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Tag chromatin [597 articles]

Recent papers classified by the tag chromatin.
  • Genome-wide approaches to studying chromatin modifications
    Nat Rev Genet, Vol. 9, No. 3. (March 2008), pp. 179-191.
    by Dustin E Schones, Keji Zhao
    posted to chromatin genome-wide histone methylation by zwang on 2008-02-19 01:11:44 as ** along with 8 people bpcusack jyuh tmmurali dchughes vega cabbagezs idonaldson faion
  • A genome-wide analysis in Saccharomyces cerevisiae demonstrates the influence of chromatin modifiers on transcription
    Nature Genetics, Vol. 39, No. 3. (26 February 2007), pp. 303-309.
    by Israel Steinfeld, Ron Shamir, Martin Kupiec
    posted to chromatin genome-wide transcription yeast by zwang on 2007-03-19 13:32:22 as **
  • Integration of Genome and Chromatin Structure with Gene Expression Profiles To Predict c-MYC Recognition Site Binding and Function.
    PLoS Comput Biol, Vol. 3, No. 4. (6 April 2007)
    by Yili Chen, Thomas W W Blackwell, Ji Chen, Jing Gao, Angel W W Lee, David J J States
    posted to chromatin gene genome integration prediction structure by zwang on 2007-04-28 12:36:42 as ** along with 1 person and 2 groups kengg Bioinformatics Plantandetc
  • Identification and Characterization of Cell Type-Specific and Ubiquitous Chromatin Regulatory Structures in the Human Genome.
    PLoS Genet, Vol. 3, No. 8. (17 August 2007)
    by Hualin Xi, Hennady P P Shulha, Jane M M Lin, Teresa R R Vales, Yutao Fu, David M M Bodine, Ronald D G D McKay, Josh G G Chenoweth, Paul J J Tesar, Terrence S S Furey, Bing Ren, Zhiping Weng, Gregory E E Crawford
    posted to chromatin genome human regulatory structure by zwang on 2007-09-03 15:16:23 as * along with 5 people and 2 groups dchughes sebastien_vigneau cabbagezs maximilianh eviledv G4ID Genetics-of-Gambling
  • Trawler: de novo regulatory motif discovery pipeline for chromatin immunoprecipitation
    Nature Methods, Vol. 4, No. 7. (24 June 2007), pp. 563-565.
    by Laurence Ettwiller, Benedict Paten, Mirana Ramialison, Ewan Birney, Joachim Wittbrodt
    posted to chromatin motif prediction regulatory by zwang on 2007-08-28 03:56:29 as * along with 3 people and 1 group brant maximilianh fpattyn EisenLab
  • How chromatin-binding modules interpret histone modifications: lessons from professional pocket pickers
    Nature Structural & Molecular Biology, Vol. 14, No. 11. (05 November 2007), pp. 1025-1040.
    by Sean D Taverna, Haitao Li, Alexander J Ruthenburg, David C Allis, Dinshaw J Patel
    posted to chromatin chromatin-remodeling-modification review by zhlei on 2007-12-05 19:36:57 as ** along with 1 person jyuh
  • Cross-regulation of histone modifications
    Nature Structural & Molecular Biology, Vol. 14, No. 11. (05 November 2007), pp. 1017-1024.
    by John A Latham, Sharon YR Dent
    posted to chromatin chromatin-remodeling-modification review by zhlei on 2007-12-05 19:36:06 as **
  • Transcription and RNAi in heterochromatic gene silencing
    Nature Structural & Molecular Biology, Vol. 14, No. 11. (05 November 2007), pp. 1041-1048.
    by Marc Bühler, Danesh Moazed
    posted to chromatin chromatin-remodeling-modification review by zhlei on 2007-12-05 19:34:47 as **
  • Covalent modifications of histones during development and disease pathogenesis
    Nature Structural & Molecular Biology, Vol. 14, No. 11. (05 November 2007), pp. 1008-1016.
    by Sukesh R Bhaumik, Edwin Smith, Ali Shilatifard
    posted to chromatin chromatin-remodeling-modification review by zhlei on 2007-12-05 19:33:45 as ** along with 1 person epigenetics
  • Chromatin remodeling: insights and intrigue from single-molecule studies
    Nature Structural & Molecular Biology, Vol. 14, No. 11. (05 November 2007), pp. 989-996.
    by Bradley R Cairns
    posted to chromatin chromatin-remodeling-modification review by zhlei on 2007-12-05 19:31:02 as ** along with 2 people and 2 groups skoch3 cwbrown Koch_Lab EisenLab
  • Chromosomal proteins in the spermatogenesis of Drosophila.
