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Publications from 2023

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    Diffusion of transcription factors can drastically enhance the noise in gene expression Article

    Biophys. J., 4350-4367.

    J.S. van Zon (Jeroen), M.J. Morelli, S. Tanase-Nicola and P.R. ten Wolde (Pieter Rein)

    January 2006
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    Mass microscopy: imaging biomolecules on surfaces Dissertation

    S.L. Luxembourg (Stefan)

    December 2005
    open access
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    Towards terahertz microscopy Dissertation

    Ultrafast Spectroscopy

    N.C.J. van der Valk

    November 2005
    open access
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    Charge dynamics in novel semiconductors Dissertation

    E. Hendry

    November 2005
    open access
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    Finding the center reliably: robust patterns of developmental gene expression Article

    Phys. Rev. Lett., 95(20, Article number: 208103), 1-4.

    M. Howard and P.R. ten Wolde (Pieter Rein)

    November 2005
  • Pushing for power Article

    Nature

    A. Lagendijk

    November 2005
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    Collective and collisional properties of the rubidium quantum gas Dissertation

    C. Buggle

    October 2005
    open access
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    Continuum description of the cytoskeleton: ring formation in the cell cortex Article

    Phys. Rev. Lett., 95(Article number: 258103), 1-4.

    A. Zumdieck, M. Cosentino Lagomarsino (Marco), C. Tanase, K. Kruse, B.M. Mulder (Bela), A.M. Dogterom (Marileen) and F. Jülicher

    October 2005
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    Dissociative recombination of atmospheric ions: towards unravelling the physics behind airglows Dissertation

    A. Petrignani

    September 2005
    open access
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    Structural analysis of sulfide containing peptides using electron capture dissociation Dissertation

    A.J. Kleinnijenhuis

    September 2005
    open access
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    Writing with amino acids: designing the folding and binding of model proteins Dissertation

    I. Coluzza

    June 2005
    open access
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    Binding medium, pigments and metal soaps characterised and localised in paint cross-sections (MolArt; 11) Dissertation

    K. Keune

    June 2005
    open access
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    Ordering of block copolymers and smectic elastomers Dissertation

    D.M. Lambreva

    June 2005
    open access
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    The excimer laser ablation of picture varnishes: an evaluation with reference to light-induced deterioration Dissertation

    C. Theodorakopoulos

    May 2005
    open access
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    Engineering of sufaces and interfaces using low energy ions: Improving the optical quality of multilayered systems for x-ray reflection Dissertation

    J. Verhoeven (Jan)

    May 2005
    open access
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    Sunlight on atmospheric mineral aerosol and water vapor: modeling the link between laboratory data and remote sensing Dissertation

    B. Veihelmann

    April 2005
    open access
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    Interfaces in soft x-ray multilayer mirrors Dissertation

    M.J.H. Kessels

    March 2005
    open access
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    Controlled spontaneous emission in erbium-dopd microphotonic materials Dissertation

    Photonic Materials

    J. Kalkman

    March 2005
    open access
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    Probing the negative permittivity perfect lens at optical frequencies using near-field optics and single molecule detection Article

    Opt. Express, 13(5), 1604-1614.

    N.F. van Hulst, H. Gersen and L.K. Kuipers (Kobus)

    March 2005
    open access
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    Dynamics of smectic membranes as studied by x-ray and neutron scattering Dissertation

    Theory of Biomolecular Matter

    I. Sikharulidze

    February 2005
    open access
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    Membrane tube formation by motor proteins: forces and dynamics Dissertation

    G. Koster (Gerbrand)

    January 2005
    open access
  • Purcell factor reduced scattering losses in optical microcavities In Proceedings

    T.J. Kippenberg (Tobias), A.L. Tchebotareva, J. Kalkman, A. Polman (Albert) and K.J. Vahala

    January 2005
  • El tratado arte de la pintura de Francisco Pacheco y su influencia en la técnica de ejecucion de las encarnaciones en la escultura alemana del siglo XVIII: primeros resultados obtenidos de análisis avanzados realizados en micromuestras Book Chapter

