Items where Subject is "bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > Chromatin dynamics"

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Akhade, V. S., Arun, G., Donakonda, S., Satyanarayana Rao, M. R. (October 2014) Genome wide chromatin occupancy of mrhl RNA and its role in gene regulation in mouse spermatogonial cells. RNA Biol, 11 (10). pp. 1262-79. ISSN 1547-6286

Allemand, E., Myers, M. P., Garcia-Bernardo, J., Harel-Bellan, A., Krainer, A. R., Muchardt, C. (September 2016) A Broad Set of Chromatin Factors Influences Splicing. PLoS Genet, 12 (9). e1006318. ISSN 1553-7404 (Electronic)1553-7390 (Linking)

Almagro, S., Riveline, D., Hirano, T., Houchmandzadeh, B., Dimitrov, S. (February 2004) The mitotic chromosome is an assembly of rigid elastic axes organized by structural maintenance of chromosomes (SMC) proteins and surrounded by a soft chromatin envelope. Journal of Biological Chemistry, 279 (7). pp. 5118-5126. ISSN 0021-9258

Alpatov, R., Lesch, B. J., Nakamoto-Kinoshita, M., Blanco, A., Chen, S., Stutzer, A., Armache, K. J., Simon, M. D., Xu, C., Ali, M., Murn, J., Prisic, S., Kutateladze, T. G., Vakoc, C. R., Min, J., Kingston, R. E., Fischle, W., Warren, S. T., Page, D. C., Shi, Y. (May 2014) A Chromatin-Dependent Role of the Fragile X Mental Retardation Protein FMRP in the DNA Damage Response. Cell, 157 (4). pp. 869-81. ISSN 0092-8674

Ayoub, N., Noma, K., Isaac, S., Kahan, T., Grewal, S. I. S., Cohen, A. (June 2003) A novel jmjC domain protein modulates heterochromatization in fission yeast. Molecular and Cellular Biology, 23 (12). pp. 4356-4370. ISSN 0270-7306

Barbieri, I., Tzelepis, K., Pandolfini, L., Shi, J., Millan-Zambrano, G., Robson, S. C., Aspris, D., Migliori, V., Bannister, A. J., Han, N., De Braekeleer, E., Ponstingl, H., Hendrick, A., Vakoc, C. R., Vassiliou, G. S., Kouzarides, T. (December 2017) Promoter-bound METTL3 maintains myeloid leukaemia by m(6)A-dependent translation control. Nature, 552 (7683). pp. 126-131. ISSN 0028-0836

Bergmann, J. H., Rodriguez, M. G., Martins, N. M. C., Kimura, H., Kelly, D. A., Masumoto, H., Larionov, V., Jansen, L. E. T., Earnshaw, W. C. (December 2011) Epigenetic engineering shows H3K4me2 is required for HJURP targeting and CENP-A assembly on a synthetic human kinetochore. EMBO Journal, 30 (2). pp. 328-340.

Blobel, G. A., Kadauke, S., Wang, E., Lau, A. W., Zuber, J., Chou, M. M., Vakoc, C. R. (December 2009) A Reconfigured Pattern of MLL Occupancy within Mitotic Chromatin Promotes Rapid Transcriptional Reactivation Following Mitotic Exit. Molecular Cell, 36 (6). pp. 970-983.

Bodnar, M. S., Spector, D. L. (June 2013) Chromatin Meets Its Organizers. Cell, 153 (6). pp. 1187-1189. ISSN 0092-8674

Bronstein, R., Kyle, J., Abraham, A. B., Tsirka, S. E. (May 2017) Neurogenic to Gliogenic Fate Transition Perturbed by Loss of HMGB2. Front Mol Neurosci, 10. p. 153. ISSN 1662-5099

Brower-Toland, B., Findley, S. D., Jiang, L., Liu, L., Yin, H., Dus, M., Zhou, P., Elgin, S. C., Lin, H. (September 2007) Drosophila PIWI associates with chromatin and interacts directly with HP1a. Genes Dev, 21 (18). pp. 2300-11. ISSN 0890-9369 (Print)0890-9369

Chan, H. M., Narita, M., Lowe, S. W., Livingstone, D. M. (January 2005) The p400 E1A-associated protein is a novel component of the p53 -> p21 senescence pathway. Genes Dev, 19 (2). pp. 196-201. ISSN 0890-9369

Cheng, Y., Ma, Z., Kim, B. H., Wu, W., Cayting, P., Boyle, A. P., Sundaram, V., Xing, X., Dogan, N., Li, J., Euskirchen, G., Lin, S., Lin, Y., Visel, A., Kawli, T., Yang, X., Patacsil, D., Keller, C. A., Giardine, B., Kundaje, A., Wang, T., Pennacchio, L. A., Weng, Z., Hardison, R. C., Snyder, M. P., Consortium, Mouse ENCODE (November 2014) Principles of regulatory information conservation between mouse and human. Nature, 515 (7527). pp. 371-5. ISSN 0028-0836

Collins, G. A., Tansey, W. P. (April 2006) The proteasome: a utility tool for transcription? Curr Opin Genet Dev, 16 (2). pp. 197-202. ISSN 0959-437X (Print)

Cuvier, O., Hart, C. M., Kas, E., Laemmli, U. K. (February 2002) Identification of a multicopy chromatin boundary element at the borders of silenced chromosomal domains. Chromosoma, 110 (8). pp. 519-531. ISSN 0009-5915

