P. Coureux, Amber Wells, J. Ménétrey, C. Yengo, C. Morris, H. Sweeney, A. Houdusse (2003)
A structural state of the myosin V motor without bound nucleotideNature, 425
L. Rabiner, B. Juang, S. Levinson, M. Sondhi (1985)
Recognition of isolated digits using hidden Markov models with continuous mixture densitiesAT&T Technical Journal, 64
A. Dempster, N. Laird, D. Rubin (1977)
Maximum likelihood from incomplete data via the EM - algorithm plus discussions on the paper
C. Kural, Hwajin Kim, Sheyum Syed, Gohta Goshima, Vladimir Gelfand, P. Selvin (2005)
Kinesin and Dynein Move a Peroxisome in Vivo: A Tug-of-War or Coordinated Movement?Science, 308
F. Kull, E. Sablin, R. Lau, R. Fletterick, R. Vale (1996)
Crystal structure of the kinesin motor domain reveals a structural similarity to myosinNature, 380
R. Vale, T. Funatsu, D. Pierce, L. Romberg, Y. Harada, T. Yanagida (1996)
Direct observation of single kinesin molecules moving along microtubulesNature, 380
Ahmet Yildiz, M. Tomishige, Ronald Vale, P. Selvin (2004)
Kinesin Walks Hand-Over-HandScience, 303
L. Liem, J. Simard, Yumin Song, K. Tewari (1995)
The patch clamp technique.Neurosurgery, 36 2
K. Magleby, L. Song (1992)
Dependency plots suggest the kinetic structure of ion channelsProceedings of the Royal Society of London. Series B: Biological Sciences, 249
F. Sigworth (1985)
Open channel noise. I. Noise in acetylcholine receptor currents suggests conformational fluctuations.Biophysical journal, 47 5
T. Nishizaka, K. Oiwa, H. Noji, S. Kimura, E. Muneyuki, Masasuke Yoshida, K. Kinosita (2004)
Chemomechanical coupling in F1-ATPase revealed by simultaneous observation of nucleotide kinetics and rotationNature Structural &Molecular Biology, 11
Colquhoun (2003)
The quality of maximum likelihood estimates of ion channel rate constantsJ. Physiol., 547
S. Crouzy, F. Sigworth (1993)
Fluctuations in ion channel gating currents. Analysis of nonstationary shot noise.Biophysical journal, 64 1
D. Colquhoun, F. Sigworth (1983)
Fitting and Statistical Analysis of Single-Channel Records
Dempster (1977)
Maximum likelihood from incomplete data via the EM algorithmJ. R. Stat. Soc. Ser. B. Stat. Soc., 39
Serge Crouzy, Frederick Sigworth (1990)
Yet another approach to the dwell-time omission problem of single-channel analysis.Biophysical journal, 58 3
K. Neuman, E. Abbondanzieri, R. Landick, J. Gelles, S. Block (2003)
Ubiquitous Transcriptional Pausing Is Independent of RNA Polymerase BacktrackingCell, 115
David Smith, W. Steffen, R. Simmons, J. Sleep (2001)
Hidden-Markov methods for the analysis of single-molecule actomyosin displacement data: the variance-Hidden-Markov method.Biophysical journal, 81 5
Forney (1973)
The Viterbi algorithmProc. IEEE, 61
K. Svoboda, C. Schmidt, B. Schnapp, S. Block (1993)
Direct observation of kinesin stepping by optical trapping interferometryNature, 365
D. Colquhoun, Alan Hawkes (1990)
Stochastic properties of ion channel openings and bursts in a membrane patch that contains two channels: evidence concerning the number of channels present when a record containing only single openings is observedProceedings of the Royal Society of London. B. Biological Sciences, 240
F. Qin, A. Auerbach, F. Sachs (2000)
A direct optimization approach to hidden Markov modeling for single channel kinetics.Biophysical journal, 79 4
G. Charvin, T. Strick, D. Bensimon, V. Croquette (2005)
Tracking topoisomerase activity at the single-molecule level.Annual review of biophysics and biomolecular structure, 34
B. Sakmann, E. Neher (1995)
Single-Channel Recording
A. Hawkes, A. Jalali, D. Colquhoun (1990)
The distributions of the apparent open times and shut times in a single channel record when brief events cannot be detectedPhilosophical Transactions of the Royal Society of London. Series A: Physical and Engineering Sciences, 332
N. Carter, R. Cross (2005)
Mechanics of the kinesin stepNature, 435
F. Sigworth, D. Urry, K. Prasad (1987)
Open channel noise. III. High-resolution recordings show rapid current fluctuations in gramicidin A and four chemical analogues.Biophysical journal, 52 6
R. Kálmán, R. Bucy (1961)
New Results in Linear Filtering and Prediction TheoryJournal of Basic Engineering, 83
D. Colquhoun, A. Hawkes (1982)
On the stochastic properties of bursts of single ion channel openings and of clusters of bursts.Philosophical transactions of the Royal Society of London. Series B, Biological sciences, 300 1098
A. Viterbi (1967)
Error bounds for convolutional codes and an asymptotically optimum decoding algorithmIEEE Trans. Inf. Theory, 13
Hawkes (1990)
The distributions of the apparent open times and shut times in a single channel record when brief events cannot be detectedPhilos. Trans. R. Soc. Lond. B Biol. Sci., 332