    M. Richter, S. Schäfer and A. van Loon

    January 2005
  • Comparing three PCA-based methods for the 3D visualization of imaging spectroscopy data In Proceedings

    A. Broersen, R. van Liere and R.M.A. Heeren (Ron)

    January 2005
  • Polymer crystallization driven by anisotropic interactions Book Chapter

    W. Hu and D. Frenkel

    January 2005
  • A study on the oxidative gradient of aged traditional triterpenoid resins using "optimum" photoablation parameters In Proceedings

    C. Theodorakopoulos, V. Zafiropulos, C. Fotakis, C. Fotakis, J.J. Boon, J. van der Horst (Jerre), K. Dickmann, K. Dickmann and D. Knapp

    January 2005
  • The Lazurite database : an image-based solution for recording and presenting data from painting studies In Proceedings

    N. Eastaugh, V. Walsh and J.J. Boon

    January 2005
  • The deterioration of cadmium sulphide yellow artists' pigments In Proceedings

    B. Leone, A. Burnstock, C.R. Jones, P. Hallebeek, K. Keune and J.J. Boon

    January 2005
  • The whitening of oil paints films containing bone black In Proceedings

    A. van Loon and J.J. Boon

    January 2005
  • Molecular study of the depth-dependent oxidation and condensation gradients of aged dammar and mastic varnish films assisted by KrF excimer laser ablation In Proceedings

    C. Theodorakopoulos, V. Zafiropulos and J.J. Boon

    January 2005
  • Quantitative colour comparison of grounds and paints in paint cross-sections from a selection of paintings from the Paris period by Vincent van Gogh In Proceedings

    Beatrice Marino, J.J. Boon and E. Hendriks

    January 2005
  • Microclimate indoor monitoring: damage assessment for cultural heritage preservation In Proceedings

    M. Odlyha, N. Wade, Q. Wang (Qianmin), R. Campana, J.M. Slater, M.R. Svendsen, T. Padfield, F.De Santis, V.A. Smith, L. Bullock, et al. E.S.B. Ferreira, J.J. Boon, K. Pratt and B. Ormsby

    January 2005
  • Chemical aspects of the binding media of the Oranjezaal ensemble: an insight into 17th centurey Netherlandish materials and methods In Proceedings

    E.S.B. Ferreira, J. van der Horst (Jerre) and J.J. Boon

    January 2005
  • Characterization and localization of the oil-binding medium in paint cross-sections using imaging secondary ion mass spectrometry In Proceedings

    K. Keune, E.S.B. Ferreira and J.J. Boon

    January 2005
  • Changing properties of the asphalt- and oil-derived components in asphalt-oil paints prepared according to 19th-century recipes In Proceedings

    G.M. Languri, R. Boitelle and J.J. Boon

    January 2005
  • Chemical changes in old master paintings II: darkening due to increased transparency as a result of metal soap formation processes In Proceedings

    P. Noble, A. van Loon and J.J. Boon

    January 2005
  • Numerical simulations of crystal cucleation in colloids Book Chapter

    S.A. Auer and D. Frenkel

    January 2005
  • Improving the surface quality of paint cross-sections for imaging analytical studies with specular reflection FTIR and Static-SIMS In Proceedings

    A. van Loon, K. Keune and J.J. Boon

    January 2005
  • SIMS studies of the material aspects in grounds and paints in paintings by van Gogh In Proceedings

    Beatrice Marino, K. Keune, E. Hendriks and J.J. Boon

    January 2005
  • Flow-induced mesophases in crystallizable polymers Book Chapter

    L. Li (Ling) and W.H. de Jeu

    January 2005
  • The effect of bonding on the fragmentation of small systems In Proceedings

    R.D. Thomas, A. Ehlerding, W. Geppert, F. Hellberg, M. Larsson, V. Zhaunerchyk, E. Bahati, M.E. Bannister, C.R. Vane, A. Petrignani, et al. W.J. van der Zande, P.U. Andersson and J.B.C. Pettersson

