| Year |
Citation |
Score |
| 2023 |
Bobrovnikov D, Makurath MA, Wolfe CH, Chemla YR, Ha T. Helicase Activity Modulation with On-Demand Light-Based Conformational Control. Journal of the American Chemical Society. 145: 21253-21262. PMID 37739407 DOI: 10.1021/jacs.3c05254 |
0.449 |
|
| 2021 |
Bustamante CJ, Chemla YR, Liu S, Wang MD. Optical tweezers in single-molecule biophysics. Nature Reviews. Methods Primers. 1. PMID 34849486 DOI: 10.1038/S43586-021-00021-6 |
0.522 |
|
| 2021 |
Dai L, Singh D, Lu S, Kottadiel VI, Vafabakhsh R, Mahalingam M, Chemla YR, Ha T, Rao VB. A viral genome packaging ring-ATPase is a flexibly coordinated pentamer. Nature Communications. 12: 6548. PMID 34772936 DOI: 10.1038/s41467-021-26800-z |
0.43 |
|
| 2020 |
Rhine K, Makurath MA, Liu J, Skanchy S, Lopez C, Catalan KF, Ma Y, Fare CM, Shorter J, Ha T, Chemla YR, Myong S. ALS/FTLD-Linked Mutations in FUS Glycine Residues Cause Accelerated Gelation and Reduced Interactions with Wild-Type FUS. Molecular Cell. 80: 1139. PMID 33338404 DOI: 10.1016/j.molcel.2020.11.031 |
0.313 |
|
| 2020 |
Rhine K, Makurath MA, Liu J, Skanchy S, Lopez C, Catalan KF, Ma Y, Ha T, Chemla YR, Myong S. ALS/FTLD-Linked Mutations in FUS Glycine Residues Cause Accelerated Gelation and Reduced Interactions with Wild-Type FUS. Molecular Cell. PMID 33159856 DOI: 10.1016/j.molcel.2020.10.014 |
0.335 |
|
| 2019 |
Tjioe M, Shukla S, Vaidya R, Troitskaia A, Bookwalter CS, Trybus KM, Chemla YR, Selvin PR. Multiple kinesins induce tension for smooth cargo transport. Elife. 8. PMID 31670658 DOI: 10.7554/Elife.50974 |
0.356 |
|
| 2019 |
Mitra J, Makurath MA, Ngo TTM, Troitskaia A, Chemla YR, Ha T. Extreme mechanical diversity of human telomeric DNA revealed by fluorescence-force spectroscopy. Proceedings of the National Academy of Sciences of the United States of America. PMID 30944218 DOI: 10.1073/Pnas.1815162116 |
0.552 |
|
| 2019 |
Makurath MA, Whitley KD, Nguyen B, Lohman TM, Chemla YR. Regulation of Rep helicase unwinding by an auto-inhibitory subdomain. Nucleic Acids Research. PMID 30690484 DOI: 10.1093/Nar/Gkz023 |
0.371 |
|
| 2018 |
Ma W, Whitley KD, Chemla YR, Luthey-Schulten Z, Schulten K. Free energy simulations reveal molecular mechanism for functional switch of a DNA helicase. Elife. 7. PMID 29664402 DOI: 10.7554/Elife.34186 |
0.353 |
|
| 2018 |
Whitley KD, Comstock MJ, Chemla YR. Ultrashort Nucleic Acid Duplexes Exhibit Long Wormlike Chain Behavior with Force-Dependent Edge Effects. Physical Review Letters. 120: 068102. PMID 29481284 DOI: 10.1103/Physrevlett.120.068102 |
0.582 |
|
| 2017 |
Lin S, Alam TI, Kottadiel VI, VanGessel CJ, Tang WC, Chemla YR, Rao VB. Altering the speed of a DNA packaging motor from bacteriophage T4. Nucleic Acids Research. PMID 28981683 DOI: 10.1093/Nar/Gkx809 |
0.347 |
|
| 2017 |
Li IT, Ha T, Chemla YR. Mapping cell surface adhesion by rotation tracking and adhesion footprinting. Scientific Reports. 7: 44502. PMID 28290531 DOI: 10.1038/Srep44502 |
0.713 |
|
| 2017 |
Whitley KD, Comstock MJ, Chemla YR. High-Resolution Optical Tweezers Combined With Single-Molecule Confocal Microscopy. Methods in Enzymology. 582: 137-169. PMID 28062033 DOI: 10.1016/Bs.Mie.2016.10.036 |