    Chromosoma, Vol. 111, No. 8. (May 2003), pp. 489-494.
    by W Hennig
    posted to chromatin drosophila spermatogenesis by zhlei on 2005-04-20 02:52:02 as ** along with 1 person RMGraze
  • The DNA Damage Response: Ten Years After
    Molecular Cell, Vol. 28, No. 5. (14 December 2007), pp. 739-745.
    by Wade J Harper, Stephen J Elledge
    posted to chromatin chromatin-remodeling-modification dna-damage review by zhlei on 2007-12-18 23:50:27 as **** along with 2 people jyuh TOchi
  • RNF8 Transduces the DNA-Damage Signal via Histone Ubiquitylation and Checkpoint Protein Assembly.
    Cell, Vol. 131, No. 5. (30 November 2007), pp. 901-914.
    by MS Huen, R Grant, I Manke, K Minn, X Yu, MB Yaffe, J Chen
    posted to chromatin chromatin-remodeling-modification dna-damage h2ax histone phosphorylation rnf8 ubiquitin ubiquitination by zhlei on 2007-12-13 16:31:38 as read
  • Chromatin modifications and their function.
    Cell, Vol. 128, No. 4. (23 February 2007), pp. 693-705.
    by T Kouzarides
    posted to chromatin chromatin-remodeling-modification histone modification review by zhlei on 2007-11-21 21:11:31 as ** along with 1 person jyuh
  • Histone variant H2A.Z marks the 5' ends of both active and inactive genes in euchromatin.
    Cell, Vol. 123, No. 2. (21 October 2005), pp. 233-248.
    by RM Raisner, PD Hartley, MD Meneghini, MZ Bao, CL Liu, SL Schreiber, OJ Rando, HD Madhani
    posted to acetylation chromatin histone histone-modification by zhlei on 2007-11-29 04:55:55 as **
  • Heterochromatin is refractory to gamma-H2AX modification in yeast and mammals
    J. Cell Biol., Vol. 178, No. 2. (16 July 2007), pp. 209-218.
    by Jung-Ae Kim, Michael Kruhlak, Farokh Dotiwala, Andre Nussenzweig, James E Haber
    posted to chromatin chromatin-remodeling-modification dna-damage h2a h2ax histone phosphorylation yeast by zhlei on 2007-12-19 20:35:32 as **
  • Single-nucleosome mapping of histone modifications in S. cerevisiae.
    PLoS Biol, Vol. 3, No. 10. (October 2005)
    by CL Liu, T Kaplan, M Kim, S Buratowski, SL Schreiber, N Friedman, OJ Rando
    posted to chromatin chromatin-remodeling-modification histone histone-modification by zhlei on 2007-11-29 03:52:12 as ** along with 3 people and 1 group shantanu nucleosome olympos Chromatin
  • Acetylation by Tip60 is required for selective histone variant exchange at DNA lesions.
    Science, Vol. 306, No. 5704. (17 December 2004), pp. 2084-2087.
    by T Kusch, L Florens, WH Macdonald, SK Swanson, RL Glaser, JR Yates, SM Abmayr, MP Washburn, JL Workman
    posted to chromatin chromatin-remodeling-modification dna-damage drosophila h2a h2av tip60 by zhlei on 2007-12-14 20:33:50 as **
  • Molecular basis for site-specific read-out of histone H3K4me3 by the BPTF PHD finger of NURF
    Nature, Vol. 442, No. 7098. (21 May 2006), pp. 91-95.
    by Haitao Li, Serge Ilin, Wooikoon Wang, Elizabeth M Duncan, Joanna Wysocka, David C Allis, Dinshaw J Patel
    posted to chromatin chromatin-binding chromatin-remodeling-modification h3k4 histone histone-modification methylation phd by zhlei on 2007-12-19 19:58:06 as ** along with 1 person and 1 group kengg Plantandetc
  • PHD Domain-Mediated E3 Ligase Activity Directs Intramolecular Sumoylation of an Adjacent Bromodomain Required for Gene Silencing.
    Mol Cell, Vol. 28, No. 5. (14 December 2007), pp. 823-837.
    by AV Ivanov, H Peng, V Yurchenko, KL Yap, DG Negorev, DC Schultz, E Psulkowski, WJ Fredericks, DE White, GG Maul, MJ Sadofsky, MM Zhou, FJ Rauscher
    posted to bromodomain chromatin chromatin-remodeling-modification phd by zhlei on 2007-12-19 19:26:21 as **
  • Chromatin challenges during DNA replication and repair.
