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Yongli Zhang - Publications

Affiliations: 
Yale University, New Haven, CT 
Area:
Single-molecule biophysics and biochemistry
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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
2022 Ma L, Ge J, Bian X, Zhang Y. Single-Molecule Optical Tweezers Study of Protein-Membrane Interactions. Methods in Molecular Biology (Clifton, N.J.). 2473: 367-383. PMID 35819776 DOI: 10.1007/978-1-0716-2209-4_23  0.316
2019 Shu T, Jin H, Rothman JE, Zhang Y. Munc13-1 MUN domain and Munc18-1 cooperatively chaperone SNARE assembly through a tetrameric complex. Proceedings of the National Academy of Sciences of the United States of America. PMID 31888993 DOI: 10.1073/Pnas.1914361117  0.381
2019 Ma L, Jiao J, Zhang Y. Single-Molecule Optical Tweezers Study of Regulated SNARE Assembly. Methods in Molecular Biology (Clifton, N.J.). 1860: 95-114. PMID 30317500 DOI: 10.1007/978-1-4939-8760-3_6  0.383
2019 Jiao J, He M, Port S, Richard B, Xu Y, Qu H, Xiong Y, Wang Y, Jin H, Eisemann T, Hughson FM, Zhang Y. Sec1/Munc18-Family Proteins Catalyze Directional SNARE Assembly by Templating SNARE Folding and Association Biophysical Journal. 116: 527a. DOI: 10.1016/J.Bpj.2018.11.2842  0.311
2018 Jiao J, He M, Port SA, Baker RW, Xu Y, Qu H, Xiong Y, Wang Y, Jin H, Eisemann TJ, Hughson FM, Zhang Y. Munc18-1 catalyzes neuronal SNARE assembly by templating SNARE association. Elife. 7. PMID 30540253 DOI: 10.7554/Elife.41771  0.412
2018 Rebane AA, Wang B, Ma L, Qu H, Coleman J, Krishnakumar S, Rothman JE, Zhang Y. Two Disease-Causing SNAP-25B Mutations Selectively Impair SNARE C-terminal Assembly. Journal of Molecular Biology. 430: 479-490. PMID 29056461 DOI: 10.1016/J.Jmb.2017.10.012  0.33
2017 Ma L, Cai Y, Li Y, Jiao J, Wu Z, O'Shaughnessy B, De Camilli P, Karatekin E, Zhang Y. Single-molecule force spectroscopy of protein-membrane interactions. Elife. 6. PMID 29083305 DOI: 10.7554/Elife.30493  0.365
2017 Zhang Y. Energetics, kinetics, and pathway of SNARE folding and assembly revealed by optical tweezers. Protein Science : a Publication of the Protein Society. PMID 28097727 DOI: 10.1002/Pro.3116  0.384
2017 Jiao J, Rebane AA, Ma L, Zhang Y. Single-Molecule Protein Folding Experiments Using High-Precision Optical Tweezers. Methods in Molecular Biology (Clifton, N.J.). 1486: 357-390. PMID 27844436 DOI: 10.1007/978-1-4939-6421-5_14  0.388
2017 Ma L, Cai Y, Li Y, Jiao J, Wu Z, O'Shaughnessy B, Camilli PD, Karatekin E, Zhang Y. Author response: Single-molecule force spectroscopy of protein-membrane interactions Elife. DOI: 10.7554/Elife.30493.022  0.32
2016 Zhang X, Rebane AA, Ma L, Li F, Jiao J, Qu H, Pincet F, Rothman JE, Zhang Y. Stability, folding dynamics, and long-range conformational transition of the synaptic t-SNARE complex. Proceedings of the National Academy of Sciences of the United States of America. 113: E8031-E8040. PMID 27911771 DOI: 10.1073/Pnas.1605748113  0.35
2016 Zhang Y, Jiao J, Rebane AA. Hidden Markov Modeling with Detailed Balance and Its Application to Single Protein Folding. Biophysical Journal. 111: 2110-2124. PMID 27851936 DOI: 10.1016/J.Bpj.2016.09.045  0.315
