Yann R. Chemla, Ph.D. - Publications

Affiliations: 
2007- Physics University of Illinois, Urbana-Champaign, Urbana-Champaign, IL 
Area:
Molecular motors
Website:
https://physics.illinois.edu/people/profile.asp?ychemla

55 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
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  0.92
2019 Perlova T, Gruebele M, Chemla YR. Blue light is a universal signal for chemoreceptors. Journal of Bacteriology. PMID 30858302 DOI: 10.1128/JB.00762-18  0.32
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  0.56
2018 Yang Z, Loh KY, Chu YT, Feng R, Satyavolu NSR, Xiong M, Huynh SMN, Hwang K, Li L, Xing H, Zhang X, Chemla YR, Gruebele M, Lu Y. Optical control of metal ion probes in cells and zebrafish using highly selective DNAzymes conjugated to upconversion nanoparticles. Journal of the American Chemical Society. PMID 30427666 DOI: 10.1021/jacs.8b09867  0.32
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  0.32
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  0.32
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  0.32
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  0.92
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  0.32
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  0.32
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  0.92
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  0.84
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  0.84
2015 Girdhar K, Gruebele M, Chemla YR. The Behavioral Space of Zebrafish Locomotion and Its Neural Network Analog. Plos One. 10: e0128668. PMID 26132396 DOI: 10.1371/journal.pone.0128668  0.84
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  0.84
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  0.84
2014 Koirala S, Mears P, Sim M, Golding I, Chemla YR, Aldridge PD, Rao CV. A nutrient-tunable bistable switch controls motility in Salmonella enterica serovar Typhimurium. Mbio. 5: e01611-14. PMID 25161191 DOI: 10.1128/mBio.01611-14  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
2011 Girdhar K, Scott G, Chemla YR, Gruebele M. Better biomolecule thermodynamics from kinetics. The Journal of Chemical Physics. 135: 015102. PMID 21744920 DOI: 10.1063/1.3607605  0.84
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  0.84
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  0.84
2010 Saini S, Koirala S, Floess E, Mears PJ, Chemla YR, Golding I, Aldridge C, Aldridge PD, Rao CV. FliZ induces a kinetic switch in flagellar gene expression. Journal of Bacteriology. 192: 6477-81. PMID 20935096 DOI: 10.1128/JB.00751-10  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
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  0.84
1997 Lee TS, Chemla YR, Dantsker E, Clarke J. High-tc squid microscope for room temperature samples Ieee Transactions On Applied Superconductivity. 7: 3147-3150.  0.84
1993 Chen G, Mazumder MM, Chemla YR, Serpenguzel A, Chang RK, Hill SC. Wavelength variation of laser emission along the entire rim of slightly deformed microdroplets. Optics Letters. 18: 1993. PMID 19829469 DOI: 10.1364/OL.18.001993  0.84
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