AMOLF Institutional Repository: AMOLF Institutional Repository

Fourier transform ion cyclotron resonance imaging mass spectrometry : development of instrumentation, data acquisition software and data processing methods Dissertation

I.M. Taban Barbu

April 2008
Electon-impact excitation and ionization cross sections for ground state and excited helium atoms Article

Atom. Data Nuc. Data Tab., 603-622.

Yu. Ralchenko, R.K. Janev, T. Kato, D.V. Fursa, I. Bray and F.J. de Heer

April 2008
Analysis of chaperone complexes by fourier transform ion cyclotron resonance mass spectrometry Dissertation

R.B.J. Geels

March 2008
Water in confinement : ultrafast dynamics of water in reverse micelles Dissertation

Ultrafast Spectroscopy

A.M. Dokter

March 2008
Color changes and chemical reactivity in seventeenth-century oil paintings (De Mayerne [MolArt]; 14) Dissertation

A. van Loon

January 2008
Snapshots of water : orientational dynamics of hydrogen-bonded systems Dissertation

Ultrafast Spectroscopy

Y.L.A. Rezus (Yves)

January 2008
Fluorescence lifetime of emitters with broad homogeneous linewidths modified in opal photonic crystals Article

J. Phys. Chem. C, 7250-7254.

I.S. Nikolaev, P. Lodahl and W.L. Vos

January 2008
Noncollinear optical parametric amplification in potassium titanyl phosphate pumped at 800 nm Article

Appl. Opt., 2870-2873.

H.-K. Nienhuys and H.J. Bakker (Huib)

January 2008
Attosecond angular streaking Article

Nature Phys., 565-570.

P. Eckle, M. Smolarski, P. Schlup, J. Biegert, A. Staudte, M. Schöffler, H.G. Muller, Reinhard Dörner and U. Keller

January 2008
Random organization : ordered chaos Article

Nature Phys., 345-346.

D. Frenkel

January 2008
Automated, feature-based image alignment for high-resolution imaging mass spectrometry of large biological samples Article

J. Am. Soc. Mass Spectrom., 823-832.

A. Broersen, R. van Liere, A.F.M. Altelaar, R.M.A. Heeren (Ron) and L.A. McDonnell

January 2008
Controlling the efficiency of an artificial light-harvesting complex Article

PNAS, 7641-7646.

J. Savolainen (Janne), R. Fanciulli, N. Dijkhuizen, A.L. Moore, J. Hauer, T. Buckup, M. Motzkus and J. Herek

January 2008
Chemical modification of colloidal masks for nanolithography Article

Langmuir, 24(11), 5967-5969.

D.L.J. Vossen, J.J. Penninkhof and A. van Blaaderen

January 2008
High trapping forces for high-refractive index particles trapped in dynamic arrays of counterpropagating optical tweezers Article

Appl. Opt., 3196-3202.

A. van der Horst, P.D.J. van Oostrum, A. Moroz, A. van Blaaderen and A.M. Dogterom (Marileen)

January 2008
Bidirectional membrane tube dynamics driven by nonprocessive motors Article

PNAS, 7993-7997.

P.M. Shaklee, T. Idema, G. Koster (Gerbrand), C. Storm, T. Schmidt and A.M. Dogterom (Marileen)

January 2008
Optical cavity modes in gold shell colloids Article

J. Appl. Phys., 103(Article number: 123105), 1-7.

J.J. Penninkhof, L.A. Sweatlock, A. Moroz, H.A. Atwater (Harry), A. van Blaaderen and A. Polman (Albert)

January 2008
Short-time inertial response of viscoelastic fluids measured with Brownian motion and with active probes Article

Phys. Rev. E, 77(6, Article number: 61508), 1-13.

M. Atakhorrami, D. Mizuno, G.H. Koenderink (Gijsje), T.B. Liverpool, F.C. MacKintosh (Fred) and C.F. Schmidt

January 2008
Spatially resolved observation of dipole-dipole interaction between Rydberg atoms Article

Phys. Rev. Lett., 100(Article number: 243201), 1-4.