W. Bruno, Jin Yang, J. Pearson (2005)
Using independent open-to-closed transitions to simplify aggregated Markov models of ion channel gating kinetics.Proceedings of the National Academy of Sciences of the United States of America, 102 18
L. Milescu, A. Yildiz, P. Selvin, F. Sachs (2006)
Maximum likelihood estimation of molecular motor kinetics from staircase dwell-time sequences.Biophysical journal, 91 4
Lalitha Venkataramanan, J. Walsh, R. Kuc, F. Sigworth (1998)
Identification of hidden Markov models for ion channel currents. I. Colored background noiseIEEE Trans. Signal Process., 46
Shin-Ho Chung, J. Moore, L. Xia, L. Premkumar, P. Gage (1990)
Characterization of single channel currents using digital signal processing techniques based on Hidden Markov Models.Philosophical transactions of the Royal Society of London. Series B, Biological sciences, 329 1254
A. Yildiz, J. Forkey, S. McKinney, T. Ha, Y. Goldman, P. Selvin (2003)
Myosin V Walks Hand-Over-Hand: Single Fluorophore Imaging with 1.5-nm LocalizationScience, 300
QuB. www.qub.buffalo.edu, University at Buffalo
R. Yasuda, H. Noji, Masasuke Yoshida, K. Kinosita, H. Itoh (2001)
Resolution of distinct rotational substeps by submillisecond kinetic analysis of F1-ATPaseNature, 410
A. Jalali, A. Hawkes (1992)
Generalised eigenproblems arising in aggregated markov processes allowing for time interval omissionAdvances in Applied Probability, 24
(2003)
Applications of hidden Markov models to single molecule and ensemble data analysis
F. Qin, A. Auerbach, F. Sachs (1996)
Estimating single-channel kinetic parameters from idealized patch-clamp data containing missed events.Biophysical journal, 70 1
F. Sigworth, E. Neher (1980)
Single Na+ channel currents observed in cultured rat muscle cellsNature, 287
L. Rabiner, J. Wilpon, B.H. Juang (1986)
A segmental k-means training procedure for connected word recognitionAT&T Technical Journal, 65
Feng Qin, A. Auerbach, F. Sachs (1997)
Maximum likelihood estimation of aggregated Markov processesProceedings of the Royal Society of London. Series B: Biological Sciences, 264
Alan Hawkes, A. Jalali, David Colquhoun (1992)
Asymptotic distributions of apparent open times and shut times in a single channel record allowing for the omission of brief events.Philosophical transactions of the Royal Society of London. Series B, Biological sciences, 337 1282
S. Roweis, Zoubin Ghahramani (1999)
A Unifying Review of Linear Gaussian ModelsNeural Computation, 11
D. Colquhoun, C. Hatton, A. Hawkes (2003)
The quality of maximum likelihood estimates of ion channel rate constantsThe Journal of Physiology, 547
F. Sigworth (1986)
Open channel noise. II. A test for coupling between current fluctuations and conformational transitions in the acetylcholine receptor.Biophysical journal, 49 5
L. Baum, T. Petrie, George Soules, Norman Weiss (1970)
A Maximization Technique Occurring in the Statistical Analysis of Probabilistic Functions of Markov ChainsAnnals of Mathematical Statistics, 41
Jeney (2000)
Statistical analysis of kinesin kinetics by applying methods from single channel recordingsBiophys. J., 78
J. Forkey, M. Quinlan, M. Shaw, J. Corrie, Y. Goldman (2003)
Three-dimensional structural dynamics of myosin V by single-molecule fluorescence polarizationNature, 422
Biol. Sci. B
D. Colquhoun, A. Hawkes (1981)
On the stochastic properties of single ion channelsProceedings of the Royal Society of London. Series B. Biological Sciences, 211
D. Keller, C. Bustamante, Carlos Bustamante (2000)
The mechanochemistry of molecular motors.Biophysical journal, 78 2
Feng Qin, Anthony Auerbach, Frederick Sachs (2000)
Hidden Markov modeling for single channel kinetics with filtering and correlated noise.Biophysical journal, 79 4
Neher (1992)
The patch clamp techniqueSci. Am., 266
Qin (2000)
A hybrid approach to hidden Markov modeling for single channel kineticsBiophys. J., 78
Lalitha Venkataramanan, R. Kuc, F. Sigworth (1998)
Identification of hidden Markov models for ion channel currents. II. State-dependent excess noiseIEEE Trans. Signal Process., 46
R. Mallik, B. Carter, S. Lex, S. King, S. Gross (2004)
Cytoplasmic dynein functions as a gear in response to loadNature, 427
F. Qin (2004)
Restoration of single-channel currents using the segmental k-means method based on hidden Markov modeling.Biophysical journal, 86 3
A. Mehta, R. Rock, M. Rief, J. Spudich, M. Mooseker, R. Cheney (1999)
Myosin-V is a processive actin-based motorNature, 400
Biophysical Journal – Unpaywall
Published: Nov 1, 2006
Access the full text.
Sign up today, get DeepDyve free for 14 days.