Literature DB >> 19299119

Characterization of human epigenomes.

Zhibin Wang1, Dustin E Schones, Keji Zhao.   

Abstract

Histone modifications play a key role in regulating transcription and thus ultimately regulate cellular development and differentiation. To understand how histone modifications influence normal development and disease states, a global catalogue of histone modifications and modifying enzymes in normal and disease states is necessary. The first such systematic mapping experiments using the recently developed ChIP-Sequencing technique have revealed a combinatorial modification 'backbone' consisting of multiple histone modifications associated with active transcription. The human epigenomic datasets that are now being produced provide valuable resources for a better understanding of the functional regulatory elements of transcription and the pathways necessary for normal cellular development and pathological conditions.

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Year:  2009        PMID: 19299119      PMCID: PMC2699568          DOI: 10.1016/j.gde.2009.02.001

Source DB:  PubMed          Journal:  Curr Opin Genet Dev        ISSN: 0959-437X            Impact factor:   5.578


  55 in total

1.  Genomic maps and comparative analysis of histone modifications in human and mouse.

Authors:  Bradley E Bernstein; Michael Kamal; Kerstin Lindblad-Toh; Stefan Bekiranov; Dione K Bailey; Dana J Huebert; Scott McMahon; Elinor K Karlsson; Edward J Kulbokas; Thomas R Gingeras; Stuart L Schreiber; Eric S Lander
Journal:  Cell       Date:  2005-01-28       Impact factor: 41.582

2.  Histone modifications: combinatorial complexity or cumulative simplicity?

Authors:  Steven Henikoff
Journal:  Proc Natl Acad Sci U S A       Date:  2005-04-05       Impact factor: 11.205

3.  Genome-wide map of nucleosome acetylation and methylation in yeast.

Authors:  Dmitry K Pokholok; Christopher T Harbison; Stuart Levine; Megan Cole; Nancy M Hannett; Tong Ihn Lee; George W Bell; Kimberly Walker; P Alex Rolfe; Elizabeth Herbolsheimer; Julia Zeitlinger; Fran Lewitter; David K Gifford; Richard A Young
Journal:  Cell       Date:  2005-08-26       Impact factor: 41.582

4.  A high-resolution map of active promoters in the human genome.

Authors:  Tae Hoon Kim; Leah O Barrera; Ming Zheng; Chunxu Qu; Michael A Singer; Todd A Richmond; Yingnian Wu; Roland D Green; Bing Ren
Journal:  Nature       Date:  2005-06-29       Impact factor: 49.962

5.  Control of developmental regulators by Polycomb in human embryonic stem cells.

Authors:  Tong Ihn Lee; Richard G Jenner; Laurie A Boyer; Matthew G Guenther; Stuart S Levine; Roshan M Kumar; Brett Chevalier; Sarah E Johnstone; Megan F Cole; Kyo-ichi Isono; Haruhiko Koseki; Takuya Fuchikami; Kuniya Abe; Heather L Murray; Jacob P Zucker; Bingbing Yuan; George W Bell; Elizabeth Herbolsheimer; Nancy M Hannett; Kaiming Sun; Duncan T Odom; Arie P Otte; Thomas L Volkert; David P Bartel; Douglas A Melton; David K Gifford; Rudolf Jaenisch; Richard A Young
Journal:  Cell       Date:  2006-04-21       Impact factor: 41.582

6.  A bivalent chromatin structure marks key developmental genes in embryonic stem cells.

Authors:  Bradley E Bernstein; Tarjei S Mikkelsen; Xiaohui Xie; Michael Kamal; Dana J Huebert; James Cuff; Ben Fry; Alex Meissner; Marius Wernig; Kathrin Plath; Rudolf Jaenisch; Alexandre Wagschal; Robert Feil; Stuart L Schreiber; Eric S Lander
Journal:  Cell       Date:  2006-04-21       Impact factor: 41.582

Review 7.  Genomic DNA methylation: the mark and its mediators.

Authors:  Robert J Klose; Adrian P Bird
Journal:  Trends Biochem Sci       Date:  2006-01-05       Impact factor: 13.807

Review 8.  Controlling DNA methylation: many roads to one modification.

Authors:  Michael Freitag; Eric U Selker
Journal:  Curr Opin Genet Dev       Date:  2005-04       Impact factor: 5.578

9.  Global mapping of H3K4me3 and H3K27me3 reveals specificity and plasticity in lineage fate determination of differentiating CD4+ T cells.

