| Year |
Citation |
Score |
| 2023 |
Greenlaw AC, Alavattam KG, Tsukiyama T. Post-transcriptional regulation shapes the transcriptome of quiescent budding yeast. Nucleic Acids Research. PMID 38048329 DOI: 10.1093/nar/gkad1147 |
0.302 |
|
| 2022 |
Breeden LL, Tsukiyama T. Quiescence in . Annual Review of Genetics. 56: 253-278. PMID 36449357 DOI: 10.1146/annurev-genet-080320-023632 |
0.317 |
|
| 2022 |
Raman P, Rominger MC, Young JM, Molaro A, Tsukiyama T, Malik HS. Novel classes and evolutionary turnover of histone H2B variants in the mammalian germline. Molecular Biology and Evolution. PMID 35099534 DOI: 10.1093/molbev/msac019 |
0.409 |
|
| 2021 |
Swygert SG, Lin D, Portillo-Ledesma S, Lin PY, Hunt DR, Kao CF, Schlick T, Noble WS, Tsukiyama T. Local chromatin fiber folding represses transcription and loop extrusion in quiescent cells. Elife. 10. PMID 34734806 DOI: 10.7554/eLife.72062 |
0.799 |
|
| 2021 |
Cucinotta CE, Dell RH, Braceros KC, Tsukiyama T. RSC primes the quiescent genome for hypertranscription upon cell cycle re-entry. Elife. 10. PMID 34042048 DOI: 10.7554/eLife.67033 |
0.819 |
|
| 2020 |
Poramba-Liyanage DW, Korthout T, Cucinotta CE, van Kruijsbergen I, van Welsem T, El Atmioui D, Ovaa H, Tsukiyama T, van Leeuwen F. Inhibition of transcription leads to rewiring of locus-specific chromatin proteomes. Genome Research. PMID 32188699 DOI: 10.1101/Gr.256255.119 |
0.815 |
|
| 2020 |
Chong SY, Cutler S, Lin JJ, Tsai CH, Tsai HK, Biggins S, Tsukiyama T, Lo YC, Kao CF. H3K4 methylation at active genes mitigates transcription-replication conflicts during replication stress. Nature Communications. 11: 809. PMID 32041946 DOI: 10.1038/S41467-020-14595-4 |
0.531 |
|
| 2019 |
Swygert SG, Tsukiyama T. Unraveling quiescence-specific repressive chromatin domains. Current Genetics. PMID 31055637 DOI: 10.1007/S00294-019-00985-9 |
0.823 |
|
| 2018 |
Swygert SG, Kim S, Wu X, Fu T, Hsieh TH, Rando OJ, Eisenman RN, Shendure J, McKnight JN, Tsukiyama T. Condensin-Dependent Chromatin Compaction Represses Transcription Globally during Quiescence. Molecular Cell. PMID 30595435 DOI: 10.1016/J.Molcel.2018.11.020 |
0.833 |
|
| 2018 |
Cutler S, Lee LJ, Tsukiyama T. Chromatin Remodeling Factors Isw2 and Ino80 Regulate Chromatin, Replication, and Copy Number of the Ribosomal DNA Locus. Genetics. PMID 30355728 DOI: 10.1534/Genetics.118.301579 |
0.546 |
|
| 2018 |
Spain MM, Swygert SG, Tsukiyama T. Preparation and Analysis of Saccharomyces cerevisiae Quiescent Cells. Methods in Molecular Biology (Clifton, N.J.). 1686: 125-135. PMID 29030817 DOI: 10.1007/978-1-4939-7371-2_9 |
0.769 |
|
| 2016 |
Rodriguez J, Lee L, Lynch B, Tsukiyama T. Nucleosome occupancy as a novel chromatin parameter for replication origin functions. Genome Research. PMID 27895110 DOI: 10.1101/Gr.209940.116 |
0.538 |
|
| 2016 |
Alcid EA, Tsukiyama T. Expansion of antisense lncRNA transcriptomes in budding yeast species since the loss of RNAi. Nature Structural & Molecular Biology. 23: 450-5. PMID 27018804 DOI: 10.1038/Nsmb.3192 |