C.S.E. van Ditzhuijzen, A.F. Koenderink (Femius), J.V. Hernández, F. Robicheaux, L.D. Noordam and H.B. van Linden van den Heuvell

January 2008
Femtosecond spectroscopic study of the solvation of amphiphilic molecules by water Article

Chem. Phys., 350(1-3), 87-93.

Y.L.A. Rezus (Yves) and H.J. Bakker (Huib)

January 2008
Ultrafast vibrational dynamics of interfacial water Article

Chem. Phys., 350(1-3), 23-30.

A. Ghosh, M. Smits, M. Sovago, J. Bredenbeck, M. Müller (Michiel) and M. Bonn (Mischa)

January 2008
Crystallization under shear in isotactic polypropylene containing nucleators Article

Polymer, 3076-3083.

D. Byelov (Dimitry), P. Panine, K. Remerie, E. Biemond, G.C. Alfonso and W.H. de Jeu

January 2008
Spatial distribution and near-field coupling of surface plasmon polariton Bloch modes Article

Phys. Rev. B, 77(Article number: 235439), 1-7.

M. Sandtke and L.K. Kuipers (Kobus)

January 2008
Force-generation and dynamic instability of microtubule bundles Article

PNAS, 8920-8925.

L. Laan (Liedewij), J. Husson, E.L. Munteanu, J.W.J. Kerssemakers and A.M. Dogterom (Marileen)

January 2008
Mid-IR transmission of a large-area 2D silicon photonic crystal slab Article

J. Phys. D: Appl. Phys., 41(Article number: 135105), 1-6.

L. Prodan, R. Hagen, P. Gross, R. Arts, R. Beigang, C. Fallnich, A. Schirmacher, L.K. Kuipers (Kobus) and K-J Boller

January 2008
Fractional decay of quantum dots in real photonic crystals Article

Opt. Lett., 1557-1559.

P. Kristensen, A.F. Koenderink (Femius), P. Lodahl, B. Tromborg and J. Mørk

January 2008
Above threshold ionization in a strong dc electric field Article

Phys. Rev. A, 78(Article number: 13413), 1-7.

Y.F. Ni (Yongfeng), S. Zamith, F. Lépine, Tatiana Marchenko, M.F. Kling, O. Ghafur, H.G. Muller, G. Berden, F. Robicheaux and M.J.J. Vrakking

January 2008
Liquid-vapor transition driven by bond disorder Article

Phys. Rev. Lett., 101(4, Article number: 45701), 1-4.

B. Bozorgui and D. Frenkel

January 2008
Dynamical heterogeneity in a glass-forming ideal gas Article

Phys. Rev. B, 78(Article number: 11505), 1-11.

P. Charbonneau, C. Das and D. Frenkel

January 2008
Cellulose microfibril deposition: coordinated activity at the plant plasma membrane Article

J. Microsc., 192-200.

J.J. Lindeboom (Jelmer), B.M. Mulder (Bela), J.W. Vos (Jan), T. Ketelaar (Tijs) and A.M.C. Emons (Anne Mie)

January 2008
Sphere size distributions from finite thickness sections: a forward approach employing a genetic algorithm Article

J. Microsc., 257-264.

S. de Nooijer, T. Ketelaar (Tijs) and B.M. Mulder (Bela)

January 2008
Rates of exocytosis and endocytosis in Arabidopsis root hairs and pollen tubes Article

J. Microsc., 265-273.

T. Ketelaar (Tijs), M.E. Galway, B.M. Mulder (Bela) and A.M.C. Emons (Anne Mie)

January 2008
Moleculaire houdgreep ontrafeld Article

NTvN, 268-270.

R.G.H. van Leeuwen and S.J. Tans (Sander)

January 2008
Reaction Brownian dynamics and the effect of spatial fluctuations on the gain of a push-pull network Article

J. Chem. Phys., 129(Article number: 54112), 1-11.

M.J. Morelli and P.R. ten Wolde (Pieter Rein)

January 2008
Quantitative label-free imaging of lipid composition and packing of individual cellular lipid droplets using multiplex CARS microscopy Article

Biophys. J., 4908-4914.