Authors:  Gang Wei; Lai Wei; Jinfang Zhu; Chongzhi Zang; Jane Hu-Li; Zhengju Yao; Kairong Cui; Yuka Kanno; Tae-Young Roh; Wendy T Watford; Dustin E Schones; Weiqun Peng; Hong-Wei Sun; William E Paul; John J O'Shea; Keji Zhao
Journal:  Immunity       Date:  2009-01-16       Impact factor: 31.745

10.  Chromatin signatures of pluripotent cell lines.

Authors:  Véronique Azuara; Pascale Perry; Stephan Sauer; Mikhail Spivakov; Helle F Jørgensen; Rosalind M John; Mina Gouti; Miguel Casanova; Gary Warnes; Matthias Merkenschlager; Amanda G Fisher
Journal:  Nat Cell Biol       Date:  2006-03-29       Impact factor: 28.824

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  88 in total

1.  Histone methyltransferase Dot1L plays a role in postembryonic development in Xenopus tropicalis.

Authors:  Luan Wen; Liezhen Fu; Xiaogang Guo; Yonglong Chen; Yun-Bo Shi
Journal:  FASEB J       Date:  2014-11-03       Impact factor: 5.191

2.  A barrier-only boundary element delimits the formation of facultative heterochromatin in Drosophila melanogaster and vertebrates.

Authors:  Nianwei Lin; Xingguo Li; Kairong Cui; Iouri Chepelev; Feng Tie; Bo Liu; Guangyao Li; Peter Harte; Keji Zhao; Suming Huang; Lei Zhou
Journal:  Mol Cell Biol       Date:  2011-04-25       Impact factor: 4.272

3.  Liganded thyroid hormone receptor induces nucleosome removal and histone modifications to activate transcription during larval intestinal cell death and adult stem cell development.

Authors:  Kazuo Matsuura; Kenta Fujimoto; Liezhen Fu; Yun-Bo Shi
Journal:  Endocrinology       Date:  2011-12-06       Impact factor: 4.736

4.  A unique H3K4me2 profile marks tissue-specific gene regulation.

Authors:  Aleksandra Pekowska; Touati Benoukraf; Pierre Ferrier; Salvatore Spicuglia
Journal:  Genome Res       Date:  2010-09-14       Impact factor: 9.043

Review 5.  Systems biology in immunology: a computational modeling perspective.

Authors:  Ronald N Germain; Martin Meier-Schellersheim; Aleksandra Nita-Lazar; Iain D C Fraser
Journal:  Annu Rev Immunol       Date:  2011       Impact factor: 28.527

6.  Chromatin dynamics of gene activation and repression in response to interferon alpha (IFN(alpha)) reveal new roles for phosphorylated and unphosphorylated forms of the transcription factor STAT2.

Authors:  Barbara Testoni; Christine Völlenkle; Francesca Guerrieri; Sabine Gerbal-Chaloin; Giovanni Blandino; Massimo Levrero
Journal:  J Biol Chem       Date:  2011-04-15       Impact factor: 5.157

7.  p63 and Brg1 control developmentally regulated higher-order chromatin remodelling at the epidermal differentiation complex locus in epidermal progenitor cells.

Authors:  Andrei N Mardaryev; Michal R Gdula; Joanne L Yarker; Vladimir U Emelianov; Vladimir N Emelianov; Krzysztof Poterlowicz; Andrey A Sharov; Tatyana Y Sharova; Julie A Scarpa; Boris Joffe; Irina Solovei; Pierre Chambon; Vladimir A Botchkarev; Michael Y Fessing
Journal:  Development       Date:  2014-01       Impact factor: 6.868

Review 8.  Diabetic embryopathy: a role for the epigenome?

Authors:  J Michael Salbaum; Claudia Kappen
Journal:  Birth Defects Res A Clin Mol Teratol       Date:  2011-05-02

Review 9.  Histone modifications and chromatin organization in prostate cancer.

Authors:  Zhong Chen; Liguo Wang; Qianben Wang; Wei Li
Journal:  Epigenomics       Date:  2010-08       Impact factor: 4.778

Review 10.  Epigenetic modifications in 3D: nuclear organization of the differentiating mammary epithelial cell.

Authors:  Clémence Kress; Maria Ballester; Eve Devinoy; Monique Rijnkels
Journal:  J Mammary Gland Biol Neoplasia       Date:  2010-02-10       Impact factor: 2.673

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