0.31 |
|
| 2016 |
McKnight JN, Tsukiyama T, Bowman GD. Sequence-targeted nucleosome sliding in vivo by a hybrid Chd1 chromatin remodeler. Genome Research. PMID 26993344 DOI: 10.1101/Gr.199919.115 |
0.582 |
|
| 2016 |
Alcid EA, Tsukiyama T. Systematic approaches to identify functional lncRNAs. Current Opinion in Genetics & Development. 37: 46-50. PMID 26821363 DOI: 10.1016/J.Gde.2015.12.005 |
0.376 |
|
| 2015 |
McKnight JN, Tsukiyama T. The conserved HDAC Rpd3 drives transcriptional quiescence in S. cerevisiae. Genomics Data. 6: 245-8. PMID 26697386 DOI: 10.1016/J.Gdata.2015.10.008 |
0.478 |
|
| 2015 |
McKnight JN, Breeden LL, Tsukiyama T. A Molecular Off Switch for Transcriptional Quiescence. Cell Cycle (Georgetown, Tex.). 0. PMID 26514179 DOI: 10.1080/15384101.2015.1112618 |
0.351 |
|
| 2015 |
McKnight JN, Boerma JW, Breeden LL, Tsukiyama T. Global Promoter Targeting of a Conserved Lysine Deacetylase for Transcriptional Shutoff during Quiescence Entry. Molecular Cell. 59: 732-43. PMID 26300265 DOI: 10.1016/J.Molcel.2015.07.014 |
0.544 |
|
| 2015 |
Lee L, Rodriguez J, Tsukiyama T. Chromatin remodeling factors Isw2 and Ino80 regulate checkpoint activity and chromatin structure in S phase. Genetics. 199: 1077-91. PMID 25701287 DOI: 10.1534/Genetics.115.174730 |
0.467 |
|
| 2014 |
Bogenschutz NL, Rodriguez J, Tsukiyama T. Initiation of DNA replication from non-canonical sites on an origin-depleted chromosome. Plos One. 9: e114545. PMID 25486280 DOI: 10.1371/Journal.Pone.0114545 |
0.789 |
|
| 2014 |
Alcid EA, Tsukiyama T. ATP-dependent chromatin remodeling shapes the long noncoding RNA landscape. Genes & Development. 28: 2348-60. PMID 25367034 DOI: 10.1101/Gad.250902.114 |
0.485 |
|
| 2014 |
Rodriguez J, McKnight JN, Tsukiyama T. Genome-Wide Analysis of Nucleosome Positions, Occupancy, and Accessibility in Yeast: Nucleosome Mapping, High-Resolution Histone ChIP, and NCAM. Current Protocols in Molecular Biology / Edited by Frederick M. Ausubel ... [Et Al.]. 108: 21.28.1-21.28.16. PMID 25271716 DOI: 10.1002/0471142727.Mb2128S108 |
0.531 |
|
| 2014 |
Yokoo T, Saito H, Yoshitake Y, Xu Q, Asami T, Tsukiyama T, Teraishi M, Okumoto Y, Tanisaka T. Se14, encoding a JmjC domain-containing protein, plays key roles in long-day suppression of rice flowering through the demethylation of H3K4me3 of RFT1. Plos One. 9: e96064. PMID 24759811 DOI: 10.1371/journal.pone.0096064 |
0.309 |
|
| 2013 |
Yadon AN, Tsukiyama T. DNA looping-dependent targeting of a chromatin remodeling factor. Cell Cycle (Georgetown, Tex.). 12: 1809-10. PMID 23708514 DOI: 10.4161/Cc.25114 |
0.815 |
|
| 2013 |
Yadon AN, Singh BN, Hampsey M, Tsukiyama T. DNA looping facilitates targeting of a chromatin remodeling enzyme. Molecular Cell. 50: 93-103. PMID 23478442 DOI: 10.1016/J.Molcel.2013.02.005 |
0.821 |
|
| 2013 |
Zentner GE, Tsukiyama T, Henikoff S. ISWI and CHD chromatin remodelers bind promoters but act in gene bodies. Plos Genetics. 9: e1003317. PMID 23468649 DOI: 10.1371/journal.pgen.1003317 |
0.474 |
|
| 2013 |