0.667 |
|
| 2017 |
Whitley KD, Comstock MJ, Chemla YR. High-Resolution "Fleezers": Dual-Trap Optical Tweezers Combined with Single-Molecule Fluorescence Detection. Methods in Molecular Biology (Clifton, N.J.). 1486: 183-256. PMID 27844430 DOI: 10.1007/978-1-4939-6421-5_8 |
0.657 |
|
| 2017 |
Stekas B, Honda M, Spies M, Chemla Y. Investigating the Enhancement of XPD Helicase Processivity by Single-Stranded Binding Protein RPA2 Biophysical Journal. 112: 513a. DOI: 10.1016/J.Bpj.2016.11.2772 |
0.395 |
|
| 2016 |
Whitley KD, Comstock MJ, Chemla YR. Elasticity of the transition state for oligonucleotide hybridization. Nucleic Acids Research. PMID 27903889 DOI: 10.1093/Nar/Gkw1173 |
0.633 |
|
| 2016 |
Chemla YR. High-resolution, hybrid optical trapping methods and their application to nucleic acid processing proteins. Biopolymers. PMID 27225537 DOI: 10.1002/Bip.22880 |
0.408 |
|
| 2016 |
Chowdhury F, Li IT, Ngo TT, Leslie BJ, Kim BC, Sokoloski JE, Weiland E, Wang X, Chemla YR, Lohman TM, Ha T. Defining single molecular forces required for Notch activation using nano yoyo. Nano Letters. PMID 27167603 DOI: 10.1021/Acs.Nanolett.6B01403 |
0.726 |
|
| 2016 |
Wang X, Rahil Z, Li IT, Chowdhury F, Leckband DE, Chemla YR, Ha T. Constructing modular and universal single molecule tension sensor using protein G to study mechano-sensitive receptors. Scientific Reports. 6: 21584. PMID 26875524 DOI: 10.1038/Srep21584 |
0.711 |
|
| 2016 |
Dai L, Singh D, Vafabakhsh R, Mahalingam M, Kottadiel V, Chemla Y, Ha T, Rao VB. Mechanism of Coordination of the Bacteriophage T4 DNA Packaging Motor Analyzed by Real-Time Single Molecule Fluorescence Assay Biophysical Journal. 110: 46a. DOI: 10.1016/J.Bpj.2015.11.316 |
0.512 |
|
| 2016 |
Whitley KD, Comstock MJ, Jia H, Lohman TM, Chemla YR. Direct Observation of the Stepping Behavior of E. Coli UvrD Helicase Biophysical Journal. 110: 561a. DOI: 10.1016/J.Bpj.2015.11.3000 |
0.666 |
|
| 2016 |
Li IT, Ha T, Chemla YR. Rotation Tracking and Adhesion Footprinting Reveal Asymmetric Rolling Adhesion Mechanism Biophysical Journal. 110: 307a. DOI: 10.1016/J.Bpj.2015.11.1651 |
0.719 |
|
| 2015 |
Suksombat S, Khafizov R, Kozlov AG, Lohman TM, Chemla YR. Structural dynamics of E. coli single-stranded DNA binding protein reveal DNA wrapping and unwrapping pathways. Elife. 4. PMID 26305498 DOI: 10.7554/Elife.08193 |
0.365 |
|
| 2015 |
Comstock MJ, Whitley KD, Jia H, Sokoloski J, Lohman TM, Ha T, Chemla YR. Protein structure. Direct observation of structure-function relationship in a nucleic acid-processing enzyme. Science (New York, N.Y.). 348: 352-4. PMID 25883359 DOI: 10.1126/Science.Aaa0130 |
0.69 |
|
| 2015 |
Arslan S, Khafizov R, Thomas CD, Chemla YR, Ha T. Protein structure. Engineering of a superhelicase through conformational control. Science (New York, N.Y.). 348: 344-7. PMID 25883358 DOI: 10.1126/Science.Aaa0445 |
0.465 |
|
| 2015 |
Suksombat S, Khafizov R, Kozlov AG, Lohman TM, Chemla YR. Author response: Structural dynamics of E. coli single-stranded DNA binding protein reveal DNA wrapping and unwrapping pathways Elife. DOI: 10.7554/Elife.08193.024 |
