Dynamic Regulation of Nucleosome Positioning in the Human Genome

[1]  S. Schreiber,et al.  Histone Variant H2A.Z Marks the 5′ Ends of Both Active and Inactive Genes in Euchromatin , 2006, Cell.

[2]  Manolis Kellis,et al.  RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo , 2007, Nature Genetics.

[3]  Ruchir Shah,et al.  RNA polymerase is poised for activation across the genome , 2007, Nature Genetics.

[4]  Ronald W. Davis,et al.  A high-resolution atlas of nucleosome occupancy in yeast , 2007, Nature Genetics.

[5]  K. Struhl,et al.  The Swi/Snf Complex Is Important for Histone Eviction during Transcriptional Activation and RNA Polymerase II Elongation In Vivo , 2007, Molecular and Cellular Biology.

[6]  T. Mikkelsen,et al.  Genome-wide maps of chromatin state in pluripotent and lineage-committed cells , 2007, Nature.

[7]  R. Young,et al.  A Chromatin Landmark and Transcription Initiation at Most Promoters in Human Cells , 2007, Cell.

[8]  M. Grunstein,et al.  Functions of site-specific histone acetylation and deacetylation. , 2007, Annual review of biochemistry.

[9]  C. Jin,et al.  Nucleosome stability mediated by histone variants H3.3 and H2A.Z. , 2007, Genes & development.

[10]  William Stafford Noble,et al.  Independent and complementary methods for large-scale structural analysis of mammalian chromatin. , 2007, Genome research.

[11]  Dustin E. Schones,et al.  High-Resolution Profiling of Histone Methylations in the Human Genome , 2007, Cell.

[12]  I. Albert,et al.  Translational and rotational settings of H2A.Z nucleosomes across the Saccharomyces cerevisiae genome , 2007, Nature.

[13]  S. Henikoff,et al.  Histone Replacement Marks the Boundaries of cis-Regulatory Domains , 2007, Science.

[14]  Nathaniel D. Heintzman,et al.  Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome , 2007, Nature Genetics.

[15]  Bing Li,et al.  The Role of Chromatin during Transcription , 2007, Cell.

[16]  T. Kouzarides.  Chromatin Modifications and Their Function , 2007, Cell.

[17]  J. Workman,et al.  Activation domains drive nucleosome eviction by SWI/SNF , 2007, The EMBO journal.

[18]  Jun S. Song,et al.  High-throughput mapping of the chromatin structure of human promoters , 2007, Nature Biotechnology.

[19]  Fan Zhang,et al.  Gcn5 promotes acetylation, eviction, and methylation of nucleosomes in transcribed coding regions. , 2007, Molecular cell.

[20]  Keji Zhao,et al.  Genome-wide prediction of conserved and nonconserved enhancers by histone acetylation patterns. , 2006, Genome research.

[21]  C. Jin,et al.  Nucleosome stability mediated by histone variants H 3 . 3 and H 2 , 2007 .

[22]  Steven M. Johnson,et al.  Flexibility and constraint in the nucleosome core landscape of Caenorhabditis elegans chromatin. , 2006, Genome research.

[23]  Suresh Cuddapah,et al.  The genomic landscape of histone modifications in human T cells , 2006, Proceedings of the National Academy of Sciences.

[24]  I. Albert,et al.  Nucleosome positions predicted through comparative genomics , 2006, Nature Genetics.

[25]  Irene K. Moore,et al.  A genomic code for nucleosome positioning , 2006, Nature.

[26]  Toshio Tsukiyama,et al.  Antagonistic forces that position nucleosomes in vivo , 2006, Nature Structural &Molecular Biology.

[27]  Henriette O'Geen,et al.  Suz12 binds to silenced regions of the genome in a cell-type-specific manner. , 2006, Genome research.

[28]  R. Singer,et al.  Transcriptional Pulsing of a Developmental Gene , 2006, Current Biology.

[29]  J. Zeitlinger,et al.  Polycomb complexes repress developmental regulators in murine embryonic stem cells , 2006, Nature.

[30]  David Haussler,et al.  The UCSC Known Genes , 2006, Bioinform..

[31]  Megan F. Cole,et al.  Control of Developmental Regulators by Polycomb in Human Embryonic Stem Cells , 2006, Cell.

[32]  James A. Cuff,et al.  A Bivalent Chromatin Structure Marks Key Developmental Genes in Embryonic Stem Cells , 2006, Cell.

[33]  Mathieu Blanchette,et al.  Variant Histone H2A.Z Is Globally Localized to the Promoters of Inactive Yeast Genes and Regulates Nucleosome Positioning , 2005, PLoS biology.

[34]  B. Cairns,et al.  Genome-Wide Dynamics of Htz1, a Histone H2A Variant that Poises Repressed/Basal Promoters for Activation through Histone Loss , 2005, Cell.