Rodriguez J, Tsukiyama T. ATR-like kinase Mec1 facilitates both chromatin accessibility at DNA replication forks and replication fork progression during replication stress. Genes & Development. 27: 74-86. PMID 23307868 DOI: 10.1101/Gad.202978.112 |
0.514 |
|
| 2013 |
Zentner GE, Tsukiyama T, Henikoff S. ISWI and CHD chromatin remodelers bind to promoters but act in gene bodies Epigenetics & Chromatin. 6: 1-1. DOI: 10.1186/1756-8935-6-S1-O29 |
0.559 |
|
| 2012 |
Unnikrishnan A, Akiyoshi B, Biggins S, Tsukiyama T. An efficient purification system for native minichromosome from saccharomyces cerevisiae Methods in Molecular Biology. 833: 115-123. PMID 22183591 DOI: 10.1007/978-1-61779-477-3_8 |
0.636 |
|
| 2011 |
Au TJ, Rodriguez J, Vincent JA, Tsukiyama T. ATP-dependent chromatin remodeling factors tune S phase checkpoint activity. Molecular and Cellular Biology. 31: 4454-63. PMID 21930788 DOI: 10.1128/Mcb.05931-11 |
0.737 |
|
| 2011 |
Yadon AN, Tsukiyama T. SnapShot: Chromatin remodeling: ISWI. Cell. 144: 453-453.e1. PMID 21295704 DOI: 10.1016/J.Cell.2011.01.019 |
0.806 |
|
| 2010 |
Yadon AN, Van de Mark D, Basom R, Delrow J, Whitehouse I, Tsukiyama T. Chromatin remodeling around nucleosome-free regions leads to repression of noncoding RNA transcription. Molecular and Cellular Biology. 30: 5110-22. PMID 20805356 DOI: 10.1128/Mcb.00602-10 |
0.802 |
|
| 2010 |
Unnikrishnan A, Gafken PR, Tsukiyama T. Dynamic changes in histone acetylation regulate origins of DNA replication. Nature Structural & Molecular Biology. 17: 430-7. PMID 20228802 DOI: 10.1038/Nsmb.1780 |
0.707 |
|
| 2010 |
Tsukiyama T, Bogenschutz N, Kwong T, Rodriguez J, Unnikrishnan A, Yadon A. ISWI chromatin remodeling complexes Handbook of Cell Signaling, 2/E. 3: 2357-2362. DOI: 10.1016/B978-0-12-374145-5.00283-7 |
0.783 |
|
| 2009 |
Whitehouse I, Tsukiyama T. Opening windows to the genome. Cell. 137: 400-2. PMID 19410536 DOI: 10.1016/J.Cell.2009.04.026 |
0.476 |
|
| 2008 |
Vincent JA, Kwong TJ, Tsukiyama T. ATP-dependent chromatin remodeling shapes the DNA replication landscape. Nature Structural & Molecular Biology. 15: 477-84. PMID 18408730 DOI: 10.1038/Nsmb.1419 |
0.575 |
|
| 2007 |
Whitehouse I, Rando OJ, Delrow J, Tsukiyama T. Chromatin remodelling at promoters suppresses antisense transcription. Nature. 450: 1031-5. PMID 18075583 DOI: 10.1038/Nature06391 |
0.593 |
|
| 2007 |
Nakajima A, Maruyama S, Bohgaki M, Miyajima N, Tsukiyama T, Sakuragi N, Hatakeyama S. Ligand-dependent transcription of estrogen receptor α is mediated by the ubiquitin ligase EFP Biochemical and Biophysical Research Communications. 357: 245-251. PMID 17418098 DOI: 10.1016/j.bbrc.2007.03.134 |
0.307 |
|
| 2006 |
Kim Y, McLaughlin N, Lindstrom K, Tsukiyama T, Clark DJ. Activation of Saccharomyces cerevisiae HIS3 results in Gcn4p-dependent, SWI/SNF-dependent mobilization of nucleosomes over the entire gene. Molecular and Cellular Biology. 26: 8607-22. PMID 16982689 DOI: 10.1128/Mcb.00678-06 |
0.52 |
|
| 2006 |