    January 2005
  • DTMS and DTMS/MS study of solid organic residues preserved on ancient vessels In Proceedings

    T.F.M. Oudemans (Tania), G.B. Eijkel (Gert) and J.J. Boon

    January 2005
  • Ultrafast vibrational dynamics of rotaxanes In Proceedings

    O.F.A. Larsen, W.J. Buma, D.A. Leigh and S. Woutersen (Sander)

    January 2005
  • Photosynthesis, physics of Book Chapter

    J. Herek

    January 2005
  • Position- and time-sensitive coincident detection of fragments from the dissociative recombination of O2+ using a single hexanode delay-line detector In Proceedings

    F. Österdahl, S. Rosén, V. Bednarska, A. Petrignani, F. Hellberg, M. Larsson and W.J. van der Zande

    January 2005
  • Vibrational dependence in the dissociative recombination of O2+ In Proceedings

    A. Petrignani, F. Hellberg, R.D. Thomas, M. Larsson, P.C. Cosby and W.J. van der Zande

    January 2005
  • Identifying and localizing proteinaceous compounds in paint samples using reflextion infrared spectroscopic techniques In Proceedings

    A. van Loon and J.J. Boon

    January 2005
  • Imaging studies of lead soap aggregates and their relationship to lead and tin in 15th C lead tin yellow paints from the Sherborne triptych In Proceedings

    J.J. Boon, E. Gore, K. Keune and A. Burnstock

    January 2005
  • Vibrationally resolved rate coefficients and branding fractions in the dissociative recombination of O+2 Article

    J. Chem. Phys., 122(Article number: 14302), 1-11.

    A. Petrignani, W.J. van der Zande, P.C. Cosby, F. Hellberg, R.D. Thomas and M. Larsson

    January 2005
  • Anisotropic plastic deformation by viscous flow in ion tracks Article

    Phys. Rev. B, 71(Article number: 24103), 1-12.

    T. van Dillen, A. Polman (Albert), P.R. Onck and E. van der Giessen

    January 2005
  • Simulation studies of pore and domain formation in a phospholipid monolayer Article

    J. Chem. Phys., 122(Article number: 24704), 1-9.

    V. Knecht, M. Müller (Michiel), M. Bonn (Mischa), S.J. Marrink (Sievert) and A.E. Mark

    January 2005
  • Sampling rare switching events in biochemical networks Article

    Phys. Rev. Lett., 94(Article number: 18104), 1-4.

    R.J. Allen, P.B. Warren and P.R. ten Wolde (Pieter Rein)

    January 2005
  • WWW scattering matrix database for small mineral particles at 441.6 and 632.8nm Article

    J. Quant. Spectrosc. Radiat. Transfer, 191-206.

    H. Volten, O. Muñoz, J.W. Hovenier, J.F. de Haan, W. Vassen, W.J. van der Zande and L.B.F.M. Waters

    January 2005
  • Coupling of Er ions to surface plasmons on Ag Article

    Appl. Phys. Lett., 86(Article number: 41113), 1-3.

    J. Kalkman, L.K. Kuipers (Kobus), A. Polman (Albert) and H. Gersen

    January 2005
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    Plasmonics: optics at the nanoscale Article

    Mater. Today, 8(1)

    A. Polman (Albert) and H.A. Atwater (Harry)

    January 2005
    open access
  • Direct molecular imaging of Lymnaea stagnalis nervous tissue at subcellular spatial resolution by mass spectrometry Article

    Anal. Chem., 735-741.

    A.F.M. Altelaar, J. van Minnen, C.R. Jiménez, R.M.A. Heeren (Ron) and S.R. Piersma

    January 2005
  • Oriented primary crystal nucleation in lamellar diblock copolymer system Article

    Faraday Discuss., 253-260.