Denissov, S., Van Driel, M., Voit, R., Hekkelman, M., Hulsen, T., Hernandez, N., Grummt, I., Wehrens, R., Stunnenberg, H. (February 2007) Identification of novel functional TBP-binding sites and general factor repertoires. Embo Journal, 26 (4). pp. 944-954. ISSN 0261-4189

Di Como, C. J., Bose, R., Arndt, K. T. (January 1995) Overexpression of SIS2, which contains an extremely acidic region, increases the expression of SWI4, CLN1 and CLN2 in sit4 mutants. Genetics, 139 (1). pp. 95-107. ISSN 0016-6731 (Print)

Dimitrova, N., Chen, Y. C. M., Spector, D. L., de Lange, T. (November 2008) 53BP1 promotes non-homologous end joining of telomeres by increasing chromatin mobility. Nature, 456 (7221). pp. 524-528.

Dong, X., Greven, M. C., Kundaje, A., Djebali, S., Brown, J. B., Cheng, C., Gingeras, T. R., Gerstein, M., Guigó, R., Birney, E., Weng, Z. (September 2012) Modeling gene expression using chromatin features in various cellular contexts. Genome Biology, 13 (9).

Dore, L. C., Vakoc, C. R., Blobel, G. A., Hardison, R. C., Bodine, D. M., Gallagher, P. G., Weiss, M. J. (November 2005) Genomic organization, chromatin structure, and transcriptional regulation of the murine Alpha Hemoglobin Stabilizing Protein (AHSP) gene. Blood, 106 (11). 1012A-1012A. ISSN 0006-4971

Eckersley-Maslin, M. A., Bergmann, J. H., Lazar, Z., Spector, D. L. (January 2013) Lamin A/C is Expressed in Pluripotent Mouse Embryonic Stem Cells. Nucleus, 4 (1). pp. 53-60. ISSN 1949-1042 (Electronic)1949-1042 (Linking)

Ejkova, Elena, Tansey, William P. (March 2002) Old dogs and new tricks: meeting on mechanisms of eukaryotic transcription. Embo Reports, 3 (3). pp. 219-23. ISSN 1469-221X

Ezhkova, E., Tansey, William P. (2006) Chromatin immunoprecipitation to study protein-DNA interactions in budding yeast. Methods in Molecular Biology, 313. pp. 225-44. ISSN 1940-6029 (Electronic)1064-3745 (Linking)

Fang, Y., Spector, D. L. (December 2005) Centromere positioning and dynamics in living Arabidopsis plants. Mol Biol Cell, 16 (12). pp. 5710-8. ISSN 1059-1524 (Print)

Feng, X., Grossman, R., Stein, L. D. (May 2011) PeakRanger: A cloud-enabled peak caller for ChIP-seq data. Bmc Bioinformatics, 12. p. 139. ISSN 1471-2105

Floer, M., Wang, X., Prabhu, V., Berrozpe, G., Narayan, S., Spagna, D., Alvarez, D., Kendall, J. T., Krasnitz, A., Stepansky,  A., Hicks, J. B., Bryant, G. O., Ptashne, M. (April 2010) A RSC/nucleosome complex determines chromatin architecture and facilitates activator binding. Cell, 141 (3). pp. 407-418.

Gaillard, P. H., Martini, E. M., Kaufman, P. D., Stillman, B., Moustacchi, E., Almouzni, G. (September 1996) Chromatin assembly coupled to DNA repair: a new role for chromatin assembly factor I. Cell, 86 (6). pp. 887-96. ISSN 0092-8674 (Print)

Gendrel, A. V., Lippman, Z. , Martienssen, R., Colot, V. (March 2005) Profiling histone modification patterns in plants using genomic tiling microarrays. Nature Methods, 2 (3). pp. 213-218. ISSN 1548-7091

Gracheva, E., Dus, M., Elgin, S. C. (July 2009) Drosophila RISC Component VIG and Its Homolog Vig2 Impact Heterochromatin Formation. PLoS ONE, 4 (7). e6182.

Greider, C. W. (February 1992) Telomere chromatin and gene expression. Curr Biol, 2 (2). pp. 62-4. ISSN 0960-9822 (Print)0960-9822 (Linking)

Grewal, S. I. S., Elgin, S. C. (April 2002) Heterochromatin: new possibilities for the inheritance of structure. Current Opinion in Genetics & Development, 12 (2). pp. 178-187. ISSN 0959-437X

Guertin, M. J., Martins, A. L., Siepel, A., Lis, J. T. (2012) Accurate prediction of inducible transcription factor binding intensities in vivo. PLoS Genet, 8 (3). e1002610. ISSN 1553-7390

Guo, Ya, Xu, Quan, Canzio, Daniele, Shou, Jia, Li, Jinhuan, Gorkin, David U, Jung, Inkyung, Wu, Haiyang, Zhai, Yanan, Tang, Yuanxiao, Lu, Yichao, Wu, Yonghu, Jia, Zhilian, Li, Wei, Zhang, Michael Q, Ren, Bing, Krainer, Adrian R, Maniatis, Tom, Wu, Qiang (2015) CRISPR Inversion of CTCF Sites Alters Genome Topology and Enhancer/Promoter Function. Cell, 162 (4). pp. 900-910. ISSN 0092-8674

