-seq and beyond: new and improved methodologies to detect and characterize protein-DNA interactions.

Authors:  Terrence S Furey
Journal:  Nat Rev Genet       Date:  2012-10-23       Impact factor: 53.242

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