    W. Hu and D. Frenkel

    January 2005
  • Theory of sum-frequency generation spectroscopy of adsorbed molecules using the density matrix method - broadband vibrational sum-frequency generation and applications Article

    J. Phys.: Condens. Matter, 201-220.

    M. Bonn (Mischa), H. Ueba and M. Wolf

    January 2005
  • Force barriers for membrane tube formation Article

    Phys. Rev. Lett., 94(Article number: 68101), 1-4.

    G. Koster (Gerbrand), A. Cacciuto, I. Derényi, D. Frenkel and A.M. Dogterom (Marileen)

    January 2005
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    Real-Space observation of ultraslow light in photonic crystal waveguides Article

    Phys. Rev. Lett., 94(Article number: 73903), 1-4.

    H. Gersen, T.J. Karle, R.J.P. Engelen, W. Bogaerts, J.P. Korterik, N.F. van Hulst, T.F. Krauss and L.K. Kuipers (Kobus)

    January 2005
  • Heterodyne and homodyne detection in fluctuating smectic membranes by photon correlation spectroscopy at X-ray and visible wavelengths Article

    Physica B, 39-44.

    W.H. de Jeu, A. Madsen, I. Sikharulidze and S. Sprunt

    January 2005
  • Subcellular imaging mass sectrometry of brain tissue Article

    J. Mass Spectrom., 160-168.

    L.A. McDonnell, S.R. Piersma, A.F.M. Altelaar, T.H. Mize, S.L. Luxembourg (Stefan), Peter D.E.M. Verhaert, J. van Minnen and R.M.A. Heeren (Ron)

    January 2005
  • Heating experiments under anoxic conditions on varieties of wheat Article

    Archaeometry, 103-114.

    F. Braadbaart, C.C. Bakels, J.J. Boon and P.F. van Bergen

    January 2005
  • Force generation by dynamic microtubules Article

    Curr. Opin. Cell Biol., 67-74.

    A.M. Dogterom (Marileen), J.W.J. Kerssemakers, G. Romet-Lemonne and M.E. Janson (Marcel)

    January 2005
  • X-ray photon correlation spectroscopy in a reflection geometry: coherence and resolution Article

    Opt. Commun., 111-124.

    I. Sikharulidze, I.P. Dolbnya, A. Madsen and W.H. de Jeu

    January 2005
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    Dynamics of confined water molecules Article

    PNAS, 3202-3207.

    J.J. Gilijamse, A.J. Lock and H.J. Bakker (Huib)

    January 2005
    open access
  • Förster transfer and the local optical density of states in erbium-doped silica Article

    Phys. Rev. B, 71(Article number: 115102), 1-5.

    M.J.A. de Dood (Michiel), J. Knoester, A. Tip and A. Polman (Albert)

    January 2005
  • Phase behavior of the melt of polystyrene-poly(ethylene oxide) metallo-supramolecular diblock copolymer with bulky counterions Article

    Macromolecules, 2832-2836.

    M. Al-Hussein, W.H. de Jeu, B.G.G. Lohmeijer and U.S. Schubert

    January 2005
  • Three-body fragmentation dynamics of amidogen and methylene radicals via dissociative recombination Article

    Phys. Rev. A, 71(Article number: 32711), 1-16.

    R.D. Thomas, F. Hellberg, A. Neau, S. Rosén, M. Larsson, C.R. Vane, M.E. Bannister, S. Datz, A. Petrignani and W.J. van der Zande

    January 2005
  • Surface-plasma resonance in small rare-gas clusters by mixing ir and vuv laser pulses Article

    Phys. Rev. A, 71(Article number: 31401), 1-4.

    Ch. Siedschlag and J.M. Rost

    January 2005
  • Interchain effects in the ultrafast photophysics of a semiconducting polymer: THz time-domain spectroscopy of thin films and isolated chains in solution Article

    Phys. Rev. B, 71(Article number: 125201), 1-10.

    E. Hendry, M. Koeberg, J.M. Schins, H.-K. Nienhuys, V. Sundström, L.D.A. Siebbeles (Laurens) and M. Bonn (Mischa)

    January 2005
  • Self-Assembly of the perfluoroalkyl-alkane F14H20 in ultrathin films Article

    Langmuir, 2308-2316.

