Dynamics of Replication-Independent Histone Turnover in Budding Yeast

Genome-wide Map of Nucleosome Acetylation and Methylation in Yeast

Pokholok, D., Harbison, C. T., Levine, S. S., Cole, M. F., Hannett, N. M., Lee, T. I., Bell, G. W., Walker, K., Rolfe, A., Herbolsheimer, E., et al. (2005) · Cell · doi:10.1016/j.cell.2005.06.026 · Cited by 1,433 · see citing works

Genome-Scale Identification of Nucleosome Positions in S. cerevisiae

Yuan, G., Liu, Y.-J., Dion, M. F., Slack, M. D., Wu, L. F., Altschuler, S. J., & Rando, O. J. (2005) · Science · doi:10.1126/science.1112178 · Cited by 1,139 · see citing works

The Histone Variant H3.3 Marks Active Chromatin by Replication-Independent Nucleosome Assembly

Ahmad, K., & Henikoff, S. (2002) · Molecular Cell · doi:10.1016/s1097-2765(02)00542-7 · Cited by 1,117 · see citing works

Evidence for nucleosome depletion at active regulatory regions genome-wide

Lee, C.-K., Shibata, Y., Rao, B., Strahl, B. D., & Lieb, J. D. (2004) · Nature Genetics · doi:10.1038/ng1400 · Cited by 738 · see citing works

The Establishment, Inheritance, and Function of Silenced Chromatin in Saccharomyces cerevisiae

Rusché, L. N., Kirchmaier, A. L., & Rine, J. (2003) · Annual Review of Biochemistry · doi:10.1146/annurev.biochem.72.121801.161547 · Cited by 726 · see citing works

Histone Variant H2A.Z Marks the 5′ Ends of Both Active and Inactive Genes in Euchromatin

Raisner, R. M., Hartley, P. D., Meneghini, M. D., Bao, M. Z., Liu, C. L., Schreiber, S. L., Rando, O. J., & Madhani, H. D. (2005) · Cell · doi:10.1016/j.cell.2005.10.002 · Cited by 676 · see citing works

Conserved Histone Variant H2A.Z Protects Euchromatin from the Ectopic Spread of Silent Heterochromatin

Meneghini, M. D., Wu, M. K. Y., & Madhani, H. D. (2003) · Cell · doi:10.1016/s0092-8674(03)00123-5 · Cited by 627 · see citing works

Genome-Wide Localization of the Nuclear Transport Machinery Couples Transcriptional Status and Nuclear Organization

Casolari, J. M., Brown, C. R., Komili, S., West, J. A., Hieronymus, H., & Silver, P. A. (2004) · Cell · doi:10.1016/s0092-8674(04)00448-9 · Cited by 604 · see citing works

Genome-scale profiling of histone H3.3 replacement patterns

Mito, Y., Henikoff, J. G., & Henikoff, S. (2005) · Nature Genetics · doi:10.1038/ng1637 · Cited by 511 · see citing works

Single-Nucleosome Mapping of Histone Modifications in S. cerevisiae

Liu, C. L., Kaplan, T., Kim, M., Buratowski, S., Schreiber, S. L., Friedman, N., & Rando, O. J. (2005) · PLoS Biology · doi:10.1371/journal.pbio.0030328 · Cited by 491 · see citing works

Variant Histone H2A.Z Is Globally Localized to the Promoters of Inactive Yeast Genes and Regulates Nucleosome Positioning

Guillemette, B., Bataille, A. R., Gévry, N. Y., Adam, M., Blanchette, M., Robert, F., & Gaudreau, L. R. (2005) · PLoS Biology · doi:10.1371/journal.pbio.0030384 · Cited by 442 · see citing works

Nucleosomes Unfold Completely at a Transcriptionally Active Promoter

Boeger, H., Griesenbeck, J., Strattan, J. S., & Kornberg, R. D. (2003) · Molecular Cell · doi:10.1016/s1097-2765(03)00231-4 · Cited by 402 · see citing works

Evidence for Eviction and Rapid Deposition of Histones upon Transcriptional Elongation by RNA Polymerase II

Schwabish, M. A., & Struhl, K. (2004) · Molecular and Cellular Biology · doi:10.1128/mcb.24.23.10111-10117.2004 · Cited by 399 · see citing works

Histones Are First Hyperacetylated and Then Lose Contact with the Activated PHO5 Promoter

Reinke, H., & Hörz, W. (2003) · Molecular Cell · doi:10.1016/s1097-2765(03)00186-2 · Cited by 394 · see citing works