Lindstrom KC, Vary JC, Parthun MR, Delrow J, Tsukiyama T. Isw1 functions in parallel with the NuA4 and Swr1 complexes in stress-induced gene repression. Molecular and Cellular Biology. 26: 6117-29. PMID 16880522 DOI: 10.1128/Mcb.00642-06 |
0.611 |
|
| 2006 |
Whitehouse I, Tsukiyama T. Antagonistic forces that position nucleosomes in vivo. Nature Structural & Molecular Biology. 13: 633-40. PMID 16819518 DOI: 10.1038/Nsmb1111 |
0.523 |
|
| 2006 |
Tsukiyama T, Parkhurst S. Chromosomes and expression mechanisms Current Opinion in Genetics and Development. 16: 101-103. DOI: 10.1016/J.Gde.2006.02.016 |
0.507 |
|
| 2005 |
Fazzio TG, Gelbart ME, Tsukiyama T. Two distinct mechanisms of chromatin interaction by the Isw2 chromatin remodeling complex in vivo. Molecular and Cellular Biology. 25: 9165-74. PMID 16227570 DOI: 10.1128/Mcb.25.21.9165-9174.2005 |
0.786 |
|
| 2005 |
Bachman N, Gelbart ME, Tsukiyama T, Boeke JD. TFIIIB subunit Bdp1p is required for periodic integration of the Ty1 retrotransposon and targeting of Isw2p to S. cerevisiae tDNAs. Genes & Development. 19: 955-64. PMID 15833918 DOI: 10.1101/Gad.1299105 |
0.475 |
|
| 2005 |
Gelbart ME, Bachman N, Delrow J, Boeke JD, Tsukiyama T. Genome-wide identification of Isw2 chromatin-remodeling targets by localization of a catalytically inactive mutant. Genes & Development. 19: 942-54. PMID 15833917 DOI: 10.1101/Gad.1298905 |
0.461 |
|
| 2004 |
McConnell AD, Gelbart ME, Tsukiyama T. Histone fold protein Dls1p is required for Isw2-dependent chromatin remodeling in vivo. Molecular and Cellular Biology. 24: 2605-13. PMID 15024052 DOI: 10.1128/Mcb.24.7.2605-2613.2004 |
0.544 |
|
| 2004 |
Vary JC, Fazzio TG, Tsukiyama T. Assembly of yeast chromatin using ISWI complexes. Methods in Enzymology. 375: 88-102. PMID 14870661 DOI: 10.1016/S0076-6879(03)75006-X |
0.764 |
|
| 2003 |
Fazzio TG, Tsukiyama T. Chromatin remodeling in vivo: evidence for a nucleosome sliding mechanism. Molecular Cell. 12: 1333-40. PMID 14636590 DOI: 10.1016/S1097-2765(03)00436-2 |
0.778 |
|
| 2003 |
Moreau JL, Lee M, Mahachi N, Vary J, Mellor J, Tsukiyama T, Goding CR. Regulated displacement of TBP from the PHO8 promoter in vivo requires Cbf1 and the Isw1 chromatin remodeling complex. Molecular Cell. 11: 1609-20. PMID 12820973 DOI: 10.1016/S1097-2765(03)00184-9 |
0.522 |
|
| 2003 |
Vary JC, Gangaraju VK, Qin J, Landel CC, Kooperberg C, Bartholomew B, Tsukiyama T. Yeast Isw1p forms two separable complexes in vivo. Molecular and Cellular Biology. 23: 80-91. PMID 12482963 DOI: 10.1128/Mcb.23.1.80-91.2003 |
0.546 |
|
| 2002 |
Kassabov SR, Henry NM, Zofall M, Tsukiyama T, Bartholomew B. High-resolution mapping of changes in histone-DNA contacts of nucleosomes remodeled by ISW2. Molecular and Cellular Biology. 22: 7524-34. PMID 12370299 DOI: 10.1128/Mcb.22.21.7524-7534.2002 |
0.429 |
|
| 2002 |
Tsukiyama T. The in vivo functions of ATP-dependent chromatin-remodelling factors. Nature Reviews. Molecular Cell Biology. 3: 422-9. PMID 12042764 DOI: 10.1038/Nrm828 |
0.518 |
|
| 2002 |