Hattangadi, S. M., Wong, P., Zhang, L., Flygare, J., Lodish, H. F. (December 2011) From stem cell to red cell: regulation of erythropoiesis at multiple levels by multiple proteins, RNAs, and chromatin modifications. Blood, 118 (24). pp. 6258-68. ISSN 1528-0020 (Electronic)0006-4971 (Linking)

Hirano, T. (January 2004) Chromosome shaping by two condensins. Cell Cycle, 3 (1). pp. 26-8. ISSN 1538-4101 (Print)

Hoek, M., Myers, M. P., Stillman, B. (January 2011) An analysis of CAF-1 interacting proteins reveals dynamic and direct interactions with the ku complex and 14-3-3 proteins. Journal of Biological Chemistry, 286 (12). pp. 10876-10887. ISSN 0021-9258

Hoek, M., Stillman, B. (October 2003) Chromatin assembly factor 1 is essential and couples chromatin assembly to DNA replication in vivo. Proceedings of the National Academy of Sciences of the United States of America, 100 (21). pp. 12183-12188. ISSN 0027-8424

Hogan, Megan S, Parfitt, David-Emlyn, Zepeda-Mendoza, Cinthya J, Shen, Michael M, Spector, David L (March 2015) Transient Pairing of Homologous Oct4 Alleles Accompanies the Onset of Embryonic Stem Cell Differentiation. Cell Stem Cell, 16 (3). pp. 275-288. ISSN 1934-5909

Huanca-Mamani, W., Garcia-Aguilar, M., Leon-Martinez, G., Grossniklaus, U., Vielle-Calzada, J. P. (November 2005) CHR11, a chromatin-remodeling factor essential for nuclear proliferation during female gametogenesis in Arabidopsis thaliana. Proc Natl Acad Sci U S A, 102 (47). pp. 17231-17236. ISSN 0027-8424

Hubner, M. R., Eckersley-Maslin, M. A., Spector, D. L. (April 2013) Chromatin organization and transcriptional regulation. Current Opinion in Genetics & Development, 23 (2). pp. 89-95. ISSN 0959-437X

Hüber, M. R., Spector, D. L. (April 2010) Chromatin dynamics. Annual Review of Biophysics, 39. pp. 471-489.

Ioshikhes, I., Trifonov, E. N., Zhang, M. Q. (March 1999) Periodical distribution of transcription factor sites in promoter regions and connection with chromatin structure. Proceedings of the National Academy of Sciences, 96 (6). pp. 2891-5. ISSN 0027-8424 (Print)

Jacob, Y., Martienssen, R. (June 2012) Molecular biology. All packed up and ready to go. Science, 336 (6087). pp. 1391-1392. ISSN 0036-8075

Jacob, Y., Martienssen, R. A. (January 2011) Chromatin reprogramming: gender equality during Arabidopsis germline differentiation. Current biology, 21 (1). R20-2. ISSN 1879-0445 (Electronic)0960-9822 (Linking)

Janicki, S. M., Tsukamoto, T., Spector, D. L. (November 2002) Live-cell visualization of the dynamics of chromatin associated factors during the transition from a transcriptionally inactive to an active state. Molecular Biology of the Cell, 13. 238A-238A. ISSN 1059-1524

Jing, H., Vakoc, C. R., Wang, H., Mandat, S., Miller, J., Gregory, P. D., Reik, A., Blobel, G. A. (March 2007) Regulation of higher order chromatin organization by GATA-1. Blood Cells Molecules and Diseases, 38 (2). p. 126. ISSN 1079-9796

Jing, H., Vakoc, C. R., Ying, L., Mandat, S., Wang, H., Zheng, X., Blobel, G. A. (2008) Exchange of GATA Factors Mediates Transitions in Looped Chromatin Organization at a Developmentally Regulated Gene Locus. Molecular Cell, 29 (2). pp. 232-242. ISSN 10972765 (ISSN)

Jones, P. A., Martienssen, R. A. (December 2005) A Blueprint for a Human Epigenome Project: The AACR Human Epigenome Workshop. Cancer Res, 65 (24). pp. 11241-6. ISSN 0008-5472 (Print)

Julien, E., Herr, W. (June 2004) A switch in mitotic histone H4 lysine 20 methylation status is linked to M phase defects upon loss of HCF-1. Mol Cell, 14 (6). pp. 713-25. ISSN 1097-2765 (Print)

Kamakaka, R. T., Bulger, M., Kaufman, P. D., Stillman, B., Kadonaga, J. T. (March 1996) Postreplicative chromatin assembly by Drosophila and human chromatin assembly factor 1. Molecular and Cellular Biology, 16 (3). pp. 810-817. ISSN 0270-7306

Keuling, A., Yang, F., Hanna, S., Wang, H., Tully, T., Burnham, A., Locke, J., McDermid, H. E. (August 2007) Mutation analysis of Drosophila dikar/CG32394, homologue of the chromatin-remodelling gene CECR2. Genome, 50 (8). pp. 767-777. ISSN 0831-2796

Keyes, W. M. , Pecoraro, M., Aranda, V., Vernersson-Lindahl, E., Li, W., Vogel, H., Guo, X., Garcia, E. L., Michurina, T. V., Enikolopov, G. N., Muthuswamy, S. K., Mills, A. A. (February 2011) DeltaNp63alpha Is an Oncogene that Targets Chromatin Remodeler Lsh to Drive Skin Stem Cell Proliferation and Tumorigenesis. Cell Stem Cell, 8 (2). pp. 164-76. ISSN 1875-9777 (Electronic)