    Cell, Vol. 128, No. 4. (23 February 2007), pp. 721-733.
    by A Groth, W Rocha, A Verreault, G Almouzni
    posted to chromatin chromatin-remodeling-modification dna-damage repair review by zhlei on 2007-11-24 02:58:27 as ** along with 1 person sebastien_vigneau
  • A PHD finger of NURF couples histone H3 lysine 4 trimethylation with chromatin remodelling
    Nature, Vol. 442, No. 7098. (21 May 2006), pp. 86-90.
    by Joanna Wysocka, Tomek Swigut, Hua Xiao, Thomas A Milne, So Y Kwon, Joe Landry, Monika Kauer, Alan J Tackett, Brian T Chait, Paul Badenhorst, Carl Wu, David C Allis
    posted to chromatin chromatin-remodeling-modification methylation by zhlei on 2007-11-24 00:26:55 as ** along with 1 person and 1 group kengg Plantandetc
  • Gene regulationA finger on the mark
    Nature, Vol. 442, No. 7098. (05 July 2006), pp. 31-32.
    by Peter B Becker
    posted to chromatin chromatin-remodeling-modification methylation review by zhlei on 2007-11-24 00:26:04 as ** along with 1 person and 2 groups dchughes G4ID Genetics-of-Gambling
  • The human CENP-A centromeric nucleosome-associated complex
    Nature Cell Biology, Vol. 8, No. 5. (16 April 2006), pp. 458-469.
    by Daniel R Foltz, Lars ET Jansen, Ben E Black, Aaron O Bailey, John R Yates, Don W Cleveland
    posted to nucleosome ip chromatin by zhlei on 2008-07-30 17:29:20 as ** along with 1 person stonest
  • Acetylation of H2AZ Lys 14 is associated with genome-wide gene activity in yeast.
    Genes Dev, Vol. 20, No. 6. (15 March 2006), pp. 711-722.
    by CB Millar, F Xu, K Zhang, M Grunstein
    posted to chromatin histone histone-modification by zhlei on 2007-11-29 15:40:19 as **
  • The effect of poly(ADP-ribosyl)ation on native and H1-depleted chromatin. A role of poly(ADP-ribosyl)ation on core nucleosome structure.
    J Biol Chem, Vol. 264, No. 15. (25 May 1989), pp. 8878-8886.
    by A Huletsky, G de Murcia, S Muller, M Hengartner, L Ménard, D Lamarre, GG Poirier
    posted to chromatin chromatinremodeling histones par parp by yedmonds on 2005-06-22 20:37:41 as **
  • Poly(ADP-ribose) may signal changing metabolic conditions to the chromatin of mammalian cells.
    Proc Natl Acad Sci U S A, Vol. 84, No. 5. (March 1987), pp. 1286-1289.
    by P Loetscher, R Alvarez-Gonzalez, FR Althaus
    posted to chromatin par by yedmonds on 2005-06-22 20:26:46 as read
  • Nuclear protein modification and chromatin substructure. 2. Internucleosomal localization of poly(adenosine diphosphate-ribose) polymerase.
    Biochemistry, Vol. 17, No. 17. (22 August 1978), pp. 3501-3504.
    by CP Giri, MH West, ML Ramirez, M Smulson
    posted to chromatin par by yedmonds on 2005-06-22 18:05:13 as *
  • Nuclear protein modification and chromatin substructure. 1. Differential poly(adenosine diphosphate) ribosylation of chromosomal proteins in nuclei versus isolated nucleosomes.
    Biochemistry, Vol. 17, No. 17. (22 August 1978), pp. 3495-3500.
    by CP Giri, MH West, M Smulson
    posted to chromatin par by yedmonds on 2005-06-22 18:04:52 as *
  • Poly(ADP-ribosyl)ation of chromatin in an in-vitro poly(ADP-ribose)-turnover system.
    Biochim Biophys Acta, Vol. 1137, No. 2. (27 October 1992), pp. 171-181.
    by H Thomassin, L Ménard, C Hengartner, JB Kirkland, GG Poirier
    posted to chromatin par by yedmonds on 2005-06-27 17:38:54 as **
  • RNA meets chromatin.