Kooperberg C, Fazzio TG, Delrow JJ, Tsukiyama T. Improved background correction for spotted DNA microarrays. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 9: 55-66. PMID 11911795 DOI: 10.1089/10665270252833190 |
0.639 |
|
| 2001 |
Fazzio TG, Kooperberg C, Goldmark JP, Neal C, Basom R, Delrow J, Tsukiyama T. Widespread collaboration of Isw2 and Sin3-Rpd3 chromatin remodeling complexes in transcriptional repression. Molecular and Cellular Biology. 21: 6450-60. PMID 11533234 DOI: 10.1128/Mcb.21.19.6450-6460.2001 |
0.758 |
|
| 2001 |
Gelbart ME, Rechsteiner T, Richmond TJ, Tsukiyama T. Interactions of Isw2 chromatin remodeling complex with nucleosomal arrays: analyses using recombinant yeast histones and immobilized templates. Molecular and Cellular Biology. 21: 2098-106. PMID 11238944 DOI: 10.1128/Mcb.21.6.2098-2106.2001 |
0.528 |
|
| 2001 |
Mizuguchi G, Vassilev A, Tsukiyama T, Nakatani Y, Wu C. ATP-dependent Nucleosome Remodeling and Histone Hyperacetylation Synergistically Facilitate Transcription of Chromatin Journal of Biological Chemistry. 276: 14773-14783. DOI: 10.1074/Jbc.M100125200 |
0.565 |
|
| 2000 |
Goldmark JP, Fazzio TG, Estep PW, Church GM, Tsukiyama T. The Isw2 chromatin remodeling complex represses early meiotic genes upon recruitment by Ume6p. Cell. 103: 423-33. PMID 11081629 DOI: 10.1016/S0092-8674(00)00134-3 |
0.763 |
|
| 2000 |
Deuring R, Fanti L, Armstrong JA, Sarte M, Papoulas O, Prestel M, Daubresse G, Verardo M, Moseley SL, Berloco M, Tsukiyama T, Wu C, Pimpinelli S, Tamkun JW. The ISWI chromatin-remodeling protein is required for gene expression and the maintenance of higher order chromatin structure in vivo. Molecular Cell. 5: 355-65. PMID 10882076 DOI: 10.1016/S1097-2765(00)80430-X |
0.543 |
|
| 1999 |
Sandaltzopoulos R, Ossipow V, Gdula DA, Tsukiyama T, Wu C. Purification of Drosophila nucleosome remodeling factor Methods in Enzymology. 304: 757-765. PMID 10372395 DOI: 10.1016/S0076-6879(99)04046-X |
0.681 |
|
| 1999 |
Tsukiyama T, Palmer J, Landel CC, Shiloach J, Wu C. Characterization of the imitation switch subfamily of ATP-dependent chromatin-remodeling factors in Saccharomyces cerevisiae Genes and Development. 13: 686-697. PMID 10090725 DOI: 10.1101/Gad.13.6.686 |
0.545 |
|
| 1998 |
Wu C, Tsukiyama T, Gdula D, Georgel P, Martínez-Balbás M, Mizuguchi G, Ossipow V, Sandaltzopoulos R, Wang HM. ATP-dependent remodeling of chromatin Cold Spring Harbor Symposia On Quantitative Biology. 63: 525-534. PMID 10384317 DOI: 10.1101/Sqb.1998.63.525 |
0.568 |
|
| 1998 |
Gdula DA, Sandaltzopoulos R, Tsukiyama T, Ossipow V, Wu C. Inorganic pyrophosphatase is a component of the Drosophila nucleosome remodeling factor complex Genes and Development. 12: 3206-3216. PMID 9784495 DOI: 10.1101/Gad.12.20.3206 |
0.631 |
|
| 1998 |
Martínez-Balbás MA, Tsukiyama T, Gdula D, Wu C. Drosophila NURF-55, a WD repeat protein involved in histone metabolism Proceedings of the National Academy of Sciences of the United States of America. 95: 132-137. PMID 9419341 DOI: 10.1073/Pnas.95.1.132 |
0.609 |