2016 Clapier CR, Kasten MM, Parnell TJ, Viswanathan R, Szerlong H, Sirinakis G, Zhang Y, Cairns BR. Regulation of DNA Translocation Efficiency within the Chromatin Remodeler RSC/Sth1 Potentiates Nucleosome Sliding and Ejection. Molecular Cell. 62: 453-461. PMID 27153540 DOI: 10.1016/J.Molcel.2016.03.032  0.434
2016 Ma L, Kang Y, Jiao J, Rebane AA, Cha HK, Xi Z, Qu H, Zhang Y. α-SNAP Enhances SNARE Zippering by Stabilizing the SNARE Four-Helix Bundle. Cell Reports. PMID 27068468 DOI: 10.1016/J.Celrep.2016.03.050  0.323
2016 Rebane AA, Ma L, Zhang Y. Structure-Based Derivation of Protein Folding Intermediates and Energies from Optical Tweezers. Biophysical Journal. 110: 441-54. PMID 26789767 DOI: 10.1016/J.Bpj.2015.12.003  0.37
2016 Rebane AA, Krishnakumar S, Rothman JE, Zhang Y. Effect of Two Disease-Causing Mutations on the Energetics and Kinetics of SNARE Assembly Biophysical Journal. 110. DOI: 10.1016/J.Bpj.2015.11.2324  0.349
2015 Ma L, Rebane AA, Yang G, Xi Z, Kang Y, Gao Y, Zhang Y. Munc18-1-regulated stage-wise SNARE assembly underlying synaptic exocytosis. Elife. 4. PMID 26701912 DOI: 10.7554/Elife.09580  0.34
2015 Jiao J, Rebane AA, Ma L, Gao Y, Zhang Y. Kinetically coupled folding of a single HIV-1 glycoprotein 41 complex in viral membrane fusion and inhibition. Proceedings of the National Academy of Sciences of the United States of America. 112: E2855-64. PMID 26038562 DOI: 10.1073/Pnas.1424995112  0.315
2015 Zhang Y. Energetics and Kinetics of SNARE Zippering and Regulation Revealed by Single-Molecule Manipulation Approach Biophysical Journal. 108: 354a. DOI: 10.1016/J.Bpj.2014.11.1938  0.387
2014 Zorman S, Rebane AA, Ma L, Yang G, Molski MA, Coleman J, Pincet F, Rothman JE, Zhang Y. Common intermediates and kinetics, but different energetics, in the assembly of SNARE proteins. Elife. 3: e03348. PMID 25180101 DOI: 10.7554/Elife.03348  0.387
2014 Zorman S, Rebane AA, Ma L, Yang G, Molski MA, Coleman J, Pincet F, Rothman JE, Zhang Y. Author response: Common intermediates and kinetics, but different energetics, in the assembly of SNARE proteins Elife. DOI: 10.7554/Elife.03348.023  0.325
2014 Zorman S, Pincet F, Rothman JE, Zhang Y. Comparative Study of the Snares Zippering with Single Molecule Resolution Biophysical Journal. 106: 5-6. DOI: 10.1016/J.Bpj.2013.11.2831  0.367
2014 Zhang Y. Energetics and Kinetics of SNARE Zippering Biophysical Journal. 106: 388a. DOI: 10.1016/J.Bpj.2013.11.2193  0.368
2014 Rebane A, Zhang Y. Combine High-Resolution Optical Tweezer Data with Protein Crystal Structure to Derive Energy, Kinetics, and Structure of Conformational States Along Protein Folding Pathway Biophysical Journal. 106: 261a. DOI: 10.1016/J.Bpj.2013.11.1530  0.39
2013 Gao Y, Zorman S, Gundersen G, Xi Z, Ma L, Sirinakis G, Rothman JE, Zhang Y. Single Neuronal Snare Complexes Zipper in Three Distinct Stages Biophysical Journal. 104: 89a. DOI: 10.1016/J.Bpj.2012.11.531  0.368
2012 Sirinakis G, Ren Y, Gao Y, Xi Z, Zhang Y. Combined versatile high-resolution optical tweezers and single-molecule fluorescence microscopy. The Review of Scientific Instruments. 83: 093708. PMID 23020384 DOI: 10.1063/1.4752190  0.325