Kimura, H., Takizawa, N., Allemand, E., Hori, T., Iborra, F. J., Nozaki, N., Muraki, M., Hagiwara, M., Krainer, A. R., Fukagawa, T., Okawa, K. (2006) A novel histone exchange factor, protein phosphatase 2Cgamma, mediates the exchange and dephosphorylation of H2A-H2B. Journal of Cell Biology, 175 (3). pp. 389-400. ISSN 00219525

Kumaran, R. I., Thakar, R., Spector, D. L. (2008) Chromatin dynamics and gene positioning. Cell, 132 (6). pp. 929-934. ISSN 1097-4172 (Electronic) 0092-8674 (Linking)

Kuscu, C., Zaratiegui, M., Kim, H. S., Wah, D. A., Martienssen, R. A., Schalch, T., Joshua-Tor, L. (January 2014) CRL4-like Clr4 complex in Schizosaccharomyces pombe depends on an exposed surface of Dos1 for heterochromatin silencing. Proceedings of the National Academy of Sciences of the United States of America, 111 (5). pp. 1795-1800. ISSN 0027-8424 (Public Dataset)

Ladurner, A. G., Inouye, C., Jain, R., Tjian, R. (February 2003) Bromodomains mediate an acetyl-histone encoded antisilencing function at heterochromatin boundaries. Molecular Cell, 11 (2). pp. 365-376. ISSN 1097-2765

Lamonica, J. M., Vakoc, C. R., Blobel, G. A. (2006) Acetylation of GATA-1 is required for chromatin occupancy. Blood, 108 (12). pp. 3736-3738. ISSN 00064971 (ISSN)

Lamonica, J. M., Vakoc, C. R., Blobel, G. A. (November 2006) Acetylation of GATA-1 is required for chromatin occupancy. Blood, 108 (11). 348A-348A. ISSN 0006-4971

Lan, Fei, Zaratiegui, Mikel, Villen, Judit, Vaughn, Matthew W., Verdel, Andre, Huarte, Maite, Shi, Yujiang, Gygi, Steven P., Moazed, Danesh, Martienssen, Robert A., Shi, Yang (2007) S. pombe LSD1 homologs regulate heterochromatin propagation and euchromatic gene transcription. Mol Cell, 26 (1). pp. 89-8101. ISSN 1097-2765

Le Thomas, A., Stuwe, E., Li, S., Du, J., Marinov, G., Rozhkov, N., Chen, Y. C., Luo, Y., Sachidanandam, R., Toth, K. F., Patel, D., Aravin, A. A. (August 2014) Transgenerationally inherited piRNAs trigger piRNA biogenesis by changing the chromatin of piRNA clusters and inducing precursor processing. Genes & Development, 28 (15). pp. 1667-80. ISSN 0890-9369

Lee, Chul-Hwan, Yu, Jia-Ray, Kumar, Sunil, Jin, Ying, LeRoy, Gary, Bhanu, Natarajan, Kaneko, Syuzo, Garcia, Benjamin A., Hamilton, Andrew D., Reinberg, Danny (May 2018) Allosteric Activation Dictates PRC2 Activity Independent of Its Recruitment to Chromatin. Molecular Cell, 70 (3). pp. 422-434. ISSN 1097-2765

Li, F., Huarte, M., Zaratiegui, M., Vaughn, M. W., Shi, Y., Martienssen, R., Cande, W. Z. (October 2008) Lid2 is required for coordinating H3K4 and H3K9 methylation of heterochromatin and euchromatin. Cell, 135 (2). pp. 272-83. ISSN 1097-4172 (Electronic)0092-8674 (Linking)

Li, G., Ruan, X. A., Auerbach, R. K., Sandhu, K. S., Zheng, M., Wang, P. C., Poh, H. M., Goh, Y., Lim, J., Zhang, J., Sim, H. S., Peh, S. Q., Mulawadi, F. H., Ong, C. T., Orlov, Y. L., Hong, S., Zhang, Z., Landt, S. G., Raha, D., Euskirchen, G., Wei, C-L., Ge, W., Wang, H., Davis, C. A., Fisher-Aylor, K. I., Mortazavi, A., Gerstein, M., Gingeras, T. R., Wold, B., Sun, Yi, Fullwood, M. J., Cheung, E., Liu, E., Sung, W.-K., Snyder, M., Ruan, Y. (2012) Extensive Promoter-Centered Chromatin Interactions Provide a Topological Basis for Transcription Regulation. Cell, 148 (1–2). pp. 84-98. ISSN 0092-8674

Li, W., Wu, J., Kim, S. Y., Zhao, M., Hearn, S. A., Zhang, M. Q., Meistrich, M. L., Mills, A. A. (May 2014) Chd5 orchestrates chromatin remodelling during sperm development. Nature Communications, 5. p. 3812. ISSN 20411723

Li, Wanhe, Mills, Alea A. (August 2014) Architects of the genome: CHD dysfunction in cancer, developmental disorders and neurological syndromes. Epigenomics, 6 (4). pp. 381-95. ISSN 1750-192x

Losada, A., Hirano, T. (September 2000) Biology in pictures. New light on sticky sisters. Curr Biol, 10 (17). R615. ISSN 0960-9822 (Print)

Losada, A., Hirano, T. (February 2001) Intermolecular DNA interactions stimulated by the cohesin complex in vitro: Implications for sister chromatid cohesion. Current Biology, 11 (4). pp. 268-272. ISSN 0960-9822