0.33 |
|
| 2015 |
Stekas B, Qi Z, Honda M, Spies M, Chemla Y. The Effect of Single-Stranded DNA Binding Protein RPA2 on XPD Helicase Processivity Biophysical Journal. 108: 72a. DOI: 10.1016/J.Bpj.2014.11.429 |
0.42 |
|
| 2015 |
Li IT, Ha T, Chemla YR. Tracking Rotation during Leukocyte Rolling Reveals Asymmetric Adhesion Properties Biophysical Journal. 108: 494a. DOI: 10.1016/J.Bpj.2014.11.2701 |
0.716 |
|
| 2014 |
Chemla YR, Ha T. Biophysics. Ultraslow relaxation of confined DNA. Science (New York, N.Y.). 345: 380-1. PMID 25061189 DOI: 10.1126/Science.1256359 |
0.507 |
|
| 2014 |
Mears PJ, Koirala S, Rao CV, Golding I, Chemla YR. Escherichia coli swimming is robust against variations in flagellar number. Elife. 3: e01916. PMID 24520165 DOI: 10.7554/Elife.01916 |
0.306 |
|
| 2014 |
Li IT, Ha T, Chemla YR. Single Molecule Mechano-Memory Biophysical Journal. 106: 786a. DOI: 10.1016/J.Bpj.2013.11.4309 |
0.722 |
|
| 2014 |
Kottadiel VI, Dai L, Rao VB, Chemla YR. The Homopentameric Ring ATPase Motor of the Bacteriophage T4 Tolerates One Inactive Subunit Biophysical Journal. 106: 62a. DOI: 10.1016/J.Bpj.2013.11.422 |
0.374 |
|
| 2014 |
Suksombat S, Kozlov AG, Lohman TM, Chemla YR. Partial Unwrapping of SSB from SsDNA Facilitates RecA Filament Formation Biophysical Journal. 106: 698a-699a. DOI: 10.1016/J.Bpj.2013.11.3864 |
0.415 |
|
| 2013 |
Qi Z, Pugh RA, Spies M, Chemla YR. Sequence-dependent base pair stepping dynamics in XPD helicase unwinding. Elife. 2: e00334. PMID 23741615 DOI: 10.7554/Elife.00334 |
0.394 |
|
| 2013 |
Blehm BH, Schroer TA, Trybus KM, Chemla YR, Selvin PR. In vivo optical trapping indicates kinesin's stall force is reduced by dynein during intracellular transport. Proceedings of the National Academy of Sciences of the United States of America. 110: 3381-6. PMID 23404705 DOI: 10.1073/Pnas.1219961110 |
0.393 |
|
| 2013 |
Landry MP, Zou X, Wang L, Huang WM, Schulten K, Chemla YR. DNA target sequence identification mechanism for dimer-active protein complexes. Nucleic Acids Research. 41: 2416-27. PMID 23275566 DOI: 10.1093/Nar/Gks1345 |
0.558 |
|
| 2013 |
Blehm BH, Schroer TA, Trybus KM, Chemla YR, Selvin PR. Erratum: In vivo optical trapping indicates kinesin's stall force is reduced by dynein during intracellular transport (Proceedings of the National Academy of Sciences of the United States of America (2013) 110 (3381-3386) DOI: 10.1073/pnas.1219961110) Proceedings of the National Academy of Sciences of the United States of America. 110. DOI: 10.1073/Pnas.1308350110 |
0.322 |
|
| 2013 |
Qi Z, Honda M, Spies M, Chemla YR. Regulation of XPD Helicase by the Single-Stranded DNA Binding Protein RPA2 Biophysical Journal. 104: 75a. DOI: 10.1016/J.Bpj.2012.11.453 |
0.414 |
|
| 2013 |
Comstock MJ, Jia H, Lohman TM, Ha T, Chemla YR. Simultaneous High-Resolution Optical Trapping and Single Molecule Fluorescence Measurements of the UvrD Helicase: DNA Motor Protein Structure and Function Observed Simultaneously Biophysical Journal. 104: 516a. DOI: 10.1016/J.Bpj.2012.11.2854 |