|
| 1997 |
Mizuguchi G, Tsukiyama T, Wisniewski J, Wu C. Role of nucleosome remodeling factor NURF in transcriptional activation of chromatin Molecular Cell. 1: 141-150. PMID 9659911 DOI: 10.1016/S1097-2765(00)80015-5 |
0.637 |
|
| 1997 |
Georgel PT, Tsukiyama T, Wu C. Role of histone tails in nucleosome remodeling by Drosophila NURF Embo Journal. 16: 4717-4726. PMID 9303316 DOI: 10.1093/Emboj/16.15.4717 |
0.594 |
|
| 1997 |
Tsukiyama T, Wu C. Chromatin remodeling and transcription Current Opinion in Genetics and Development. 7: 182-191. PMID 9115421 DOI: 10.1016/S0959-437X(97)80127-X |
0.61 |
|
| 1996 |
Tsukiyama T, Wu C. Purification of GAGA factor of Drosophila and its role in nucleosome disruption Methods in Enzymology. 274: 291-299. PMID 8902813 DOI: 10.1016/S0076-6879(96)74025-9 |
0.57 |
|
| 1995 |
Tsukiyama T, Daniel C, Tamkun J, Wu C. ISWI, a member of the SWI2/SNF2 ATPase family, encodes the 140 kDa subunit of the nucleosome remodeling factor. Cell. 83: 1021-6. PMID 8521502 DOI: 10.1016/0092-8674(95)90217-1 |
0.585 |
|
| 1995 |
Tsukiyama T, Wu C. Purification and properties of an ATP-dependent nucleosome remodeling factor Cell. 83: 1011-1020. PMID 8521501 DOI: 10.1016/0092-8674(95)90216-3 |
0.609 |
|
| 1994 |
Tsukiyama T, Becker PB, Wu C. ATP-dependent nucleosome disruption at a heat-shock promoter mediated by binding of GAGA transcription factor Nature. 367: 525-532. PMID 8107823 DOI: 10.1038/367525A0 |
0.562 |
|
| 1994 |
Kim SJ, Tsukiyama T, Lewis MS, Wu C. Interaction of the DNA-binding domain of Drosophila heat shock factor with its cognate DNA site: a thermodynamic analysis using analytical ultracentrifugation. Protein Science : a Publication of the Protein Society. 3: 1040-51. PMID 7920249 DOI: 10.1002/Pro.5560030706 |
0.533 |
|
| 1994 |
Becker PB, Tsukiyama T, Wu C. Chromatin assembly extracts from Drosophila embryos Methods in Cell Biology. 44: 207-223. PMID 7707953 DOI: 10.1016/S0091-679X(08)60915-2 |
0.628 |
|
| 1994 |
Kotomura N, Okada M, Ninomiya Y, Tsukiyama T, Umesono K, Evans RM, Niwa O. Repression of retinoic acid-induced transactivation by embryonal LTR binding protein Journal of Biochemistry. 116: 1309-1316. PMID 7706222 DOI: 10.1093/Oxfordjournals.Jbchem.A124680 |
0.566 |
|
| 1994 |
Becker PB, Tsukiyama T, Wu C. Chromatin assembly extracts from Drosophila embryos. Methods in Cell Biology. 44: 207-223. DOI: 10.5282/Ubm/Epub.7384 |
0.505 |
|
| 1992 |
Tsukiyama T, Niwa O. Isolation of high affinity cellular targets of the embryonal LTR binding protein, an undifferentiated embryonal carcinoma cell-specific repressor of moloney leukemia virus Nucleic Acids Research. 20: 1477-1482. PMID 1579438 DOI: 10.1093/Nar/20.7.1477 |
0.626 |
|
| 1992 |
Tsukiyama T, Ueda H, Hirose S, Niwa O. Embryonal Long Terminal Repeat-Binding Protein Is a Murine Homolog of FTZ-F1, a Member of the Steroid Receptor Superfamily Molecular and Cellular Biology. 12: 1286-1291. PMID 1545809 DOI: 10.1128/Mcb.12.3.1286 |
0.609 |
|
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