H.A. Rinia, K.N.J. Burger, M. Bonn (Mischa) and M. Müller (Michiel)

January 2008
Quasibinary amorphous phase in a three-dimensional system of particles with repulsive-shoulder interactions Article

J. Chem. Phys., 129(Article number: 64512), 1-6.

Y.D. Fomin, N.V. Gribova, V.N. Ryzhov, S.M. Stishov and D. Frenkel

January 2008
State-of-the-art models for the phase diagram of carbon and diamond nucleation Article

Mol. Phys., 2011-2038.

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

January 2008
On the mechanism of charge transport in pentacene Article

J. Chem. Phys., 129(Article number: 44704), 1-5.

H.A. van Laarhoven, C.F.J. Flipse, M. Koeberg, M. Bonn (Mischa), E. Hendry, G. Orlandi, O.D. Jurchescu, T.T.M. Palstra and A. Toisi

January 2008
Dispersion of charged tracers in charged porous media Article

Chem. Phys. Lett., 83(Article number: 34004), 1-6.

B. Rotenberg, I. Pagonabarraga and D. Frenkel

January 2008
Regulatory control and the costs and benefits of biochemical noise Article

PLoS Comput. Biol., 4(Article number: 1000125), 1-13.

S. Tanase-Nicola and P.R. ten Wolde (Pieter Rein)

January 2008
A THz spectrometer based on a CsI prism Article

J. Opt. A, 10(Article number: 95303), 1-7.

A.S. Meijer, J.J.H. Pijpers, H.-K. Nienhuys, M. Bonn (Mischa) and W.J. van der Zande

January 2008
In situ quantitative measurement of concentration profiles in a microreactor with submicron resolution using multiplex CARS microscopy Article

J. Am. Chem. Soc., 11592-11593.

D. Schafer (Dawn), J.A. Squier (Jeff), J. van Maarseveen (Jan), D. Bonn (Daniel), M. Bonn (Mischa) and M. Müller (Michiel)

January 2008
Two regimes of slow-light losses revealed by adiabatic reduction of group velocity Article

Phys. Rev. Lett., 101(Article number: 103901), 1-4.

R.J.P. Engelen, D. Mori, T. Baba and L.K. Kuipers (Kobus)

January 2008
Loss mechanisms of surface plasmon polaritons on gold probed by cathodoluminescence imaging spectroscopy Article

Appl. Phys. Lett., 93(Article number: 113110), 1-3.

Martin Kuttge, Ernst Jan R. Vesseur, J. Verhoeven (Jan), H.J. Lezec, H.A. Atwater (Harry) and A. Polman (Albert)

January 2008
Velocity map imaging of atomic and molecular processes at the free electron laser in Hamburg (FLASH) Article

J. Mod. Opt., 2693-2709.

P. Johnsson, W. Siu, A. Gijsbertsen (Arjan), J. Verhoeven (Jan), A.S. Meijer, W.J. van der Zande and M.J.J. Vrakking

January 2008
Femtosecond time-resolved and two-dimensional vibrational sum frequency spectroscopic instrumentation to study structural dynamics at interfaces Article

Rev. Sci. Instrum., 79(Article number: 93907), 1-9.

A. Ghosh, M. Smits, J. Bredenbeck, N. Dijkhuizen and M. Bonn (Mischa)

January 2008
Comment on "Vibrational response of hydrogen-bonded interfacial water is dominated by intramolecular coupling" - Reply Article

Phys. Rev. Lett.

M. Sovago, R.K. Campen, G.W.H. Wurpel, M. Müller (Michiel), H.J. Bakker (Huib) and M. Bonn (Mischa)

January 2008
Nanoimprint lithography for nanophotonics in silicon Article

Nano Lett., 2872-2877.