0.723 |
|
| 2013 |
Whitley K, Comstock MJ, Chemla YR. Constructing an Energy Landscape for the Hybridization of Short Oligonucleotides Biophysical Journal. 104: 262a. DOI: 10.1016/J.Bpj.2012.11.1474 |
0.647 |
|
| 2013 |
Selvin PR, Blehm BH, Tonks-Hoffman M, Trybus KM, Schroer TA, Berger CL, Yildiz A, Chemla YR. Single Molecule Fluorescence and Optical Traps Applied to Molecular Motors: Two can do it better than One Biophysical Journal. 104: 185a. DOI: 10.1016/J.Bpj.2012.11.1043 |
0.388 |
|
| 2012 |
Kottadiel VI, Rao VB, Chemla YR. The dynamic pause-unpackaging state, an off-translocation recovery state of a DNA packaging motor from bacteriophage T4. Proceedings of the National Academy of Sciences of the United States of America. 109: 20000-5. PMID 23169641 DOI: 10.1073/Pnas.1209214109 |
0.367 |
|
| 2012 |
Min TL, Mears PJ, Golding I, Chemla YR. Chemotactic adaptation kinetics of individual Escherichia coli cells. Proceedings of the National Academy of Sciences of the United States of America. 109: 9869-74. PMID 22679285 DOI: 10.1073/Pnas.1120218109 |
0.313 |
|
| 2012 |
Chemla YR, Smith DE. Single-molecule studies of viral DNA packaging. Advances in Experimental Medicine and Biology. 726: 549-84. PMID 22297530 DOI: 10.1007/978-1-4614-0980-9_24 |
0.579 |
|
| 2012 |
Mears PJ, Min TL, Golding I, Chemla YR. Using Optical Traps to Study Bacterial Motility and Chemotaxis at the Single-Cell Level Biophysical Journal. 102: 160a. DOI: 10.1016/J.Bpj.2011.11.873 |
0.339 |
|
| 2011 |
Zhang Z, Kottadiel VI, Vafabakhsh R, Dai L, Chemla YR, Ha T, Rao VB. A promiscuous DNA packaging machine from bacteriophage T4. Plos Biology. 9: e1000592. PMID 21358801 DOI: 10.1371/Journal.Pbio.1000592 |
0.539 |
|
| 2011 |
Comstock MJ, Ha T, Chemla YR. Ultrahigh-resolution optical trap with single-fluorophore sensitivity. Nature Methods. 8: 335-40. PMID 21336286 DOI: 10.1038/Nmeth.1574 |
0.723 |
|
| 2011 |
Qi Z, Pugh RA, Spies M, Chemla YR. Displaced Strand Regulation of Facxpd Helicase Activity Biophysical Journal. 100: 73a. DOI: 10.1016/J.Bpj.2010.12.599 |
0.389 |
|
| 2011 |
Landry MP, Chemla YR. Novel DNA Target Site Search Mechanism for Sequence-Specific DNA Binding Proteins Biophysical Journal. 100: 225a. DOI: 10.1016/J.Bpj.2010.12.1441 |
0.348 |
|
| 2010 |
Moffitt JR, Chemla YR, Bustamante C. Mechanistic constraints from the substrate concentration dependence of enzymatic fluctuations. Proceedings of the National Academy of Sciences of the United States of America. 107: 15739-44. PMID 20729471 DOI: 10.1073/Pnas.1006997107 |
0.716 |
|
| 2010 |
Moffitt JR, Chemla YR, Bustamante C. Methods in statistical kinetics. Methods in Enzymology. 475: 221-57. PMID 20627160 DOI: 10.1016/S0076-6879(10)75010-2 |
0.714 |
|
| 2010 |
Liu Y, Park J, Dahmen KA, Chemla YR, Ha T. A comparative study of multivariate and univariate hidden Markov modelings in time-binned single-molecule FRET data analysis. The Journal of Physical Chemistry. B. 114: 5386-403. PMID 20361785 DOI: 10.1021/Jp9057669 |
0.474 |
|
| 2010 |
