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Yifan Liu, Ph.D. - Publications

Affiliations: 
University of Rochester, Rochester, NY 
Area:
the histone genes and tubulin genes of the ciliated protozoan Tetrahymena thermophila
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32 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Sheng Y, Wang Y, Yang W, Wang XQ, Lu J, Pan B, Nan B, Liu Y, Ye F, Li C, Song J, Dou Y, Gao S, Liu Y. Semiconservative transmission of DNA N6-adenine methylation in a unicellular eukaryote. Genome Research. PMID 38744529 DOI: 10.1101/gr.277843.123  0.505
2021 Xu J, Zhao X, Mao F, Basrur V, Ueberheide B, Chait BT, Allis CD, Taverna SD, Gao S, Wang W, Liu Y. A Polycomb repressive complex is required for RNAi-mediated heterochromatin formation and dynamic distribution of nuclear bodies. Nucleic Acids Research. PMID 33412588 DOI: 10.1093/nar/gkaa1262  0.488
2019 Wang Y, Sheng Y, Liu Y, Zhang W, Cheng T, Duan L, Pan B, Qiao Y, Liu Y, Gao S. A distinct class of eukaryotic MT-A70 methyltransferases maintain symmetric DNA N6-adenine methylation at the ApT dinucleotides as an epigenetic mark associated with transcription. Nucleic Acids Research. PMID 31722409 DOI: 10.1093/Nar/Gkz1053  0.427
2019 Xiong J, Yang W, Chen K, Jiang C, Ma Y, Chai X, Yan G, Wang G, Yuan D, Liu Y, Bidwell SL, Zafar N, Hadjithomas M, Krishnakumar V, Coyne RS, et al. Hidden genomic evolution in a morphospecies-The landscape of rapidly evolving genes in Tetrahymena. Plos Biology. 17: e3000294. PMID 31158217 DOI: 10.1371/Journal.Pbio.3000294  0.312
2019 Zhao X, Xiong J, Mao F, Sheng Y, Chen X, Feng L, Dui W, Yang W, Kapusta A, Feschotte C, Coyne RS, Miao W, Gao S, Liu Y. RNAi-dependent repression controls transposable elements in . Genes & Development. PMID 30808657 DOI: 10.1101/Gad.320796.118  0.343
2018 Liu Y, Dou Y. Re-SET for Transcription. Molecular Cell. 70: 985-986. PMID 29932907 DOI: 10.1016/j.molcel.2018.06.010  0.477
2017 Wang Y, Chen X, Sheng Y, Liu Y, Gao S. N6-adenine DNA methylation is associated with the linker DNA of H2A.Z-containing well-positioned nucleosomes in Pol II-transcribed genes in Tetrahymena. Nucleic Acids Research. PMID 29036602 DOI: 10.1093/Nar/Gkx883  0.426
2017 Feng L, Wang G, Hamilton EP, Xiong J, Yan G, Chen K, Chen X, Dui W, Plemens A, Khadr L, Dhanekula A, Juma M, Dang HQ, Kapler GM, Orias E, ... ... Liu Y, et al. A germline-limited piggyBac transposase gene is required for precise excision in Tetrahymena genome rearrangement. Nucleic Acids Research. 45: 9481-9502. PMID 28934495 DOI: 10.1093/Nar/Gkx652  0.332
2017 Suhren JH, Noto T, Kataoka K, Gao S, Liu Y, Mochizuki K. Negative Regulators of an RNAi-Heterochromatin Positive Feedback Loop Safeguard Somatic Genome Integrity in Tetrahymena. Cell Reports. 18: 2494-2507. PMID 28273462 DOI: 10.1016/J.Celrep.2017.02.024  0.369
2016 Zhao X, Wang Y, Wang Y, Liu Y, Gao S. Histone methyltransferase TXR1 is required for both H3 and H3.3 lysine 27 methylation in the well-known ciliated protist Tetrahymena thermophila. Science China. Life Sciences. PMID 27761696 DOI: 10.1007/S11427-016-0183-1  0.465