2012 Zhang Y, Sirinakis G, Gundersen G, Xi Z, Gao Y. DNA translocation of ATP-dependent chromatin remodeling factors revealed by high-resolution optical tweezers. Methods in Enzymology. 513: 3-28. PMID 22929763 DOI: 10.1016/B978-0-12-391938-0.00001-X  0.44
2012 Gao Y, Zorman S, Gundersen G, Xi Z, Ma L, Sirinakis G, Rothman JE, Zhang Y. Single reconstituted neuronal SNARE complexes zipper in three distinct stages. Science (New York, N.Y.). 337: 1340-3. PMID 22903523 DOI: 10.1126/Science.1224492  0.367
2012 Xi Z, Gao Y, Sirinakis G, Guo H, Zhang Y. Single-molecule observation of helix staggering, sliding, and coiled coil misfolding. Proceedings of the National Academy of Sciences of the United States of America. 109: 5711-6. PMID 22451899 DOI: 10.1073/Pnas.1116784109  0.343
2012 Zhang Y, Xi Z, Gao Y, Sirinakis G, Guo H. Direct Observation of Helix Staggering, Sliding, and Coiled Coil Misfolding Biophysical Journal. 102: 175a. DOI: 10.1016/J.Bpj.2011.11.949  0.338
2011 Gao Y, Sirinakis G, Zhang Y. Highly anisotropic stability and folding kinetics of a single coiled coil protein under mechanical tension. Journal of the American Chemical Society. 133: 12749-57. PMID 21707065 DOI: 10.1021/Ja204005R  0.38
2011 Sirinakis G, Clapier CR, Gao Y, Viswanathan R, Cairns BR, Zhang Y. The RSC chromatin remodelling ATPase translocates DNA with high force and small step size. The Embo Journal. 30: 2364-72. PMID 21552204 DOI: 10.1038/Emboj.2011.141  0.407
2011 Zhang Y, Gao Y, Sirinakis G. Unzip Single Protein Zippers using Optical Tweezers Biophysical Journal. 100. DOI: 10.1016/J.Bpj.2010.12.358  0.427
2010 Xi Z, Zhang Y, Hegde RS, Shakked Z, Crothers DM. Anomalous DNA binding by E2 regulatory protein driven by spacer sequence TATA. Nucleic Acids Research. 38: 3827-33. PMID 20185566 DOI: 10.1093/Nar/Gkq114  0.53
2006 Zhang Y, McEwen AE, Crothers DM, Levene SD. Analysis of in-vivo LacR-mediated gene repression based on the mechanics of DNA looping. Plos One. 1: e136. PMID 17205140 DOI: 10.1371/Journal.Pone.0000136  0.699
2006 Zhang Y, Smith CL, Saha A, Grill SW, Mihardja S, Smith SB, Cairns BR, Peterson CL, Bustamante C. DNA translocation and loop formation mechanism of chromatin remodeling by SWI/SNF and RSC. Molecular Cell. 24: 559-68. PMID 17188033 DOI: 10.1016/J.Molcel.2006.10.025  0.347
2006 Zhang Y, McEwen AE, Crothers DM, Levene SD. Statistical-mechanical theory of DNA looping. Biophysical Journal. 90: 1903-12. PMID 16361335 DOI: 10.1529/Biophysj.105.070490  0.699
2004 Zhang Y, Xi Z, Hegde RS, Shakked Z, Crothers DM. Predicting indirect readout effects in protein-DNA interactions. Proceedings of the National Academy of Sciences of the United States of America. 101: 8337-41. PMID 15148366 DOI: 10.1073/Pnas.0402319101  0.599
2003 Zhang Y, Crothers DM. High-throughput approach for detection of DNA bending and flexibility based on cyclization. Proceedings of the National Academy of Sciences of the United States of America. 100: 3161-6. PMID 12629220 DOI: 10.1073/Pnas.0530189100  0.583
2003 Zhang Y, Crothers DM. Statistical mechanics of sequence-dependent circular DNA and its application for DNA cyclization. Biophysical Journal. 84: 136-53. PMID 12524271 DOI: 10.1016/S0006-3495(03)74838-3  0.598
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