[35]  Megan F. Cole,et al.  Genome-wide Map of Nucleosome Acetylation and Methylation in Yeast , 2005, Cell.

[36]  Leah Barrera,et al.  A high-resolution map of active promoters in the human genome , 2005, Nature.

[37]  Lani F. Wu,et al.  Genome-Scale Identification of Nucleosome Positions in S. cerevisiae , 2005, Science.

[38]  Keji Zhao,et al.  Active chromatin domains are defined by acetylation islands revealed by genome-wide mapping. , 2005, Genes & development.

[39]  Eric S. Lander,et al.  Genomic Maps and Comparative Analysis of Histone Modifications in Human and Mouse , 2005, Cell.

[40]  S. Schreiber,et al.  Global nucleosome occupancy in yeast , 2004, Genome Biology.

[41]  J. Lieb,et al.  Evidence for nucleosome depletion at active regulatory regions genome-wide , 2004, Nature Genetics.

[42]  C. Peterson,et al.  Histones and histone modifications , 2004, Current Biology.

[43]  David Landsman,et al.  High-resolution genome-wide mapping of histone modifications , 2004, Nature Biotechnology.

[44]  Steven Henikoff,et al.  Histone variants, nucleosome assembly and epigenetic inheritance. , 2004, Trends in genetics : TIG.

[45]  Andrew J Link,et al.  A Protein Complex Containing the Conserved Swi2/Snf2-Related ATPase Swr1p Deposits Histone Variant H2A.Z into Euchromatin , 2004, PLoS biology.

[46]  Wei-Hua Wu,et al.  ATP-Driven Exchange of Histone H2AZ Variant Catalyzed by SWR1 Chromatin Remodeling Complex , 2004, Science.

[47]  Terrence S. Furey,et al.  The UCSC Table Browser data retrieval tool , 2004, Nucleic Acids Res..

[48]  Huiming Ding,et al.  A Snf2 family ATPase complex required for recruitment of the histone H2A variant Htz1. , 2003, Molecular cell.

[49]  H. Reinke,et al.  Histones are first hyperacetylated and then lose contact with the activated PHO5 promoter. , 2003, Molecular cell.

[50]  J Seth Strattan,et al.  Nucleosomes unfold completely at a transcriptionally active promoter. , 2003, Molecular cell.

[51]  S. Lomvardas,et al.  Modifying Gene Expression Programs by Altering Core Promoter Chromatin Architecture , 2002, Cell.

[52]  R. Kornberg,et al.  Chromatin and transcription: where do we go from here. , 2002, Current opinion in genetics & development.

[53]  S. Berger,et al.  Histone modifications in transcriptional regulation. , 2002, Current opinion in genetics & development.

[54]  D. Reinberg,et al.  Transcription regulation by histone methylation: interplay between different covalent modifications of the core histone tails. , 2001, Genes & development.

[55]  Tatyana Kalashnikova,et al.  Histone H2A.Z Regulates Transcription and Is Partially Redundant with Nucleosome Remodeling Complexes , 2000, Cell.

[56]  W. Miller,et al.  Identification of a coordinate regulator of interleukins 4, 13, and 5 by cross-species sequence comparisons. , 2000, Science.

[57]  R. Kingston,et al.  ATP-dependent remodeling and acetylation as regulators of chromatin fluidity. , 1999, Genes & development.

[58]  R. Kornberg,et al.  Twenty-Five Years of the Nucleosome, Fundamental Particle of the Eukaryote Chromosome , 1999, Cell.

[59]  T. Richmond,et al.  Crystal structure of the nucleosome core particle at 2.8 Å resolution , 1997, Nature.

[60]  G. Längst,et al.  Structural analysis of mouse rDNA: coincidence between nuclease hypersensitive sites, DNA curvature and regulatory elements in the intergenic spacer. , 1997, Nucleic acids research.

[61]  J. Workman,et al.  Persistent Site-Specific Remodeling of a Nucleosome Array by Transient Action of the SWI/SNF Complex , 1996, Science.

[62]  L. Stryer,et al.  Statistical distributions of nucleosomes: nonrandom locations by a stochastic mechanism. , 1988, Nucleic acids research.

[63]  H. Richard-Foy,et al.  Sequence‐specific positioning of nucleosomes over the steroid‐inducible MMTV promoter. , 1987, The EMBO journal.

[64]  R. Kornberg,et al.  Nucleosomes inhibit the initiation of transcription but allow chain elongation with the displacement of histones , 1987, Cell.

[65]  H. Drew,et al.  Sequence periodicities in chicken nucleosome core DNA. , 1986, Journal of molecular biology.

[66]  Stat Pairs,et al.  Statistical Algorithms Description Document , 2022 .