Lovén, J., Hoke, H. A, Lin, C. Y., Lau, A. W., Orlando, D. A., Vakoc, C. R., Bradner, J. E., Lee, T. I., Young, R. A. (April 2013) Selective Inhibition of Tumor Oncogenes by Disruption of Super-Enhancers. Cell, 153 (2). pp. 320-334. ISSN 0092-8674

Lu, X. W., Wontakal, S. N., Kavi, H., Kim, B. J., Guzzardo, P. M., Emelyanov, A. V., Xu, N., Hannon, G. J., Zavadil, J., Fyodorov, D. V., Skoultchi, A. I. (April 2013) Drosophila H1 Regulates the Genetic Activity of Heterochromatin by Recruitment of Su(var)3-9. Science, 340 (6128). pp. 78-81. ISSN 0036-8075

Martienssen, R. (March 2001) Chipping away at chromatin. Nature Genetics, 27 (3). pp. 240-241. ISSN 1061-4036

Martienssen, R. (April 1998) Chromosomal imprinting in plants. Current Opinion in Genetics & Development, 8 (2). pp. 240-244. ISSN 0959-437X

Martienssen, R. (December 2012) Reprogramming heterochromatin and its consequences in the germline. Genes & Genetic Systems, 87 (6). p. 371. ISSN 1341-7568

Martienssen, R., Henikoff, S. (May 1999) The House & Garden guide to chromatin remodelling. Nature Genetics, 22 (1). pp. 6-7. ISSN 1061-4036

Martienssen, R. A. (November 2003) Maintenance of heterochromatin by RNA interference of tandem repeats. Nature Genetics, 35 (3). pp. 213-4. ISSN 1061-4036

Martin, L. J., Koegl, M., Bader, G., Cockcroft, X. L., Fedorov, O., Fiegen, D., Gerstberger, T., Hofmann, M. H., Hohmann, A. F., Kessler, D., Knapp, S., Knesl, P., Kornigg, S., Muller, S., Nar, H., Rogers, C., Rumpel, K., Schaaf, O., Steurer, S., Tallant, C., Vakoc, C. R., Zeeb, M., Zoephel, A., Pearson, M., Boehmelt, G., McConnell, D. (May 2016) Structure-Based Design of an in Vivo Active Selective BRD9 Inhibitor. J Med Chem, 59 (10). pp. 4462-75. ISSN 1520-4804 (Electronic)0022-2623 (Linking)

Mendez, J., Stillman, B. (November 2000) Chromatin association of human origin recognition complex, Cdc6, and minichromosome maintenance proteins during the cell cycle: Assembly of prereplication complexes in late mitosis. Molecular and Cellular Biology, 20 (22). pp. 8602-8612. ISSN 0270-7306

Min, J. R., Zhang, Y., Xu, R. M. (August 2003) Structural basis for specific binding of polycomb chromodomain to histone H3 methylated at Lys 27. Genes & Development, 17 (15). pp. 1823-1828. ISSN 0890-9369

Mukhopadhyay, S., Schedl, P., Studitsky, V. M., Sengupta, A. M. (December 2011) Theoretical analysis of the role of chromatin interactions in long-range action of enhancers and insulators. Proceedings of the National Academy of Sciences of the United States of America, 108 (50). pp. 19919-19924. ISSN 0027-8424

Mukhopadhyay, S., Sengupta, A. M. (July 2013) The role of multiple marks in epigenetic silencing and the emergence of a stable bivalent chromatin state. PLoS Computational Biology, 9 (7). e1003121. ISSN 1553-7358 (Electronic)1553-734X (Linking)

Nagaraj, V. H., Mukhopadhyay, S., Dayarian, A., Sengupta, A. M. (December 2014) Breaking an Epigenetic Chromatin Switch: Curious Features of Hysteresis in Saccharomyces cerevisiae Telomeric Silencing. PLoS One, 9 (12). e113516. ISSN 1932-6203

Nakagawa, H., Lee, J. K., Hurwitz, J., Allshire, R. C., Nakayama, J., Grewal, S. I. S., Tanaka, K., Murakami, Y. (July 2002) Fission yeast CENP-B homologs nucleate centromeric heterochromatin by promoting heterochromatin-specific histone tail modifications. Genes & Development, 16 (14). pp. 1766-1778. ISSN 0890-9369

Nakano, S., Stillman, B., Horvitz, H. R. (2011) Replication-coupled chromatin assembly generates a neuronal bilateral asymmetry in C. elegans. Cell, 147 (7). pp. 1525-1536. ISSN 00928674 (ISSN)

Nakayama, J., Rice, J. C., Strahl, B. D., Allis, C. D., Grewal, S. I. S. (April 2001) Role of histone H3 lysine 9 methylation in epigenetic control of heterochromatin assembly. Science, 292 (5514). pp. 110-113. ISSN 0036-8075

Narita, M., Lowe, S. W. (March 2004) Executing cell senescence. Cell Cycle, 3 (3). pp. 244-6. ISSN 1538-4101 (Print)

Negre, N., Brown, C. D., Shah, P. K., Kheradpour, P., Morrison, C. A., Henikoff, J. G., Feng, X., Ahmad, K., Russell, S., White, R. A. H., Stein, L. D., Henikoff, S., Kellis, M., White, K. P. (January 2010) A Comprehensive Map of Insulator Elements for the Drosophila Genome. Plos Genetics, 6 (1). ISSN 1553-7390