    Genes Dev, Vol. 19, No. 14. (15 July 2005), pp. 1635-1655.
    by E Bernstein, CD Allis
    posted to chromatin review rna by xico on 2006-01-28 00:26:25 as *** along with 2 people and 1 group jasonflannick bootsy WetBiology
  • Chromatin structure and evolution in the human genome
    BMC Evolutionary Biology, Vol. 7 (09 May 2007), 72.
    by James GD Prendergast, Harry Campbell, Nick Gilbert, Malcolm G Dunlop, Wendy A Bickmore, Colin AM Semple
    posted to evolution chromatin by vega on 2008-04-25 06:32:30 as **
  • High-throughput mapping of the chromatin structure of human promoters
    Nat Biotech, Vol. 25, No. 2. (February 2007), pp. 244-248.
    by Fatih Ozsolak, Jun S Song, Shirley X Liu, David E Fisher
    posted to chromatin tfbs by vega on 2008-03-03 02:15:19 as ** along with 5 people and 2 groups jyuh aalibes jfr dchughes ccr G4ID Genetics-of-Gambling
  • EPIGENOMICS: BEYOND CPG ISLANDS
    Nat Rev Genet, Vol. 5, No. 6. (June 2004), pp. 446-455.
    by Melissa J Fazzari, John M Greally
    posted to chromatin by vega on 2008-04-07 08:09:18 as ** along with 2 people rdiaz olympos
  • Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions
    Nature (07 May 2008)
    by Lars Guelen, Ludo Pagie, Emilie Brasset, Wouter Meuleman, Marius B Faza, Wendy Talhout, Bert H Eussen, Annelies de Klein, Lodewyk Wessels, Wouter de Laat, Bas van Steensel
    posted to nucleosome epigenetic chromatin by vega on 2008-06-20 06:22:00 as ** along with 1 person rschulz
  • Cyclical DNA methylation of a transcriptionally active promoter
    Nature, Vol. 452, No. 7183. (6 March 2008), pp. 45-50.
    by Raphael Metivier, Rozenn Gallais, Christophe Tiffoche, Christine Le Peron, Renata Z Jurkowska, Richard P Carmouche, David Ibberson, Peter Barath, Florence Demay, George Reid, Vladimir Benes, Albert Jeltsch, Frank Gannon, Gilles Salbert
    posted to chromatin tfbs by vega on 2008-03-06 10:38:31 as ** along with 3 people djkt epigenetics clearbluespring
  • Transient cyclical methylation of promoter DNA
    Nature, Vol. 452, No. 7183. (6 March 2008), pp. 112-115.
    by Sara Kangaspeska, Brenda Stride, Raphael Metivier, Maria Polycarpou-Schwarz, David Ibberson, Richard P Carmouche, Vladimir Benes, Frank Gannon, George Reid
    posted to chromatin tfbs by vega on 2008-03-06 10:38:18 as ** along with 4 people djkt maximilianh clearbluespring dunnp
  • A high-resolution, nucleosome position map of C. elegans reveals a lack of universal sequence-dictated positioning
    Genome Res. (13 May 2008), gr.076463.108.
    by Anton Valouev, Jeffrey Ichikawa, Thaisan Tonthat, Jeremy Stuart, Swati Ranade, Heather Peckham, Kathy Zeng, Joel A Malek, Gina Costa, Kevin Mckernan, Arend Sidow, Andrew Fire, Steven M Johnson
    posted to histone epigenetic chromatin bioinformatics by vega on 2008-06-13 04:07:54 as ** along with 5 people and 1 group caseybrown aalibes Stew dpollard maximilianh RockmanLab
  • A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome
    Genome Res. (12 June 2008), gr.078261.108.
    by Travis N Mavrich, Ilya P Ioshikhes, Bryan J Venters, Cizhong Jiang, Lynn P Tomsho, Ji Qi, Stephan C Schuster, Istvan Albert, Franklin B Pugh
    posted to histone epigenetic chromatin bioinformatics by vega on 2008-06-13 04:06:08 as *** along with 1 person aalibes
  • Acetylated Lysine 56 on Histone H3 Drives Chromatin Assembly after Repair and Signals for the Completion of Repair
    Cell, Vol. 134, No. 2. (25 July 2008), pp. 231-243.
    by Chin-Chuan Chen, Joshua J Carson, Jason Feser, Beth Tamburini, Susan Zabaronick, Jeffrey Linger, Jessica K Tyler
    posted to histone chromatin by vega on 2008-07-29 08:57:25 as ** along with 1 person inesdesantiago
  • Acetylation of Histone H3 Lysine 56 Regulates Replication-Coupled Nucleosome Assembly
    Cell, Vol. 134, No. 2. (25 July 2008), pp. 244-255.
    by Qing Li, Hui Zhou, Hugo Wurtele, Brian Davies, Bruce Horazdovsky, Alain Verreault, Zhiguo Zhang
    posted to histone chromatin by vega on 2008-07-29 08:56:12 as *** along with 1 person inesdesantiago
  • Translational and rotational settings of H2A.Z nucleosomes across the Saccharomycescerevisiae genome
    Nature, Vol. 446, No. 7135., pp. 572-576.