Chemla YR. Revealing the base pair stepping dynamics of nucleic acid motor proteins with optical traps. Physical Chemistry Chemical Physics : Pccp. 12: 3080-95. PMID 20237694 DOI: 10.1039/B920234J |
0.39 |
|
| 2010 |
Blehm BH, Chemla YR, Selvin PR. In Vivo Organelle Tracking, Calibration, and Force Measurement with an Optical Trap Biophysical Journal. 98: 722a. DOI: 10.1016/J.Bpj.2009.12.3956 |
0.391 |
|
| 2010 |
Kaplan A, Aathavan K, Politzer A, Moffitt J, Chemla YR, Grimes S, Jardine PJ, Anderson DL, Bustamante CJ. Motor-Substrate Interactions in a Ring ATPase Biophysical Journal. 98: 594a. DOI: 10.1016/J.Bpj.2009.12.3233 |
0.769 |
|
| 2010 |
Min TL, Mears PJ, Chubiz LM, Rao CV, Golding I, Chemla YR. High Resolution, Long Term Characterization of Bacterial Motility Using Optical Tweezers Biophysical Journal. 98: 4-6. DOI: 10.1016/J.Bpj.2009.12.2245 |
0.349 |
|
| 2010 |
Khafizov RG, Kozlov AG, Lohman TM, Chemla Y. E.coli SSB Under Tension Biophysical Journal. 98: 270a. DOI: 10.1016/J.Bpj.2009.12.1470 |
0.347 |
|
| 2009 |
Bustamante C, Chemla YR, Moffitt JR. High-resolution dual-trap optical tweezers with differential detection: an introduction. Cold Spring Harbor Protocols. 2009: pdb.top60. PMID 20147062 DOI: 10.1101/Pdb.Top60 |
0.752 |
|
| 2009 |
Bustamante C, Chemla YR, Moffitt JR. High-resolution dual-trap optical tweezers with differential detection: alignment of instrument components. Cold Spring Harbor Protocols. 2009: pdb.ip76. PMID 20147041 DOI: 10.1101/Pdb.Ip76 |
0.73 |
|
| 2009 |
Bustamante C, Chemla YR, Moffitt JR. High-resolution dual-trap optical tweezers with differential detection: minimizing the influence of measurement noise. Cold Spring Harbor Protocols. 2009: pdb.ip75. PMID 20147040 DOI: 10.1101/Pdb.Ip75 |
0.735 |
|
| 2009 |
Bustamante C, Chemla YR, Moffitt JR. High-resolution dual-trap optical tweezers with differential detection: data collection and instrument calibration. Cold Spring Harbor Protocols. 2009: pdb.ip74. PMID 20147039 DOI: 10.1101/Pdb.Ip74 |
0.727 |
|
| 2009 |
Bustamante C, Chemla YR, Moffitt JR. High-resolution dual-trap optical tweezers with differential detection: instrument design. Cold Spring Harbor Protocols. 2009: pdb.ip73. PMID 20147038 DOI: 10.1101/Pdb.Ip73 |
0.727 |
|
| 2009 |
Bustamante C, Chemla YR, Moffitt JR. High-resolution dual-trap optical tweezers with differential detection: managing environmental noise. Cold Spring Harbor Protocols. 2009: pdb.ip72. PMID 20147037 DOI: 10.1101/Pdb.Ip72 |
0.732 |
|
| 2009 |
Landry MP, McCall PM, Qi Z, Chemla YR. Characterization of photoactivated singlet oxygen damage in single-molecule optical trap experiments. Biophysical Journal. 97: 2128-36. PMID 19843445 DOI: 10.1016/J.Bpj.2009.07.048 |
0.594 |
|
| 2009 |
Min TL, Mears PJ, Chubiz LM, Rao CV, Golding I, Chemla YR. High-resolution, long-term characterization of bacterial motility using optical tweezers. Nature Methods. 6: 831-5. PMID 19801991 DOI: 10.1038/Nmeth.1380 |
0.371 |
|
| 2009 |
Aathavan K, Politzer AT, Kaplan A, Moffitt JR, Chemla YR, Grimes S, Jardine PJ, Anderson DL, Bustamante C. Substrate interactions and promiscuity in a viral DNA packaging motor. Nature. 461: 669-73. PMID 19794496 DOI: 10.1038/Nature08443 |