Nimchinsky, E. A., Yasuda, R., Oertner, T. G., Svoboda, K. (February 2004) The number of glutamate receptors opened by synaptic stimulation in single hippocampal spines. J Neurosci, 24 (8). pp. 2054-64. ISSN 1529-2401 (Electronic)

Nonaka, N., Kitajima, T., Yokobayashi, S., Xiao, G. P., Yamamoto, M., Grewal, S. I. S., Watanabe, Y. (January 2002) Recruitment of cohesin to heterochromatic regions by Swi6/HP1 in fission yeast. Nature Cell Biology, 4 (1). pp. 89-93. ISSN 1465-7392

Ordway, J. M., Budiman, M. A., Korshunova, Y., Maloney, R. K., Bedell, J. A., Citek, R. W., Bacher, B., Peterson, S., Rohlfing, T., Hall, J., Brown, R., Lakey, N., Doerge, R. W., Martienssen, R. A., Leon, J., McPherson, J. D., Jeddeloh, J. A. (December 2007) Identification of novel high-frequency DNA methylation changes in breast cancer. PLoS ONE, 2 (12). e1314.

Prawitt, D., Enklaar, T., Gartner-Rupprecht, B., Spangenberg, C., Oswald, M., Lausch, E., Schmidtke, P., Reutzel, D., Fees, S., Lucito, R., Korzon, M., Brozek, L., Limon, J., Housman, D. E., Pelletier, J., Zabel, B. (March 2005) Microdeletion of target sites for insulator protein CTCF in a chromosome 11p15 imprinting center in Beckwith-Wiedemann syndrome and Wilms' tumor. Proc Natl Acad Sci U S A, 102 (11). pp. 4085-4090. ISSN 0027-8424

Roe, J. S., Vakoc, C. R. (January 2014) C/EBPalpha: critical at the origin of leukemic transformation. Journal of Experimental Medicine, 211 (1). pp. 1-4. ISSN 0022-1007

Roe, J. S., Vakoc, C. R. (2013) Oncogene interference through targeting of chromatin regulators. Cell Cycle, 12 (10). pp. 1475-1476. ISSN 1551-4005 (Electronic)1551-4005 (Linking)

Rosin, F. M., Watanabe, N., Cacas, Jean-Luc, Kato, N., Arroyo, J. M., Fang, Y., May, B., Vaughn, M., Simorowski, J., Ramu, U., McCombie, R., Spector, D. L., Martienssen, R. A., Lam, E. (2008) Genome-wide transposon tagging reveals location-dependent effects on transcription and chromatin organization in Arabidopsis. Plant Journal, 55 (3). pp. 514-525. ISSN 0960-7412

Sacco-Bubulya, P. A., Howard, T. A., Spector, D. L. (December 2000) Probing the organization and function of interchromatin granule clusters. Molecular Biology of the Cell, 11. 18A-19A. ISSN 1059-1524

Sacco-Bubulya, P. A., Spector, D. L. (2002) Disassembly of interchromatin granule clusters alters the coordination of transcription and pre-mRNA splicing. Journal of Cell Biology, 156 (3). pp. 425-436. ISSN 0021-9525

Sacco-Bubulya, P. A., Spector, D. L. (November 2001) Interchromatin granule clusters are essential for coordinating transcription and pre-mRNA splicing. Molecular Biology of the Cell, 12. 103A-103A. ISSN 1059-1524

Saitoh, N., Patterson, S. D., Spahr, C. S., Howard, T., Neuwald, A. F., Spector, D. L. (December 2000) Development of an in vitro system to recapitulate interchromatin granule cluster dynamics. Molecular Biology of the Cell, 11. 19A-19A. ISSN 1059-1524

Salvaing, J., Decoville, M., Mouchel-Vielh, E., Bussière, M., Daulny, A., Boldyreva, L., Zhimulev, I., Locker, D., Peronnet, F. (April 2006) Corto and DSPI interact and bind to a maintenance element of the Scr Hox gene: Understanding the role of Enhancers of trithorax and Polycomb. BMC Biology, 4 (9). ISSN 17417007

Schaniel, C., Ang, Y. S., Ratnakumar, K., Cormier, C., James, T., Bernstein, E., Lemischka, I. R., Paddison, P. J. (December 2009) Smarcc1/Baf155 couples self-renewal gene repression with changes in chromatin structure in mouse embryonic stem cells. Stem Cells, 27 (12). pp. 2979-2991.

Shankaranarayana, G. D., Motamedi, M. R., Moazed, D., Grewal, S. I. (July 2003) Sir2 regulates histone H3 lysine 9 methylation and heterochromatin assembly in fission yeast. Current Biology, 13 (14). pp. 1240-6. ISSN 0960-9822

Shen, C., Vakoc, C. R. (January 2015) Gain-of-function mutations in chromatin regulators as a tumorigenic mechanism and opportunity for therapeutic intervention. Current Opinion in Oncology, 27 (1). pp. 57-63. ISSN 1040-8746

Shen, Chen, Ipsaro, Jonathan J, Shi, Junwei, Milazzo, Joseph P, Wang, Eric, Roe, Jae-Seok, Suzuki, Yutaka, Pappin, Darryl J, Joshua-Tor, Leemor, Vakoc, Christopher R (December 2015) NSD3-Short Is an Adaptor Protein that Couples BRD4 to the CHD8 Chromatin Remodeler. Molecular Cell, 60 (6). pp. 847-859. ISSN 1097-2765