The boundaries of the silenced HMR domain in Saccharomyces cerevisiaePreprint

Donze, D., Adams, C. R., Rine, J., & Kamakaka, R. T. (1999) · Genes & Development · doi:10.1101/gad.13.6.698 · Cited by 373 · see citing works

Chromatin Boundaries in Budding Yeast

Ishii, K., Arib, G., Lin, C., et al. (2002) · Cell · doi:10.1016/s0092-8674(02)00756-0 · Cited by 365 · see citing works

Global nucleosome occupancy in yeast

Bernstein, B., Liu, C. L., Humphrey, E. L., Perlstein, E. O., & Schreiber, S. L. (2004) · Genome biology · doi:10.1186/gb-2004-5-9-r62 · Cited by 356 · see citing works

Histone H3 variants specify modes of chromatin assembly

Ahmad, K., & Henikoff, S. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.172403699 · Cited by 333 · see citing works

Histone Replacement Marks the Boundaries of cis-Regulatory Domains

Mito, Y., Henikoff, J. G., & Henikoff, S. (2007) · Science · doi:10.1126/science.1134004 · Cited by 280 · see citing works

Evidence for distinct mechanisms facilitating transcript elongation through chromatin in vivo

Kristjuhan, A., & Svejstrup, J. Q. (2004) · The EMBO Journal · doi:10.1038/sj.emboj.7600433 · Cited by 173 · see citing works

Replication-independent core histone dynamics at transcriptionally active loci in vivoPreprint

Thiriet, C., & Hayes, J. J. (2005) · Genes & Development · doi:10.1101/gad.1265205 · Cited by 137 · see citing works

Histones Are Incorporated in trans during Reassembly of the Yeast PHO5 Promoter

Schermer, U. J., Korber, P., & Hörz, W. (2005) · Molecular Cell · doi:10.1016/j.molcel.2005.05.028 · Cited by 86 · see citing works

Chromosomal boundaries in S. cerevisiae

Bi, X., & Broach, J. R. (2001) · Current Opinion in Genetics & Development · doi:10.1016/s0959-437x(00)00179-9 · Cited by 65 · see citing works

Rap1p and other transcriptional regulators can function in defining distinct domains of gene expression

Yu, Q. (2003) · Nucleic Acids Research · doi:10.1093/nar/gkg200 · Cited by 35 · see citing works

A Targeted Histone Acetyltransferase Can Create a Sizable Region of Hyperacetylated Chromatin and Counteract the Propagation of Transcriptionally Silent Chromatin

Chiu, Y.-H., Yu, Q., Sandmeier, J. J., et al. (2003) · Genetics · doi:10.1093/genetics/165.1.115 · Cited by 34 · see citing works

Global Replication-Independent Histone H4 Exchange in Budding Yeast

Linger, J. G., & Tyler, J. K. (2006) · Eukaryotic Cell · doi:10.1128/ec.00202-06 · Cited by 24 · see citing works

Regulation of nucleosome dynamics by histone modifications

Zentner, G. E., & Henikoff, S. (2013) · Nature Structural & Molecular Biology · doi:10.1038/nsmb.2470 · Cited by 923 · see citing works

Mapping Nucleosome Resolution Chromosome Folding in Yeast by Micro-C

Hsieh, T.-H. S., Weiner, A., Lajoie, B., Dekker, J., Friedman, N., & Rando, O. J. (2015) · Cell · doi:10.1016/j.cell.2015.05.048 · Cited by 788 · see citing works

Chromatin modifications as determinants of muscle stem cell quiescence and chronological aging

Liu, L., Cheung, T. H., Charville, G. W., Hurgo, B. M. C., Leavitt, T., Shih, J., Brunet, A., & Rando, T. A. (2013) · Cell Reports · doi:10.1016/j.celrep.2013.05.043 · Cited by 544 · see citing works

Understanding nucleosome dynamics and their links to gene expression and DNA replication

Lai, W. K. M., & Pugh, B. F. (2017) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm.2017.47 · Cited by 495 · see citing works

Chromatin higher-order structures and gene regulation

Li, G., & Reinberg, D. (2011) · Current Opinion in Genetics & Development · doi:10.1016/j.gde.2011.01.022 · Cited by 454 · see citing works

Screen for DNA‐damage‐responsive histone modifications identifies H3K9Ac and H3K56Ac in human cells

Tjeertes, J. V., Miller, K. M., & Jackson, S. P. (2009) · The EMBO Journal · doi:10.1038/emboj.2009.119 · Cited by 347 · see citing works

Signaling Pathways Differentially Affect RNA Polymerase II Initiation, Pausing, and Elongation Rate in Cells

Danko, C. G., Hah, N., Luo, X., Martins, A. L., Core, L., Lis, J. T., Siepel, A., & Kraus, W. L. (2013) · Molecular Cell · doi:10.1016/j.molcel.2013.02.015 · Cited by 333 · see citing works