2016 Chen X, Gao S, Liu Y, Wang Y, Wang Y, Song W. Enzymatic and chemical mapping of nucleosome distribution in purified micro- and macronuclei of the ciliated model organism, Tetrahymena thermophila. Science China. Life Sciences. PMID 27568393 DOI: 10.1007/S11427-016-5102-X  0.366
2016 Xiong J, Gao S, Dui W, Yang W, Chen X, Taverna SD, Pearlman RE, Ashlock W, Miao W, Liu Y. Dissecting relative contributions of cis- and trans-determinants to nucleosome distribution by comparing Tetrahymena macronuclear and micronuclear chromatin. Nucleic Acids Research. PMID 27488188 DOI: 10.1093/Nar/Gkw684  0.365
2014 Papazyan R, Voronina E, Chapman JR, Luperchio TR, Gilbert TM, Meier E, Mackintosh SG, Shabanowitz J, Tackett AJ, Reddy KL, Coyne RS, Hunt DF, Liu Y, Taverna SD. Methylation of histone H3K23 blocks DNA damage in pericentric heterochromatin during meiosis. Elife. 3: e02996. PMID 25161194 DOI: 10.7554/Elife.02996  0.472
2014 Zhang C, Gao S, Molascon AJ, Wang Z, Gorovsky MA, Liu Y, Andrews PC. Bioinformatic and proteomic analysis of bulk histones reveals PTM crosstalk and chromatin features. Journal of Proteome Research. 13: 3330-7. PMID 24894457 DOI: 10.1021/Pr5001829  0.632
2014 Zhang C, Gao S, Molascon AJ, Liu Y, Andrews PC. Quantitative proteomics reveals histone modifications in crosstalk with H3 lysine 27 methylation. Molecular & Cellular Proteomics : McP. 13: 749-59. PMID 24382802 DOI: 10.1074/Mcp.M113.029025  0.461
2014 Papazyan R, Voronina E, Chapman JR, Luperchio TR, Gilbert TM, Meier E, Mackintosh SG, Shabanowitz J, Tackett AJ, Reddy KL, Coyne RS, Hunt DF, Liu Y, Taverna SD. Author response: Methylation of histone H3K23 blocks DNA damage in pericentric heterochromatin during meiosis Elife. DOI: 10.7554/Elife.02996.021  0.385
2013 Gao S, Xiong J, Zhang C, Berquist BR, Yang R, Zhao M, Molascon AJ, Kwiatkowski SY, Yuan D, Qin Z, Wen J, Kapler GM, Andrews PC, Miao W, Liu Y. Impaired replication elongation in Tetrahymena mutants deficient in histone H3 Lys 27 monomethylation. Genes & Development. 27: 1662-79. PMID 23884606 DOI: 10.1101/Gad.218966.113  0.458
2013 Zhang C, Liu Y, Andrews PC. Quantification of histone modifications using ¹⁵N metabolic labeling. Methods (San Diego, Calif.). 61: 236-43. PMID 23454290 DOI: 10.1016/J.Ymeth.2013.02.004  0.378
2013 Zhang C, Molascon AJ, Gao S, Liu Y, Andrews PC. Quantitative proteomics reveals that the specific methyltransferases Txr1p and Ezl2p differentially affect the mono-, di- and trimethylation states of histone H3 lysine 27 (H3K27). Molecular & Cellular Proteomics : McP. 12: 1678-88. PMID 23150054 DOI: 10.1074/Mcp.M112.021733  0.468
2013 Papazvan R, Voronina E, Chapman JR, Gilbert TM, Meier E, Shabanowitz J, Hunt DF, Liu Y, Taverna SD. Methylation of histone H3 at lysine 23 in meiotic heterochromatin Epigenetics & Chromatin. 6. DOI: 10.1186/1756-8935-6-S1-O13  0.461
2012 Song X, Bowen J, Miao W, Liu Y, Gorovsky MA. The nonhistone, N-terminal tail of an essential, chimeric H2A variant regulates mitotic H3-S10 dephosphorylation Genes and Development. 26: 615-629. PMID 22426537 DOI: 10.1101/Gad.182683.111  0.667