0.768 |
|
| 2009 |
Ibarra B, Chemla YR, Plyasunov S, Smith SB, Lázaro JM, Salas M, Bustamante C. Proofreading dynamics of a processive DNA polymerase. The Embo Journal. 28: 2794-802. PMID 19661923 DOI: 10.1038/Emboj.2009.219 |
0.536 |
|
| 2009 |
Moffitt JR, Chemla YR, Aathavan K, Grimes S, Jardine PJ, Anderson DL, Bustamante C. Intersubunit coordination in a homomeric ring ATPase. Nature. 457: 446-50. PMID 19129763 DOI: 10.1038/Nature07637 |
0.733 |
|
| 2009 |
Chemla YR, Moffitt JR, Aathavan K, Grimes S, Jardine P, Anderson DL, Bustamante C. High-resolution Optical Trap Measurements Of A Ringed DNA Translocase Biophysical Journal. 96: 193a. DOI: 10.1016/J.Bpj.2008.12.1030 |
0.737 |
|
| 2008 |
Chemla YR, Moffitt JR, Bustamante C. Exact solutions for kinetic models of macromolecular dynamics. The Journal of Physical Chemistry. B. 112: 6025-44. PMID 18373360 DOI: 10.1021/Jp076153R |
0.723 |
|
| 2008 |
Moffitt JR, Chemla YR, Smith SB, Bustamante C. Recent advances in optical tweezers. Annual Review of Biochemistry. 77: 205-28. PMID 18307407 DOI: 10.1146/Annurev.Biochem.77.043007.090225 |
0.732 |
|
| 2006 |
Moffitt JR, Chemla YR, Izhaky D, Bustamante C. Differential detection of dual traps improves the spatial resolution of optical tweezers. Proceedings of the National Academy of Sciences of the United States of America. 103: 9006-11. PMID 16751267 DOI: 10.1073/Pnas.0603342103 |
0.735 |
|
| 2005 |
Chemla YR, Aathavan K, Michaelis J, Grimes S, Jardine PJ, Anderson DL, Bustamante C. Mechanism of force generation of a viral DNA packaging motor. Cell. 122: 683-92. PMID 16143101 DOI: 10.1016/J.Cell.2005.06.024 |
0.568 |
|
| 2004 |
Bustamante C, Chemla YR, Forde NR, Izhaky D. Mechanical processes in biochemistry. Annual Review of Biochemistry. 73: 705-48. PMID 15189157 DOI: 10.1146/Annurev.Biochem.72.121801.161542 |
0.694 |
|
| 2002 |
Lee S, Myers WR, Grossman HL, Cho HM, Chemla YR, Clarke J. Magnetic gradiometer based on a high-transition temperature superconducting quantum interference device for improved sensitivity of a biosensor Applied Physics Letters. 81: 3094-3096. DOI: 10.1063/1.1515122 |
0.753 |
|
| 2001 |
Grossman HL, Lee S, Myers W, Chemla YR, Poon Y, Cho HM, McDermott R, Stevens R, Alper MD, Clarke J. Superconducting quantum interference device detection of magnetically tagged microorganisms Proceedings of Spie - the International Society For Optical Engineering. 4576: 122-125. DOI: 10.1117/12.456943 |
0.735 |
|
| 2000 |
Chemla YR, Grossman HL, Poon Y, McDermott R, Stevens R, Alper MD, Clarke J. Ultrasensitive magnetic biosensor for homogeneous immunoassay. Proceedings of the National Academy of Sciences of the United States of America. 97: 14268-72. PMID 11121032 DOI: 10.1073/Pnas.97.26.14268 |
0.75 |
|
| 1999 |
Chemla YR, Grossman HL, Lee TS, Clarke J, Adamkiewicz M, Buchanan BB. A new study of bacterial motion: superconducting quantum interference device microscopy of magnetotactic bacteria. Biophysical Journal. 76: 3323-30. PMID 10354458 DOI: 10.1016/S0006-3495(99)77485-0 |
0.769 |
|
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