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Zhe Liu, Ph.D. - Publications

Affiliations: 
Janelia Research Campus 
Area:
membrane localized proteins
Website:
https://www.janelia.org/people/james-zhe-liu-2
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40 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 Van HT, Xie G, Dong P, Liu Z, Ge K. KMT2 Family of H3K4 Methyltransferases: Enzymatic Activity-dependent and -independent Functions. Journal of Molecular Biology. 168453. PMID 38266981 DOI: 10.1016/j.jmb.2024.168453  0.31
2023 Daugird TA, Shi Y, Holland KL, Rostamian H, Liu Z, Lavis LD, Rodriguez J, Strahl BD, Legant WR. Correlative single molecule lattice light sheet imaging reveals the dynamic relationship between nucleosomes and the local chromatin environment. Biorxiv : the Preprint Server For Biology. PMID 38014222 DOI: 10.1101/2023.11.09.566470  0.352
2023 de la O S, Yao X, Chang S, Liu Z, Sneddon JB. Single-cell chromatin accessibility of developing murine pancreas identifies cell state-specific gene regulatory programs. Molecular Metabolism. 101735. PMID 37178817 DOI: 10.1016/j.molmet.2023.101735  0.355
2023 Zhao N, Yin G, Liu C, Zhang W, Shen Y, Wang D, Lin Z, Yang J, Mao J, Guo R, Zhang Y, Wang F, Liu Z, Lu X, Liu L. Critically short telomeres derepress retrotransposons to promote genome instability in embryonic stem cells. Cell Discovery. 9: 45. PMID 37130870 DOI: 10.1038/s41421-023-00538-y  0.318
2023 Liu Y, Huang Z, Liu H, Ji Z, Arora A, Cai D, Wang H, Liu M, Simko EAJ, Zhang Y, Periz G, Liu Z, Wang J. DNA-initiated epigenetic cascades driven by C9orf72 hexanucleotide repeat. Neuron. PMID 36822200 DOI: 10.1016/j.neuron.2023.01.022  0.329
2023 Liu Z, Hu W, Qin Y, Sun L, Jing L, Lu M, Li Y, Qu J, Yang Z. Isl1 promotes gene transcription through physical interaction with Set1/Mll complexes. European Journal of Cell Biology. 102: 151295. PMID 36758343 DOI: 10.1016/j.ejcb.2023.151295  0.323
2022 Xie L, Dong P, Qi Y, Hsieh TS, English BP, Jung S, Chen X, De Marzio M, Casellas R, Chang HY, Zhang B, Tjian R, Liu Z. BRD2 compartmentalizes the accessible genome. Nature Genetics. 54: 481-491. PMID 35410381 DOI: 10.1038/s41588-022-01044-9  0.727
2021 Hung KL, Yost KE, Xie L, Shi Q, Helmsauer K, Luebeck J, Schöpflin R, Lange JT, Chamorro González R, Weiser NE, Chen C, Valieva ME, Wong IT, Wu S, Dehkordi SR, ... ... Liu Z, et al. ecDNA hubs drive cooperative intermolecular oncogene expression. Nature. PMID 34819668 DOI: 10.1038/s41586-021-04116-8  0.551
2020 Binns TC, Ayala AX, Grimm JB, Tkachuk AN, Castillon GA, Phan S, Zhang L, Brown TA, Liu Z, Adams SR, Ellisman MH, Koyama M, Lavis LD. Rational Design of Bioavailable Photosensitizers for Manipulation and Imaging of Biological Systems. Cell Chemical Biology. PMID 32698018 DOI: 10.1016/J.Chembiol.2020.07.001  0.301
2020 Ochiai H, Hayashi T, Umeda M, Yoshimura M, Harada A, Shimizu Y, Nakano K, Saitoh N, Liu Z, Yamamoto T, Okamura T, Ohkawa Y, Kimura H, Nikaido I. Genome-wide kinetic properties of transcriptional bursting in mouse embryonic stem cells. Science Advances. 6: eaaz6699. PMID 32596448 DOI: 10.1126/Sciadv.Aaz6699  0.424
2020 Lerner J, Gomez-Garcia PA, McCarthy RL, Liu Z, Lakadamyali M, Zaret KS. Two-Parameter Mobility Assessments Discriminate Diverse Regulatory Factor Behaviors in Chromatin. Molecular Cell. PMID 32574554 DOI: 10.1016/J.Molcel.2020.05.036  0.366