    by Istvan Albert, Travis N Mavrich, Lynn P Tomsho, Ji Qi, Sara J Zanton, Stephan C Schuster, Franklin B Pugh
    posted to nucleosome histone epigenetic chromatin bioinformatics by vega on 2008-06-18 09:56:38 as ** along with 2 people and 1 group cwbrown lusk EisenLab
  • Dynamic Remodeling of Individual Nucleosomes Across a Eukaryotic Genome in Response to Transcriptional Perturbation
    PLoS Biology, Vol. 6, No. 3. (1 March 2008), e65.
    by Sushma Shivaswamy, Akshay Bhinge, Yongjun Zhao, Steven Jones, Martin Hirst, Vishwanath R Iyer
    posted to nucleosome histone epigenetic chromatin bioinformatics by vega on 2008-06-18 09:40:47 as ** along with 2 people djkt lusk
  • DNA Immunoprecipitation (DIP) for the Determination of DNA-Binding Specificity
    Cold Spring Harbor Protocols, Vol. 2008, No. 4. (1 March 2008), pdb.prot4972.
    by Andrea J Gossett, Jason D Lieb
    posted to tfbs chromatin by vega on 2008-06-18 09:40:17 as ** along with 2 people jyuh dacrotty
  • ChIP-Seq Data Reveal Nucleosome Architecture of Human Promoters
    Cell, Vol. 131, No. 5. (30 November 2007), pp. 831-832.
    by Christoph D Schmid, Philipp Bucher
    posted to nucleosome histone chromatin bioinformatics by vega on 2008-06-18 09:31:20 as ** along with 2 people dquest mikaelhuss
  • Dynamic Regulation of Nucleosome Positioning in the Human Genome
    Cell, Vol. 132, No. 5. (7 March 2008), pp. 887-898.
    by Dustin E Schones, Kairong Cui, Suresh Cuddapah, Tae-Young Roh, Artem Barski, Zhibin Wang, Gang Wei, Keji Zhao
    posted to sonication sequencing nucleosome epigenetic chromatin bioinformatics by vega on 2008-06-30 15:16:33 as ** along with 7 people mikaelhuss sameetmehta aalibes dchughes sleepingcell idonaldson oelemento
  • An integrated resource for genome-wide identification and analysis of human tissue-specific differentially methylated regions (tDMRs)
    Genome Res. (24 June 2008), gr.077479.108.
    by Vardhman Rakyan, Thomas Down, Natalie Thorne, Paul Flicek, Eugene Kulesha, Stefan Graf, Eleni Tomazou, Liselotte Backdahl, Nathan Johnson, Marils Herberth, Kevin Howe, David Jackson, Marcos Miretti, Heike Fiegler, John Marioni, Ewan Birney, Tim Hubbard, Nigel Carter, Simon Tavare, Stephan Beck
    posted to methylation histone chromatin chip bioinformatics by vega on 2008-06-30 15:15:46 as ** along with 2 people niallhaslam rschulz
  • An intact histone 3'-processing site is required for transcription termination in a mouse histone H2a gene.
    Molecular and cellular biology, Vol. 11, No. 1. (January 1991), pp. 497-509.
    by N Chodchoy, NB Pandey, WF Marzluff
    posted to transcription-termination histone epigenetic chromatin by vega on 2008-05-15 10:27:58 as **
  • Genome-wide maps of chromatin state in pluripotent and lineage-committed cells
    Nature (01 July 2007)
    by Tarjei S Mikkelsen, Manching Ku, David B Jaffe, Biju Issac, Erez Lieberman, Georgia Giannoukos, Pablo Alvarez, William Brockman, Tae-Kyung Kim, Richard P Koche, William Lee, Eric Mendenhall, Aisling O’donovan, Aviva Presser, Carsten Russ, Xiaohui Xie, Alexander Meissner, Marius Wernig, Rudolf Jaenisch, Chad Nusbaum, Eric S Lander, Bradley E Bernstein
    posted to chromatin by vega on 2008-04-22 10:22:29 as ** along with 13 people and 1 group inesdesantiago jasonflannick jyuh brant dchughes kengg vplagnol olympos epigenetics bioyang cabbagezs rschulz slevy03 EisenLab
  • 3' Processing and termination of mouse histone transcripts synthesized in vitro by RNA polymerase II
    Nucl. Acids Res., Vol. 24, No. 19. (1 October 1996), pp. 3797-3805.
    by X Gu, WF Marzluff
    posted to transcription-termination histone epigenetic chromatin by vega on 2008-05-15 09:32:11 as **
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