2010 Cao F, Chen Y, Cierpicki T, Liu Y, Basrur V, Lei M, Dou Y. An Ash2L/RbBP5 heterodimer stimulates the MLL1 methyltransferase activity through coordinated substrate interactions with the MLL1 SET domain. Plos One. 5: e14102. PMID 21124902 DOI: 10.1371/Journal.Pone.0014102  0.564
2009 Cao F, Li X, Hiew S, Brady H, Liu Y, Dou Y. Dicer independent small RNAs associate with telomeric heterochromatin. Rna (New York, N.Y.). 15: 1274-81. PMID 19460867 DOI: 10.1261/Rna.1423309  0.542
2009 Miao W, Xiong J, Bowen J, Wang W, Liu Y, Braguinets O, Grigull J, Pearlman RE, Orias E, Gorovsky MA. Microarray analyses of gene expression during the Tetrahymena thermophila life cycle. Plos One. 4: e4429. PMID 19204800 DOI: 10.1371/Journal.Pone.0004429  0.568
2008 Coyne RS, Thiagarajan M, Jones KM, Wortman JR, Tallon LJ, Haas BJ, Cassidy-Hanley DM, Wiley EA, Smith JJ, Collins K, Lee SR, Couvillion MT, Liu Y, Garg J, Pearlman RE, et al. Refined annotation and assembly of the Tetrahymena thermophila genome sequence through EST analysis, comparative genomic hybridization, and targeted gap closure. Bmc Genomics. 9: 562. PMID 19036158 DOI: 10.1186/1471-2164-9-562  0.305
2007 Liu Y, Taverna SD, Muratore TL, Shabanowitz J, Hunt DF, Allis CD. RNAi-dependent H3K27 methylation is required for heterochromatin formation and DNA elimination in Tetrahymena. Genes & Development. 21: 1530-45. PMID 17575054 DOI: 10.1101/Gad.1544207  0.573
2007 Taverna SD, Ueberheide BM, Liu Y, Tackett AJ, Diaz RL, Shabanowitz J, Chait BT, Hunt DF, Allis CD. Long-distance combinatorial linkage between methylation and acetylation on histone H3 N termini. Proceedings of the National Academy of Sciences of the United States of America. 104: 2086-91. PMID 17284592 DOI: 10.1073/Pnas.0610993104  0.603
2006 Cui B, Liu Y, Gorovsky MA. Deposition and function of histone H3 variants in Tetrahymena thermophila Molecular and Cellular Biology. 26: 7719-7730. PMID 16908532 DOI: 10.1128/Mcb.01139-06  0.675
2005 Dou Y, Song X, Liu Y, Gorovsky MA. The H1 phosphorylation state regulates expression of CDC2 and other genes in response to starvation in Tetrahymena thermophila Molecular and Cellular Biology. 25: 3914-3922. PMID 15870266 DOI: 10.1128/Mcb.25.10.3914-3922.2005  0.692
2005 Liu Y, Song X, Gorovsky MA, Karrer KM. Elimination of foreign DNA during somatic differentiation in Tetrahymena thermophila shows position effect and is dosage dependent Eukaryotic Cell. 4: 421-431. PMID 15701804 DOI: 10.1128/Ec.4.2.421-431.2005  0.633
2004 Liu Y, Mochizuki K, Gorovsky MA. Histone H3 lysine 9 methylation is required for DNA elimination in developing macronuclei in Tetrahymena Proceedings of the National Academy of Sciences of the United States of America. 101: 1679-1684. PMID 14755052 DOI: 10.1073/Pnas.0305421101  0.639
2002 Dou Y, Bowen J, Liu Y, Gorovsky MA. Phosphorylation and an ATP-dependent process increase the dynamic exchange of H1 in chromatin Journal of Cell Biology. 158: 1161-1170. PMID 12356861 DOI: 10.1083/Jcb.200202131  0.69
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