    A. Mourran, B. Tartsch, M. Gallyamov, S. Magonov, D.M. Lambreva, B.I. Ostrovskii, I.P. Dolbnya, W.H. de Jeu and M. Möller

    January 2005
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    Direct observation of Bloch harmonics and negative phase velocity in photonic crystal waveguides Article

    Phys. Rev. Lett., 94(Article number: 123901), 1-4.

    H. Gersen, T.J. Karle, R.J.P. Engelen, W. Bogaerts, J.P. Korterik, N.F. van Hulst, T.F. Krauss and L.K. Kuipers (Kobus)

    January 2005
  • Monte Carlo study of hard pentagons Article

    Phys. Rev. E, 71(Article number: 36138), 1-6.

    T. Schilling, S. Pronk, B.M. Mulder (Bela) and D. Frenkel

    January 2005
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    Manipulation and imaging of particles with optical tweezers and confocal microscopy Article

    Microsc. Anal.: UK edition, 15-17.

    A. van der Horst, D.L.J. Vossen, K. Visscher, A.M. Dogterom (Marileen) and A. van Blaaderen

    January 2005
    open access
  • Simulating biochemical networks at the particle level and in time and space: Green's function reaction dynamics Article

    Phys. Rev. Lett., 94(Article number: 128103), 1-4.

    J.S. van Zon (Jeroen) and P.R. ten Wolde (Pieter Rein)

    January 2005
  • Design and performance of a high-resolution frictional force microscope with quantitative three-dimensional force sensitivity Article

    Rev. Sci. Instrum., 76(Article number: 43704), 1-7.

    M. Dienwiebel, E. de Kuyper, L. Crama, J.W.M. Frenken, J.A. Heimberg, D.-J. Spaanderman (Dirk-Jan), D. Glastra van Loon, T. Zijlstra and E. van der Drift

    January 2005
  • Structural arrest in an ideal gas Article

    Phys. Rev. Lett., 94(Article number: 135703), 1-4.

    W. van Ketel, C. Das and D. Frenkel

    January 2005
  • Stresses inside critical nuclei Article

    J. Phys. Chem. B, 6587-6594.

    A. Cacciuto and D. Frenkel

    January 2005
  • Chemical models of genetic toggle switches Article

    J. Phys. Chem. B, 6812-6823.

    P.B. Warren and P.R. ten Wolde (Pieter Rein)

    January 2005
  • Modeling the phase diagram of Carbon Article

    Phys. Rev. Lett., 94(Article number: 145701), 1-4.

    L.M. Ghiringhelli, J.H. Los, E.J. Meijer, A. Fasolino and D. Frenkel

    January 2005
  • Hydrodynamic induced deformation and orientation of a microscopic elastic filament Article

    Phys. Rev. Lett., 94(Article number: 148104), 1-4.

    M. Cosentino Lagomarsino (Marco), I. Pagonabarraga and C.P. Lowe

    January 2005
  • Coherent control for spectroscopy and manipulation of biological dynamics Article

    ChemPhysChem, 850-857.

    W. Wohlleben, T. Buckup, J. Herek and M. Motzkus

    January 2005
  • Determination of in-depth density profiles of multilayer structures Article

    J. Appl. Phys., 97(Article number: 93513), 1-8.

    M.J.H. Kessels, F. Bijkerk, F.D. Tichelaar and J. Verhoeven (Jan)

    January 2005
  • Length, protein-protein interactions, and complexity Article

    Physica A, 52-62.

    T.Y. Tan, D. Frenkel, V. Gupta and M.W. Deem

    January 2005
  • Anomalous slowing down of the vibrational relaxation of liquid water upon nanoscale confinement Article

    Phys. Rev. Lett., 94(Article number: 178301), 1-4.

    A.M. Dokter, S. Woutersen (Sander) and H.J. Bakker (Huib)

    January 2005
  • Ion-induced interface layer formation in W/Si and WRe/Si multilayers Article

    Surf. Sci., 227-234.

