Regulation of Gene-Expression by Mechanical Force, RNA structure, Optical Tweezers

Publications

Visscher, K. "Programmed Ribosomal Frameshifting as a force-dependent process", Progress in Molecular Biology and Translational Science, 139, 45-72 (2015).

Bailey, B.L, Visscher, K., & Watkins, J. "A stochastic model of translation with -1 programmed ribosomal frameshifting." Phys. Biol. 11, 016009 (2014).

White, K.H. & Visscher, K.  Optical Trapping and unfolding of RNA.  Meth. Mol. Biol. 783, 21-43 (2011).

White, K.H., Orzechowski, M., Fourmy, D. & Visscher, K.  Mechanical unfolding of the Beet Western Yellow Virus -1 frameshift signal.  JACS 133, 9775-9782 (2011).

Skinner, G.M, Kalafut B., & Visscher, K. Downstream DNA tension regulates the stability of the T7 RNA polymerase initiation complex. Biophysical Journal 100, 1034-1041 (2011).

Le Gall, A., Perronet, K., Dulin, D., Villing, A., Bouyer, P., Visscher, K. & Westbrook, N. Simultaneous calibration of optical tweezers spring constant and position detector response. Optics Express 18, 26469-26476 (2010) .

Mazauric, M.-H., Seol, Y., Yoshizawa, S., Visscher, K. & Fourmy, D. Interaction of the HIV-1 frameshift signal with the ribosome. Nucl. Acids Res. 37, 7654-7664 (2009).

Mazauric, M.-H., Leroy, J.-L., Visscher, K., Yoshizawa, S. & Fourmy, D. Footprinting analysis of BWYV pseudoknot-ribosome complexes. RNA 15, 1775-1786 (2009).

Seol, Y, Stein, D.L. & Visscher, K. Phase measurements of barrier crossings in a periodically modulated double-well potential. Phys. Rev. Lett. 103, 050601 (2009).

Aspnes, E., Milster, T., & Visscher, K. Optical force model based on ray-tracing. Applied Optics 48,1642-1650 (2009).

Kalafut, B. & Visscher, K. An objective, model-independent method for detection of non-uniform steps in noisy signals. Computer Physics Communications, 179, 716-723 (2008).

Skinner, G.M., Seol, Y, & Visscher, K. Translation against an applied force. In: Biological Physics, 3rd Mexican Meeting on Mathematical and Experimental Physics, Mexico City, Mexico. Editors: Leonardo Dagdug, Leopoldo Garcia-Colin Scherer. AIP Conf. Proceedings 978, 1-10 (2008).

Skinner, G.M., Visscher K., and Mansuripur M. Biocompatible Writing of Data into DNA J. Bionanosci. 1, 17-21 (2007)

Seol, Y., Skinner, G.M., Buhot, A., Halperin, A., and Visscher, K. Stretching of homopolymeric RNA reveals single-stranded helices and base-stacking. Phys Rev. Lett. 98, 158103 (2007)

Van der Horst, A, Vossen, D.L.J. , Visscher, K., Dogterom, M., and Van Blaaderen, A. Manipulation and imaging of particles with optical tweezers and confocal microscopy. Microscopy and Analysis, 19, 15-17 (2005)

Seol, Y., Walton, D.B, & Visscher, K. "Suppression of noise in a noisy optical trap" Phys. Rev. Lett. 93, 160602 (2004).

Seol, Y., Skinner, G.M. & Visscher K., "Elastic properties of a single-stranded charged homopolymeric ribonucleotide". Phys. Rev. Lett. 93, 118102 (2004).

Skinner, G.M & Visscher K., "Single-molecule techniques for drug discovery" Assay Drug Dev. Tech. 2, 397-405 (2004).

Walton, D.B. & Visscher K. Noise suppression and spectral decomposition for state-dependent noise in the presence of a stationary fluctuating input." Phys. Rev. E. 69, 051110 (2004)

Van Blaaderen A., Hoogenboom J.P., Vossen D.I.J., Yethira A., Van der Horst A., Visscher K., and Dogterom M., "Colloidal epitaxy: Playing with the boundaries conditions of colloidal crystallization.", Faraday Discuss. 123, 107-119 (2003).