C.M. Bruinink, M. Burresi, F.B. Segerink, H.V. Jansen, M.J. de Boer (Meint), E. Berenschot, D.N. Reinhoudt, J. Huskens (Jurriaan) and L.K. Kuipers (Kobus)

January 2008
Chemical imaging techniques for the characterisation of materials and techniques in the art of gilding : a case study from a mural by F. Lippi In Proceedings

I. Bonaduce, J.J. Boon, M.P. Colombini and G. Lanterna

January 2008
An integrated mass spectrometric and molecular imaging analytical approach to identify and localise constituents in paintings applied to gilded multilayer structures from 14th to 16th C works of art Book Chapter

I. Bonaduce and J.J. Boon

January 2008
Diepe nanogaatjes in silicium om licht te vangen Article

NTvN, 74(9), 322-325.

L.A. Woldering, R.W. Tjerkstra, I.D. Setija and W.L. Vos

January 2008
Interactions of like-charged rods at low temperatures: Analytical theory vs. simulations Article

Eur. Phys. J. E, 27(1), 21-29.

A. Arnold and C. Holm

January 2008
Design of light scattering in nanowire materials for photovoltaic applications Article

Nano Lett., 2638-2642.

O.L. Muskens, J. Gómez Rivas (Jaime), R. Algra, E.P.A.M. Bakkers (Erik) and A. Lagendijk

January 2008
Optics with single nanowires Article

C. R. Phys., 804-815.

V. Zwiller, N. Akopian, M.H.M. van Weert, M.P. van Kouwen, U. Perinetti, L.P. Kouwenhoven, R. Algra, J. Gómez Rivas (Jaime), E.P.A.M. Bakkers (Erik), G. Patriarche, et al. L. Liu, J. Motohisa

January 2008
Homogeneous nucleation under shear in a two-dimensional ising model : cluster growth, coalescence and breakup Article

J. Chem. Phys., 129(Article number: 134704), 1-11.

R.J. Allen, C. Valeriani, S. Tanase-Nicola, P.R. ten Wolde (Pieter Rein) and D. Frenkel

January 2008
Design principles for particle plasmon enhanced solar cells Article

Appl. Phys. Lett., 93(Article number: 191113), 1-3.

K.R. Catchpole (Kylie) and A. Polman (Albert)

January 2008
Kerr and free carrier ultrafast all-optical switching of GaAs/AlAs nanostructures near the three photon edge of GaAs Article

J. Appl. Phys., 104(8, Article number: 83105), 1-7.

A. Hartsuiker, P.J. Harding, Y.-R. Nowicki-Bringuier, J.-M. Gérard and W.L. Vos

January 2008
Surface plasmon-polariton mediated enhancement of the emission of dye molecules on metallic gratings Article

New J. Phys., 10(Article number: 105007), 1-14.

J. Gómez Rivas (Jaime), G. Vecchi and B. Giannini

January 2008
Thermal activation of the co-chaperonins GroES and gp31 probed by mass spectrometry Article

Rapid Commun. Mass Spectrom., 3633-3641.

R.B.J. Geels, S. Calmat, A.J.R. Heck (Albert), S.M. van der Vies and R.M.A. Heeren (Ron)

January 2008
Plasmonics Applied Article

Science, 868-869.

A. Polman (Albert)

January 2008
Are negative index materials achievable with surface plasmon waveguides? A case study of three plasmonic geometries Article

Opt. Express, 16(23), 19001-19017.

J.A. Dionne (Jennifer), E. Verhagen (Ewold), A. Polman (Albert) and H.A. Atwater (Harry)

January 2008
Cytoplasmic diffusion: molecular motors mix it up Article

J. Cell Biol., 583-587.

C.P. Brangwynne, G.H. Koenderink (Gijsje), F.C. MacKintosh (Fred) and D.A. Weitz

January 2008
Molecular reorientation of liquid water studied with femtosecond midinfrared spectroscopy Article

J. Phys. Chem. A, 11523-11534.

H.J. Bakker (Huib), Y.L.A. Rezus (Yves) and R.L.A. Timmer (Rutger)

January 2008
Long-range surface polaritons in ultra-thin films of silicon Article

Opt. Express, 16(24), 19674-19685.