2020 Xie L, Dong P, Chen X, Hsieh TS, Banala S, De Marzio M, English BP, Qi Y, Jung SK, Kieffer-Kwon KR, Legant WR, Hansen AS, Schulmann A, Casellas R, Zhang B, ... ... Liu Z, et al. 3D ATAC-PALM: super-resolution imaging of the accessible genome. Nature Methods. PMID 32203384 DOI: 10.1038/S41592-020-0775-2  0.718
2019 Piccolo FM, Liu Z, Dong P, Hsu CL, Stoyanova EI, Rao A, Tjian R, Heintz N. MeCP2 nuclear dynamics in live neurons results from low and high affinity chromatin interactions. Elife. 8. PMID 31868585 DOI: 10.7554/Elife.51449  0.59
2019 Cai D, Feliciano D, Dong P, Flores E, Gruebele M, Porat-Shliom N, Sukenik S, Liu Z, Lippincott-Schwartz J. Phase separation of YAP reorganizes genome topology for long-term YAP target gene expression. Nature Cell Biology. PMID 31792379 DOI: 10.1038/S41556-019-0433-Z  0.432
2019 Abdelfattah AS, Kawashima T, Singh A, Novak O, Liu H, Shuai Y, Huang YC, Campagnola L, Seeman SC, Yu J, Zheng J, Grimm JB, Patel R, Friedrich J, Mensh BD, ... ... Liu Z, et al. Bright and photostable chemigenetic indicators for extended in vivo voltage imaging. Science (New York, N.Y.). PMID 31371562 DOI: 10.1126/Science.Aav6416  0.309
2019 Yu H, Yang F, Dong P, Liao S, Liu WR, Zhao G, Qin B, Dou Z, Liu Z, Liu W, Zang J, Lippincott-Schwartz J, Liu X, Yao X. NDP52 tunes cortical actin interaction with astral microtubules for accurate spindle orientation. Cell Research. PMID 31201383 DOI: 10.1038/S41422-019-0189-9  0.306
2019 Piccolo FM, Liu Z, Dong P, Hsu C, Stoyanova EI, Rao A, Tjian R, Heintz N. Author response: MeCP2 nuclear dynamics in live neurons results from low and high affinity chromatin interactions Elife. DOI: 10.7554/Elife.51449.Sa2  0.302
2018 Chong S, Dugast-Darzacq C, Liu Z, Dong P, Dailey GM, Cattoglio C, Heckert A, Banala S, Lavis L, Darzacq X, Tjian R. Imaging dynamic and selective low-complexity domain interactions that control gene transcription. Science (New York, N.Y.). PMID 29930090 DOI: 10.1126/Science.Aar2555  0.7
2018 Liu Z, Tjian R. Visualizing transcription factor dynamics in living cells. The Journal of Cell Biology. PMID 29378780 DOI: 10.1083/Jcb.201710038  0.663
2018 Liu Z. Decision letter: Live-cell imaging reveals enhancer-dependent Sox2 transcription in the absence of enhancer proximity Elife. DOI: 10.7554/Elife.41769.053  0.362
2017 Liu H, Dong P, Ioannou MS, Li L, Shea J, Pasolli HA, Grimm JB, Rivlin PK, Lavis LD, Koyama M, Liu Z. Visualizing long-term single-molecule dynamics in vivo by stochastic protein labeling. Proceedings of the National Academy of Sciences of the United States of America. PMID 29284749 DOI: 10.1073/Pnas.1713895115  0.384
2017 Xie L, Torigoe SE, Xiao J, Mai DH, Li L, Davis FP, Dong P, Marie-Nelly H, Grimm J, Lavis L, Darzacq X, Cattoglio C, Liu Z, Tjian R. A dynamic interplay of enhancer elements regulates Klf4 expression in naïve pluripotency. Genes & Development. 31: 1795-1808. PMID 28982762 DOI: 10.1101/Gad.303321.117  0.707
2017 Kieffer-Kwon KR, Nimura K, Rao SSP, Xu J, Jung S, Pekowska A, Dose M, Stevens E, Mathe E, Dong P, Huang SC, Ricci MA, Baranello L, Zheng Y, Ardori FT, ... ... Liu Z, et al. Myc Regulates Chromatin Decompaction and Nuclear Architecture during B Cell Activation. Molecular Cell. PMID 28803781 DOI: 10.1016/J.Molcel.2017.07.013  0.422
2017 Dong P, Liu Z. Shaping development by stochasticity and dynamics in gene regulation. Open Biology. 7. PMID 28469006 DOI: 10.1098/Rsob.170030  0.383
2016 Grimm JB, English BP, Choi H, Muthusamy AK, Mehl BP, Dong P, Brown TA, Lippincott-Schwartz J, Liu Z, Lionnet T, Lavis LD. Bright photoactivatable fluorophores for single-molecule imaging. Nature Methods. PMID 27776112 DOI: 10.1038/Nmeth.4034  0.322