Acetylation-Mediated Proteasomal Degradation of Core Histones during DNA Repair and Spermatogenesis

Qian, M.-X., Pang, Y., Liu, C. H., Haratake, K., Du, B.-Y., Ji, D.-Y., Wang, G.-F., Zhu, Q.-Q., Song, W., Yu, Y., et al. (2013) · Cell · doi:10.1016/j.cell.2013.04.032 · Cited by 330 · see citing works

Genome-Wide Replication-Independent Histone H3 Exchange Occurs Predominantly at Promoters and Implicates H3 K56 Acetylation and Asf1

Rufiange, A., Jacques, P.-É., Bhat, W., Robert, F., & Nourani, A. (2007) · Molecular Cell · doi:10.1016/j.molcel.2007.07.011 · Cited by 313 · see citing works

Critical Role of Histone Turnover in Neuronal Transcription and Plasticity

Maze, I., Wenderski, W., Noh, K.-M., Bagot, R. C., Tzavaras, N., Purushothaman, I., Elsässer, S. J., Guo, Y., Ionete, C., Hurd, Y. L., et al. (2015) · Neuron · doi:10.1016/j.neuron.2015.06.014 · Cited by 306 · see citing works

Chromatin and Transcription in Yeast

Rando, O. J., & Winston, F. (2012) · Genetics · doi:10.1534/genetics.111.132266 · Cited by 269 · see citing works

Genome-wide protein–DNA binding dynamics suggest a molecular clutch for transcription factor function

Lickwar, C. R., Mueller, F., Hanlon, S. E., McNally, J. G., & Lieb, J. D. (2012) · Nature · doi:10.1038/nature10985 · Cited by 241 · see citing works

Transcription in Living Cells: Molecular Mechanisms of Bursting

Rodriguez, J., & Larson, D. R. (2020) · Annual Review of Biochemistry · doi:10.1146/annurev-biochem-011520-105250 · Cited by 224 · see citing works

The Rtt106 Histone Chaperone Is Functionally Linked to Transcription Elongation and Is Involved in the Regulation of Spurious Transcription from Cryptic Promoters in Yeast*♦

Imbeault, D., Gamar, L., Rufiange, A., Paquet, E., & Nourani, A. (2008) · Journal of Biological Chemistry · doi:10.1074/jbc.c800147200 · Cited by 66 · see citing works

SWI/SNF and Asf1p Cooperate To Displace Histones during Induction of the <i>Saccharomyces cerevisiae HO</i> Promoter

Gkikopoulos, T., Havas, K. M., Dewar, H., & Owen-Hughes, T. (2009) · Molecular and Cellular Biology · doi:10.1128/mcb.00400-09 · Cited by 33 · see citing works

SWI/SNF and the histone chaperone Rtt106 drive expression of the Pleiotropic Drug Resistance network genes

Nikolov, V. N., Malavia, D., & Kubota, T. (2022) · Nature Communications · doi:10.1038/s41467-022-29591-z · Cited by 16 · see citing works

Mechanical disruption of individual nucleosomes reveals a reversible multistage release of DNA

Brower‐Toland, B. D., Smith, C. L., Yeh, R. C.-I., Lis, J. T., Peterson, C. L., & Wang, M. D. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.022638399 · Cited by 484 · see citing works

In Vivo Role for the Chromatin-remodeling Enzyme SWI/SNF in the Removal of Promoter Nucleosomes by Disassembly Rather Than Sliding

Brown, C. R., Mao, C., Falkovskaia, E., Law, J. K., & Boeger, H. (2011) · Journal of Biological Chemistry · doi:10.1074/jbc.m111.289918 · Cited by 24 · see citing works

Mi2, an auto-antigen for dermatomyositis, is an ATP-dependent nucleosome remodeling factor

Wang, H. (2001) · Nucleic Acids Research · doi:10.1093/nar/29.12.2517 · Cited by 117 · see citing works

Nucleosome remodeling: one mechanism, many phenomena?

Längst, G., & Becker, P. B. (2003) · Biochimica et Biophysica Acta (BBA) - Gene Structure and Expression · doi:10.1016/j.bbaexp.2003.10.011 · Cited by 145 · see citing works

Mapping Nucleosome Locations on the 208-12 by AFM Provides Clear Evidence for Cooperativity in Array Occupation

Yodh, J. G., Woodbury, N. W., Shlyakhtenko, L. S., Lyubchenko, Y. L., & Lohr, D. (2002) · Biochemistry · doi:10.1021/bi011612e · Cited by 50 · see citing works