V. Giannini, Y. Zhang, M. Forcales and J. Gómez Rivas (Jaime)

January 2008
Two-step vapor-crystal nucleation close below triple point Article

J. Chem. Phys., 129(Article number: 204505), 1-8.

J.A. van Meel, A.J. Page, R.P. Sear and D. Frenkel

January 2008
Attosecond ionization and tunneling delay time measurements in helium Article

Science, 322(Article number: 1525), 1529-3.

P. Eckle, A.N. Pfeiffer, C. Cirelli, A. Staudte, Reinhard Dörner, H.G. Muller, M. Büttiker and U. Keller

January 2008
Out-of-equilibrium processes in suspensions of oppositely charged colloids : liquid-to-crystal nucleation and gel formation Article

J. Phys.: Condens. Matter, 20(49, Article number: 494247), 1-10.

E. Sanz, C. Valeriani, T. Vissers, A. Fortini, M.E. Leunissen, A. van Blaaderen, D. Frenkel and M. Dijkstra (Marjolein)

January 2008
Multiple occupancy crystals formed by purely repulsive soft particles Article

J. Phys.: Condens. Matter, 20(49, Article number: 494245), 1-9.

B.M. Mladek, P. Charbonneau, C.N. Likos, D. Frenkel and G. Kahl

January 2008
On growth and force Article

Science, 1643-1644.

B.M. Mulder (Bela)

January 2008
Quality of surface : the influence of sample preparation on MS based biomolecular tissue imaging with MALDI-MS and (ME-)SIMS Article

Appl. Surf. Sci., 1289-1297.

R.M.A. Heeren (Ron), B. Kükrer-Kaletas, I.M. Taban Barbu, L. MacAleese (Luke) and L.A. McDonnell

January 2008
Sum-frequency generation spectroscopy of self-assembled structures of Guanosine 5-monophosphate on mica Article

Chem. Phys. Lett., 159-163.

K. Kunstelj, L. Spindler, F. Federiconi, M. Bonn (Mischa), I. Drevensek-Olenik and M. Copic

January 2008
Disordered flanks prevent peptide aggregation Article

PLoS Comput. Biol., 4(Article number: 1000241), 1-7.

S. Abeln and D. Frenkel

January 2008
Harvesting graphics power for MD simulations Article

Mol. Simul., 259-266.

J.A. van Meel, A. Arnold, D. Frenkel, S.F. Portegies Zwart and R.G. Belleman

January 2008
Zooming in multi-spectral datacubes using PCA In Proceedings

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

January 2008
Ultrafast intraband relaxation in colloidal quantum dots In Proceedings

J.J.H. Pijpers, E. Hendry and M. Bonn (Mischa)

January 2008
Active gels: structure and dynamics of actin-myosin networks Book Chapter

G.H. Koenderink (Gijsje)

January 2008
Evolution strategies for laser pulse compression In Proceedings

R. Fanciulli, L. Willmes, J. Savolainen (Janne), P. van der Walle, Th. Bäck and J. Herek

January 2008
On the evolution of laser pulses under a dynamic Quantum Control environment In Proceedings

O.M. Shir, Th. Bäck, H. Rabitz and M.J.J. Vrakking

January 2008
Comparative study of the effect of traditional pigments on artificially aged oil paint systems using complementary analytical techniques In Proceedings

K. Keune, F.G. Hoogland, D. Peggie, C. Higgitt and J.J. Boon

January 2008
Automated spatial mapping of microtubule catastrophe rates in fission yeast Book Chapter

C. Tischer, D. Brunner and A.M. Dogterom (Marileen)

January 2008
Imaging chemical characterisation of preparatory layers in fifteenth- and sixteenth-century northern European panel paintings In Proceedings

E.S.B. Ferreira, R. Morrison and J.J. Boon

January 2008
Remarkably improved spatial resolution in SEM images of paint cross-sections after argon ion polishing In Proceedings

J.J. Boon and J. van der Horst (Jerre)

January 2008
Optical anisotropy of semiconductor nanowires Book Chapter

J. Gómez Rivas (Jaime), O.L. Muskens, M.T. Borgström, S.L. Diedenhofen and E.P.A.M. Bakkers (Erik)

January 2008
A scientific evaluation of surface cleaning acrylic emulsion paintings In Proceedings