    M.J.H. Kessels, J. Verhoeven (Jan), F.D. Tichelaar and F. Bijkerk

    January 2005
  • Rate of homogeneous crystal nucleation in molten NaCl Article

    J. Chem. Phys., 122(Article number: 194501), 1-6.

    C. Valeriani, E. Sanz and D. Frenkel

    January 2005
  • The excluded volume of hard sphero-zonotopes Article

    Mol. Phys., 1411-1424.

    B.M. Mulder (Bela)

    January 2005
  • Infrared mass spectrometric imaging below the diffraction limit Article

    J. Proteome Res., 671-673.

    S.L. Luxembourg (Stefan), L.A. McDonnell, T.H. Mize and R.M.A. Heeren (Ron)

    January 2005
  • Monte Carlo sampling of a Markov web Article

    J. Chem. Theory Comput., 389-393.

    G.C. Boulougouris and D. Frenkel

    January 2005
  • Scanning probe microscopes go video rate and beyond Article

    Rev. Sci. Instrum., 76(Article number: 53710), 1-9.

    M.J. Rost, L. Crama, P. Schakel, E. van Tol, G.B.E.M. van Velzen-Williams, C.F. Ovegauw, H. ter Horst, H. Dekker, C.B. Okhuijsen, M. Seynen (Marco), et al. A.J.M. Vijftigschild, P.Y. Han, A.J. Katan, K. Schoots, R. Schumm, W. van Loo, T.H. Oosterkamp and J.W.M. Frenken

    January 2005
  • Purification and characterization of the tungsten enzyme aldehyde: ferredoxin oxidoreductase from the hyperthermophilic denitrifier Pyrobaculum aerophilum Article

    J. Biol. Inorg. Chem., 259-269.

    P.L. Hagedoorn, T. Chen, I. Schröder, S.R. Piersma, S.A. de Vries and W.R. Hagen

    January 2005
  • The new "p-n junction": plasmonics enables photonic access to the nanoworld Article

    MRS Bulletin, 385-389.

    H.A. Atwater (Harry), S. Maier (Stefan), A. Polman (Albert), J.A. Dionne (Jennifer) and L.A. Sweatlock

    January 2005
  • Monitoring macromolecular complexes involved in the chaperonin-assisted protein folding cycle by mass spectrometry Article

    Nature Meth., 371-376.

    E. van Duijn, P.J. Bakkes, R.M.A. Heeren (Ron), R.H.H. van den Heuvel, H. van Heerikhuizen, S.M. van der Vries and A.J.R. Heck (Albert)

    January 2005
  • Surface and bulk dissolution properties, and selectivity of DNA-linked nanoparticle assemblies Article

    J. Chem. Phys., 122(Article number: 214904), 1-11.

    D.B. Lukatsky and D. Frenkel

    January 2005
  • Highly confined electromagnetic fields in arrays of strongly coupled Ag nanoparticles Article

    Phys. Rev. B, 71(Article number: 235408), 1-7.

    L.A. Sweatlock, S. Maier (Stefan), H.A. Atwater (Harry), J.J. Penninkhof and A. Polman (Albert)

    January 2005
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    Local probing of Bloch mode dispersion in a photonic crystal waveguide Article

    Opt. Express, 13(12), 4457-4464.

    R.J.P. Engelen, T.J. Karle, H. Gersen, J.P. Korterik, T.F. Krauss, L.K. Kuipers (Kobus) and N.F. van Hulst

    January 2005
    open access
  • Absence of the enhanced intra-4f transition cross section at 1.5 μm of Er3+ in Si-rich SiO2 Article

    Appl. Phys. Lett., 86(Article number: 241109), 1-3.

    H. Mertens, A. Polman (Albert), I.M.P. Aarts, W.M.M. Kessels and M.C.M. van de Sanden

    January 2005
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    Energy transfer in single hydrogen-bonded water molecules Article

    ChemPhysChem, 1146-1156.

    H.J. Bakker (Huib), J.J. Gilijamse and A.J. Lock

    January 2005
    open access
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