Schnitzer M.J., Visscher K., and Block S.M., "Force production by single kinesin motors.", Nature Cell Biology 2, 718-723 (2000)

Visscher K., Schnitzer M.J., and Block S.M., "Single kinesin molecules studied with a molecular force clamp." Nature 400, 184-189 (1999). Featured in Nature Cell Biology News&Views: Knight A.E., and Molloy J.E., "Coupling ATP hydrolysis to mechanical work.", Nature Cell Biology 1, E87-E89 (1999).

Visscher K., and Block S.M., "Versatile optical traps with feedback control.", Meth. In Enzym. 298, 460-489 (1998).

Visscher K., Gross S.P., and Block S.M., "Construction of multiple beam optical traps with nanometer-resolution position detection"., IEEE J. of Selected Topics in Quantum Electronics 2, 1066-1076 (1996).

Brakenhoff G.J., and Visscher K., "Real-Time Stereo (3D) Confocal Microscopy.", In Handbook of Biological Confocal Microscopy, Pawley B.J. (ed), Plenum Press, New York (1995).

Mueller M., Ghauhalari R., Visscher K., and Brakenhoff G.J., "Double-pulse fluorescence lifetime imaging in confocal microscopy.", J. Micr. 177, 171-179 (1995).

Visscher K., Brakenhoff G.J., and Visser T.D., "Fluorescence saturation in confocal microscopy.", J. Micr. 172, 162-165 (1994).

Brakenhoff G.J. and Visscher K., and Gijsbers E.J., "Fluorescence bleach rate imaging.", J. Micr. 175, 154-161 (1994).

Brakenhoff, G.J., K. Visscher. "Imaging modes for bilateral confocal scanning microscopy." J. Micr., 171, 17-26 (1993).

Grimbergen J., Visscher K., Gomes de Mesquita D., and Brakenhoff G.J., "Isolation of single yeast cells by optical trapping.", Yeast 9, 723-732 (1993).

Visscher K., Brakenhoff G.J., and Krol J.J., "Micromanipulation by 'multiple' optical traps created by a single fast scanning trap integrated with the bilateral confocal scanning laser microscope.", Cytometry 14, 105-114 (1993).

Visscher K., and Brakenhoff G.J., "A theoretical study of optically induced forces on spherical particles in a single beam trap I: Rayleigh scatterers.", Optik 89, 174-180 (1992).

Visscher K., and Brakenhoff G.J., "A theoretical study of optically induced forces on spherical particles in a single beam trap II: Mie scatterers.", Optik 90, 57-60 (1992).

Brakenhoff G.J., and Visscher K., "High sensitivity confocal imaging with bilateral scanning and CCD detectors.", SPIE Proc. 1660, 521-531 (1992).

Brakenhoff G.J. and, Visscher K., "Confocal Imaging with bilateral scanning and array detectors.", J. Micr. 165, 139-146 (1992).

Visscher K., and Brakenhoff G.J., "Single beam optical trapping integrated in a confocal microscope for biological applications.", Cytometry 12, 486 - 491 (1991).

Brakenhoff G.J., Van der Voort H.T.M., and Visscher K., "Confocal microscopy for the biological and material sciences.", SPIE Proc. 1439, 121-127 (1991).

Brakenhoff G.J., and Visscher K., "Novel confocal imaging and visualization techniques.", In : Transactions of the Royal Microscopical Society : Micro '90. H.Y. Elder (ed.), Adam Hilger, Bristol, pp. 247-250 (1990).

Brakenhoff G.J., Visscher K., and Van der Voort H.T.M., "Size and shape of the confocal spot,: control and relation to 3D imaging and image processing.", In Handbook of Biological Confocal Microscopy, Pawley B.J. (ed), Plenum Press, New York (1989).

Terstappen L.W.M.M., De Grooth B.G., Visscher K., Kouterik F.A., and Greve J., "Four differential white blood cell counting entirely based upon light scattering measurements.", Cytometry 9, 39-43 (1988).