B. Ormsby, P. Smithen, F.G. Hoogland, C. Miliani and T. Learner

January 2008
The effects of lead and zinc white saponification on surface appearance of paint In Proceedings

Y. Shimazu, K. Keune, J.J. Boon, J.H. Townsend and K.-J. van den Berg

January 2008
Laser trapping and laser interferometry for high-bandwidth micromechanical probing of biomaterials In Proceedings

D. Mizuno, M. Atakhorrami, K M. Addas, J X. Tang, G.H. Koenderink (Gijsje), F.C. MacKintosh (Fred) and C.F. Schmidt

January 2008
The substance of things Book Chapter

L. Carlyle, M. Bustin, P. Smithen and J.J. Boon

January 2008
Photovoltaic effect in Si/SiOx heterostructures In Proceedings

R.V.A. van Loon, K.R. Catchpole (Kylie) and A. Polman (Albert)

January 2008
Luminescence properties of silicon nanocrystals in Al2O3 fabricated at low temperature In Proceedings

R.J. Walters, R.V.A. van Loon, A. Polman (Albert), I. Brunets, G. Piccolo and J. Schmitz

January 2008
Selective darkening of ground and paint layers associated with the wood structure in the seventeenth-century panel paintings In Proceedings

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

January 2008
Historically accurate ground reconstructions for oil paintings In Proceedings

L. Carlyle, J.J. Boon, R. Haswell and M. Stols-Witlox

January 2008
Strong-field control of electron localisation during molecular dissociation Article

Mol. Phys., 106(2-4), 455-465.

M.F. Kling, Ch. Siedschlag, I. Znakovskaya, A.J. Verhoef, S.S. Zherebtsov, F. Krausz (Ferenc), M. Lezius and M.J.J. Vrakking

January 2008
Liquid Crystal Colloids Studied by THz Time-Domain Spectroscopy Article

Mol. Cryst. Liq. Cryst., 21-28.

M. Oh-e, H. Yokoyama, M. Koeberg, E. Hendry and M. Bonn (Mischa)

January 2008
Ultrasnelle kleurverandering van een nano-spiegelpaleis Article

NTvN, 4-6.

T.G. Euser and W.L. Vos

January 2008
Long-range proton transfer in aqueous acid-base reactions Article

J. Phys. Chem. B, 378-389.

B.J. Siwick, M.J. Cox and H.J. Bakker (Huib)

January 2008
Nature of sub-band gap luminescent eigenmodes in a ZnO nanowire Article

Nano Lett., 119-123.

S. Rühle, L.K. van Vugt, H.-Y. Li, N.A. Keizer, L.K. Kuipers (Kobus) and Daniël A. Vanmaekelbergh

January 2008
Nanofocusing in laterally tapered plasmonic waveguides Article

Opt. Express, 16(1), 45-57.

E. Verhagen (Ewold), A. Polman (Albert) and L.K. Kuipers (Kobus)

January 2008
Demixing light paths inside disordered metamaterials Article

Opt. Express, 16(1), 67-80.

I.M. Vellekoop, E.G. van Putten, A. Lagendijk and A.P. Mosk (Allard)

January 2008
Transient absorption of vibrationally excited ice Ih Article

J. Chem. Phys., 128(Article number: 24502), 1-10.

A.M. Dokter and H.J. Bakker (Huib)

January 2008
Novel instrument for surface plasmon polariton tracking in space and time Article

Rev. Sci. Instrum., 79(Article number: 13704), 1-10.

M. Sandtke, R.J.P. Engelen, H. Schoenmaker (Hinco), I. Attema, H. Dekker, J. Cerjak (Iliya), J.P. Korterik, F.B. Segerink and L.K. Kuipers (Kobus)

January 2008
Protein shape and crowding drive domain formation and curvature in biological membranes Article

Biophys. J., 640-647.

R.N. Frese, J.C. Pámies, J.D. Olsen, S. Bahatyrova, C.D. van der Weij -de Wit, T.J. Aartsma, C. Otto, C.N. Hunter, D. Frenkel and R. van Grondelle

January 2008

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