Shi, J., Whyte, W. A., Zepeda-Mendoza, C. J., Milazzo, J. P., Shen, C., Roe, J. S., Minder, J. L., Mercan, F., Wang, E., Eckersley-Maslin, M. A., Campbell, A. E., Kawaoka, S., Shareef, S., Zhu, Z., Kendall, J., Muhar, M., Haslinger, C., Yu, M., Roeder, R. G., Wigler, M. A., Blobel, G. A., Zuber, J., Spector, D. L., Young, R. A., Vakoc, C. R. (November 2013) Role of SWI/SNF in acute leukemia maintenance and enhancer-mediated Myc regulation. Genes and Development, 27 (24). pp. 264-273. ISSN 08909369 (ISSN)

Shibahara, K., Stillman, B. (February 1999) Replication-dependent marking of DNA by PCNA facilitates CAF-1-coupled inheritance of chromatin. Cell, 96 (4). pp. 575-85. ISSN 0092-8674 (Print)

Singer, T., Yordan, C., Martienssen, R. A. (March 2001) Robertson's Mutator transposons in A-thaliana are regulated by the chromatin-remodeling gene Decrease in DNA Methylation (DDM1). Genes & Development, 15 (5). pp. 591-602. ISSN 0890-9369

Smith, H. C., Spector, D. L., Woodcock, C. L., Ochs, R. L., Bhorjee, J. (1985) Alterations in chromatin conformation are accompanied by reorganization of nonchromatin domains that contain U-snRNP protein p28 and nuclear protein p107. Journal of Cell Biology, 101 (2). pp. 560-567. ISSN 0021-9525

Smith, S., Stillman, B. (June 1991) Immunological characterization of chromatin assembly factor I, a human cell factor required for chromatin assembly during DNA replication in vitro. Journal of Biological Chemistry, 266 (18). pp. 12041-12047. ISSN 0021-9258

Smith, S., Stillman, B. (1989) Purification and Characterization of a Replication-Dependent Chromatin Assembly Factor Isolated from Human Cells. Journal of Cellular Biochemistry - Supplement.(13 PART D). p. 173.

Smith, S., Stillman, B. (July 1989) Purification and characterization of CAF-I, a human cell factor required for chromatin assembly during DNA replication in vitro. Cell, 58 (1). pp. 15-25. ISSN 0092-8674

Smith, S., Stillman, B. (April 1991) Stepwise assembly of chromatin during DNA replication in vitro. Embo J, 10 (4). pp. 971-80. ISSN 0261-4189

Spector, D. L. (September 2004) Stopping for FISH and chips along the chromatin fiber superhighway. Mol Cell, 15 (6). pp. 844-6. ISSN 1097-2765 (Print)

Stillman, B. (May 1986) Chromatin assembly during SV40 DNA replication in vitro. Cell, 45 (4). pp. 555-65. ISSN 0092-8674 (Print)

Tolstorukov, M. Y., Colasanti, A. V., McCandlish, D. M., Olson, W. K., Zhurkin, V. B. (August 2007) A novel roll-and-slide mechanism of DNA folding in chromatin: implications for nucleosome positioning. J Mol Biol, 371 (3). pp. 725-38. ISSN 0022-2836 (Print)0022-2836 (Linking)

Tramantano, M., Sun, L., Au, C., Labuz, D., Liu, Z., Chou, M., Shen, C., Luk, E. (July 2016) Constitutive turnover of histone H2A.Z at yeast promoters requires the preinitiation complex. Elife, 5. ISSN 2050-084X (Electronic)2050-084X (Linking)

Tyler, J. K., Collins, K. A., Prasad-Sinha, J., Amiott, E., Bulger, M., Harte, P. J., Kobayashi, R., Kadonaga, J. T. (October 2001) Interaction between the Drosophila CAF-1 and ASF1 chromatin assembly factors. Molecular and Cellular Biology, 21 (19). pp. 6574-6584. ISSN 0270-7306

Vakoc, C. R., Letting, D. L., Gheldof, N., Sawado, T., Bender, M. A., Groudine, M., Weiss, M. J., Dekker, J., Blobel, G. A. (2005) Proximity among distant regulatory elements at the β-globin locus requires GATA-1 and FOG-1. Molecular Cell, 17 (3). pp. 453-462. ISSN 10972765 (ISSN)

Vakoc, C. R., Mandat, S. A., Olenchock, B. A., Blobel, G. A. (2005) Histone H3 lysine 9 methylation and HP1γ are associated with transcription elongation through mammalian chromatin. Molecular Cell, 19 (3). pp. 381-391. ISSN 10972765 (ISSN)

Vakoc, C. R., Mandat, S. A., Olenschock, B. A., Blobel, G. A. (November 2005) Histone H3 lysine 9 methylation and HP1 gamma are associated with transcription elongation through mammalian chromatin. Blood, 106 (11). 493A-493A. ISSN 0006-4971

Vakoc, C. R., Sachdeva, M. M., Wang, H., Blobel, G. A. (2006) Profile of histone lysine methylation across transcribed mammalian chromatin. Molecular and Cellular Biology, 26 (24). pp. 9185-9195. ISSN 02707306 (ISSN)

Verreault, A., Kaufman, P. D., Kobayashi, R., Stillman, B. (October 1996) Nucleosome assembly by a complex of CAF-1 and acetylated histones H3/H4. Cell, 87 (1). pp. 95-104. ISSN 0092-8674 (Print)