2016 Li L, Liu H, Dong P, Li D, Legant WR, Grimm JB, Lavis LD, Betzig E, Tjian R, Liu Z. Real-time imaging of Huntingtin aggregates diverting target search and gene transcription. Elife. 5. PMID 27484239 DOI: 10.7554/Elife.17056  0.627
2016 Liu Z, Keller PJ. Emerging Imaging and Genomic Tools for Developmental Systems Biology. Developmental Cell. 36: 597-610. PMID 27003934 DOI: 10.1016/J.Devcel.2016.02.016  0.397
2016 Coleman RA, Liu Z, Darzacq X, Tjian R, Singer RH, Lionnet T. Imaging Transcription: Past, Present, and Future. Cold Spring Harbor Symposia On Quantitative Biology. PMID 26763984 DOI: 10.1101/Sqb.2015.80.027201  0.634
2016 Li L, Liu H, Dong P, Li D, Legant WR, Grimm JB, Lavis LD, Betzig E, Tjian R, Liu Z. Author response: Real-time imaging of Huntingtin aggregates diverting target search and gene transcription Elife. DOI: 10.7554/Elife.17056.034  0.553
2016 Wong V, Liu Z, Peng S, Kenworthy C, Liu W, Coleman RA. Single Molecule Imaging of p53's Dynamic Interaction with Chromatin Biophysical Journal. 110: 516. DOI: 10.1016/J.Bpj.2015.11.2758  0.371
2015 Knight SC, Xie L, Deng W, Guglielmi B, Witkowsky LB, Bosanac L, Zhang ET, El Beheiry M, Masson JB, Dahan M, Liu Z, Doudna JA, Tjian R. Dynamics of CRISPR-Cas9 genome interrogation in living cells. Science (New York, N.Y.). 350: 823-6. PMID 26564855 DOI: 10.1126/Science.Aac6572  0.62
2015 Li L, Martinez SS, Hu W, Liu Z, Tjian R. A specific E3 ligase/deubiquitinase pair modulates TBP protein levels during muscle differentiation. Elife. 4. PMID 26393420 DOI: 10.7554/Elife.08536  0.547
2015 Liu Z. Lighting Up Genes in Single Cells at Scale. Cell. 162: 705-7. PMID 26276626 DOI: 10.1016/J.Cell.2015.07.052  0.343
2015 Liu Z, Lavis LD, Betzig E. Imaging live-cell dynamics and structure at the single-molecule level. Molecular Cell. 58: 644-59. PMID 26000849 DOI: 10.1016/J.Molcel.2015.02.033  0.334
2014 Liu Z, Legant WR, Chen BC, Li L, Grimm JB, Lavis LD, Betzig E, Tjian R. 3D imaging of Sox2 enhancer clusters in embryonic stem cells. Elife. 3: e04236. PMID 25537195 DOI: 10.7554/Elife.04236  0.618
2014 Chen BC, Legant WR, Wang K, Shao L, Milkie DE, Davidson MW, Janetopoulos C, Wu XS, Hammer JA, Liu Z, English BP, Mimori-Kiyosue Y, Romero DP, Ritter AT, Lippincott-Schwartz J, et al. Lattice light-sheet microscopy: imaging molecules to embryos at high spatiotemporal resolution. Science (New York, N.Y.). 346: 1257998. PMID 25342811 DOI: 10.1126/Science.1257998  0.366
2014 Chen J, Zhang Z, Li L, Chen BC, Revyakin A, Hajj B, Legant W, Dahan M, Lionnet T, Betzig E, Tjian R, Liu Z. Single-molecule dynamics of enhanceosome assembly in embryonic stem cells. Cell. 156: 1274-85. PMID 24630727 DOI: 10.1016/J.Cell.2014.01.062  0.613
2014 Lolas M, Valenzuela PD, Tjian R, Liu Z. Charting Brachyury-mediated developmental pathways during early mouse embryogenesis. Proceedings of the National Academy of Sciences of the United States of America. 111: 4478-83. PMID 24616493 DOI: 10.1073/Pnas.1402612111  0.61
2014 Liu Z, Legant WR, Chen B, Li L, Grimm JB, Lavis LD, Betzig E, Tjian R. Author response: 3D imaging of Sox2 enhancer clusters in embryonic stem cells Elife. DOI: 10.7554/Elife.04236.035  0.52
2011 Liu Z, Scannell DR, Eisen MB, Tjian R. Control of embryonic stem cell lineage commitment by core promoter factor, TAF3. Cell. 146: 720-31. PMID 21884934 DOI: 10.1016/J.Cell.2011.08.005  0.631
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