Volpe, T. A., Kidner, C., Hall, I. M., Teng, G., Grewal, S. I., Martienssen, R. A. (September 2002) Regulation of heterochromatic silencing and histone H3 lysine-9 methylation by RNAi. Science, 297 (5588). pp. 1833-7. ISSN 1095-9203 (Electronic)0036-8075 (Linking)

Weinmann, A. S., Bartley, S. M., Zhang, T., Zhang, M. Q., Farnham, P. J. (October 2001) Use of chromatin immunoprecipitation to clone novel E2F target promoters. Molecular and Cellular Biology, 21 (20). pp. 6820-6832. ISSN 0270-7306

Weinreich, M., Stillman, B. (October 1999) Cdc7p-Dbf4p kinase binds to chromatin during S phase and is regulated by both the APC and the RAD53 checkpoint pathway. EMBO Journal, 18 (19). pp. 5334-46. ISSN 02614189 (ISSN)

Wigler, M. H., Axel, R. (1976) Nucleosomes in metaphase chromosomes. Nucleic Acids Res, 3 (6). pp. 1463-1461.

Wysocka, J., Reilly, P. T., Herr, W. (June 2001) Loss of HCF-1-chromatin association precedes temperature-induced growth arrest of tsBN67 cells. Molecular and Cellular Biology, 21 (11). pp. 3820-3829. ISSN 0270-7306

Yuan, C. C., Zhao, X., Florens, L., Swanson, S. K., Washburn, M. P., Hernandez, N. (December 2007) CHD8 associates with human Staf and contributes to efficient U6 RNA polymerase III transcription. Mol Cell Biol, 27 (24). pp. 8729-8738. ISSN 0270-7306 (Print)

Zeng, P. Y., Vakoc, C. R., Chen, Z. C., Blobel, G. A., Berger, S. L. (2006) In vivo dual cross-linking for identification of indirect DNA-associated proteins by chromatin immunoprecipitation. Biotechniques, 41 (6). pp. 694-698. ISSN 07366205 (ISSN)

Zou, L., Stillman, B. (April 1998) Formation of a preinitiation complex by S-phase cyclin CDK-dependent loading of Cdc45p onto chromatin. Science, 280 (5363). pp. 593-6. ISSN 0036-8075 (Print)

Zuber, J., Shi, J., Wang, E., Rappaport, A. R., Herrmann, H., Sison, E. A., Magoon, D., Qi, J., Blatt, K., Wunderlich, M., Taylor, M. J., Johns, C., Chicas, A., Mulloy, J. C., Kogan, S. C., Brown, P., Valent, P., Bradner, J. E., Lowe, S. W., Vakoc, C. R. (August 2011) RNAi screen identifies Brd4 as a therapeutic target in acute myeloid leukaemia. Nature, 478 (7370). pp. 524-528. ISSN 0028-0836

Book Section

Spector, David L. (1997) Genes and transcripts in the interphase nucleus. In: Nuclear organization, chromatin structure and gene expression. Oxford University Press, Oxford, pp. 169-184. ISBN 0198549237

Conference or Workshop Item

Aloy, P., Gavin, A. C., Ideker, T., Walhout, M. (August 2010) SYSTEMS BIOLOGY: NETWORKS. In: Joint Cold Spring Harbor Laboratory/Wellcome Trust Conference on SYSTEMS BIOLOGY: NETWORKS, August 11–August 15, 2010, Wellcome Trust Conference Center, Hixton UK.

Bell, S., Li, J., Walter, J. (September 2011) EUKARYOTIC DNA REPLICATION & GENOME MAINTENANCE. In: 2011 meeting on EUKARYOTIC DNA REPLICATION & GENOME MAINTENANCE, September 6–September 10, 2011.

Bernstein, B., Bulyk, M., Bussemaker, H., Walhout, M. (March 2010) SYSTEMS BIOLOGY: GLOBAL REGULATION OF GENE EXPRESSION. In: 2010 meeting on SYSTEMS BIOLOGY: GLOBAL REGULATION OF GENE EXPRESSION, March 23–March 27, 2010.

Cantrell, D., Gsosh, S., Littman, D., Schlissel, M. (April 2010) GENE EXPRESSION & SIGNALING IN THE IMMUNE SYSTEM. In: 2010 meeting of GENE EXPRESSION & SIGNALING IN THE IMMUNE SYSTEM, April 21–April 25, 2010, Cold Spring Harbor Laboratory.

Evans, R., Olefsky, J., Yamamoto, K. (August 2010) NUCLEAR RECEPTORS & DISEASE. In: 2010 meeting on NUCLEAR RECEPTORS & DISEASE, August 31–September 4, 2010.

Grodzicker, T., Spector, D. L., Stewart, D., Stillman, B. (June 2010) Nuclear Organization & Function. In: Cold Spring Harbor Symposia on Quantitative Biology LXXV: Nuclear Organization and Function, June 2–June 7, 2010.

Thesis

Calarco, Joseph P. (2013) Chromatin Dynamics during Germline Development. PhD thesis, Cold Spring Harbor Laboratory.

Leung, A. (March 2010) Regulation of Chromatin by Histone H2B Ubiquitylation. PhD thesis, Cold Spring Harbor Laboratory.

Video

Vakoc, C. R. (November 2012) Talk from Chris Vakoc at the Cold Spring Harbor Laboratory In-House Symposium (2012). [Video] (Unpublished)

This list was generated on Thu Feb 21 02:20:49 2019 EST.
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