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Benedetti R, Bajardi F, Capozziello S, Carafa V, Conte M, Del Sorbo MR, Nebbioso A, Singh M, Stunnenberg HG, Valadan M, Altucci L, Altucci C. Different Approaches to Unveil Biomolecule Configurations and Their Mutual Interactions. ANAL LETT 2021. [DOI: 10.1080/00032719.2020.1716241] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Affiliation(s)
- R. Benedetti
- Dipartimento di Biochimica, Biofisica e Patologia Generale, Università degli Studi della Campania “L. Vanvitelli”, Napoli, Italy
| | - F. Bajardi
- Dipartimento di Fisica “Ettore Pancini”, Università degli Studi di Napoli “Federico II”, Napoli, Italy
- Istituto Nazionale di Fisica Nucleare (INFN), Sez. di Napoli, Napoli, Italy
| | - S. Capozziello
- Dipartimento di Fisica “Ettore Pancini”, Università degli Studi di Napoli “Federico II”, Napoli, Italy
- Istituto Nazionale di Fisica Nucleare (INFN), Sez. di Napoli, Napoli, Italy
- Gran Sasso Science Institute, L’Aquila, Italy
| | - V. Carafa
- Dipartimento di Biochimica, Biofisica e Patologia Generale, Università degli Studi della Campania “L. Vanvitelli”, Napoli, Italy
| | - M. Conte
- Dipartimento di Biochimica, Biofisica e Patologia Generale, Università degli Studi della Campania “L. Vanvitelli”, Napoli, Italy
| | - M. R. Del Sorbo
- Istituto Statale d’Istruzione Superiore “Leonardo da Vinci”, Poggiomarino, NA, Italy
| | - A. Nebbioso
- Dipartimento di Biochimica, Biofisica e Patologia Generale, Università degli Studi della Campania “L. Vanvitelli”, Napoli, Italy
| | - M. Singh
- Dipartimento di Fisica “Ettore Pancini”, Università degli Studi di Napoli “Federico II”, Napoli, Italy
| | - H. G. Stunnenberg
- Department of Molecular Biology, NCMLS, Radboud University, Nijmegen, the Netherlands
| | - M. Valadan
- Dipartimento di Fisica “Ettore Pancini”, Università degli Studi di Napoli “Federico II”, Napoli, Italy
- Istituto Nazionale di Fisica Nucleare (INFN), Sez. di Napoli, Napoli, Italy
| | - L. Altucci
- Dipartimento di Biochimica, Biofisica e Patologia Generale, Università degli Studi della Campania “L. Vanvitelli”, Napoli, Italy
| | - C. Altucci
- Dipartimento di Fisica “Ettore Pancini”, Università degli Studi di Napoli “Federico II”, Napoli, Italy
- Istituto Nazionale di Fisica Nucleare (INFN), Sez. di Napoli, Napoli, Italy
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Micciarelli M, Curchod BFE, Bonella S, Altucci C, Valadan M, Rothlisberger U, Tavernelli I. Characterization of the Photochemical Properties of 5-Benzyluracil via Time-Dependent Density Functional Theory. J Phys Chem A 2017; 121:3909-3917. [PMID: 28467074 DOI: 10.1021/acs.jpca.6b12799] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
We present a detailed study of the excited state properties of 5-benzyluracil (5BU) in the gas phase and in implicit solvent using different electronic structure approaches ranging from time-dependent density functional theory in the linear response regime (LR-TDDFT) to a set of different wave-function-based methods for excited states, namely perturbed coupled cluster (CC2), algebraic diagrammatic construction method to second order (ADC(2)), and perturbed configuration interaction (CIS(D)). 5BU has been used to investigate DNA base-amino acid interactions. In particular, it served as a model of protein-DNA photoinduced cross-linking. While LR-TDDFT is computationally the most efficient first-principles approach for static and dynamic simulations of this bichromophoric system, its accuracy is difficult to assess due to the presence of excited states with charge transfer character. In this work, the performance of different exchange correlation functionals is compared against accurate benchmarks obtained either from high level wave-function-based methods or directly from experimental absorption spectra. Our investigation shows that accurate results for the excitation energies can be obtained using the hybrid meta-GGA functional M06. In view of dynamical studies of the relaxation of 5BU after photoexcitation, we also show that the PBE functional, while failing in the Franck-Condon region, provides qualitatively good results for the characterisation of a possible photocyclization path.
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Affiliation(s)
- M Micciarelli
- Department of Physics, University of Rome "La Sapienza" , Ple A. Moro 5, 00185 Rome, Italy
| | | | | | - C Altucci
- Department of Physics, University of Naples "Federico II" , Via Cintia, 26-80126 Napoli, Italy
| | - M Valadan
- Department of Physics, University of Naples "Federico II" , Via Cintia, 26-80126 Napoli, Italy
| | | | - I Tavernelli
- Zurich Research Laboratory, IBM Research GmbH , 8803 Rüschlikon, Switzerland
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3
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Funari R, Della Ventura B, Altucci C, Offenhäusser A, Mayer D, Velotta R. Single Molecule Characterization of UV-Activated Antibodies on Gold by Atomic Force Microscopy. Langmuir 2016; 32:8084-91. [PMID: 27444884 DOI: 10.1021/acs.langmuir.6b02218] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/29/2023]
Abstract
The interaction between proteins and solid surfaces can influence their conformation and therefore also their activity and affinity. These interactions are highly specific for the respective combination of proteins and solids. Consequently, it is desirable to investigate the conformation of proteins on technical surfaces, ideally at single molecule level, and to correlate the results with their activity. This is in particular true for biosensors where the conformation-dependent target affinity of an immobilized receptor determines the sensitivity of the sensor. Here, we investigate for the first time the immobilization and orientation of antibodies (Abs) photoactivated by a photonic immobilization technique (PIT), which has previously demonstrated to enhance binding capabilities of antibody receptors. The photoactivated immunoglobulins are immobilized on ultrasmooth template stripped gold films and investigated by atomic force microscopy (AFM) at the level of individual molecules. The observed protein orientations are compared with results of nonactivated antibodies adsorbed on similar gold films and mica reference samples. We find that the behavior of Abs is similar for mica and gold when the protein are not treated (physisorption), whereas smaller contact area and larger heights are measured when Abs are treated (PIT). This is explained by assuming that the activated antibodies tend to be more upright compared with nonirradiated ones, thereby providing a better exposure of the binding sites. This finding matches the observed enhancement of Abs binding efficiency when PIT is used to functionalize gold surface of QCM-based biosensors.
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Affiliation(s)
- R Funari
- Department of Physics Ettore Pancini, Università di Napoli Federico II , via Cintia, I-80126 Napoli, Italy
| | - B Della Ventura
- Department of Physics Ettore Pancini, Università di Napoli Federico II , via Cintia, I-80126 Napoli, Italy
| | - C Altucci
- Department of Physics Ettore Pancini, Università di Napoli Federico II , via Cintia, I-80126 Napoli, Italy
| | - A Offenhäusser
- Peter Grünberg Institute (PGI-8) and Institute of Complex Systems (ICS-8), Forschungszentrum Jülich GmbH , 52428 Jülich, Germany
| | - D Mayer
- Peter Grünberg Institute (PGI-8) and Institute of Complex Systems (ICS-8), Forschungszentrum Jülich GmbH , 52428 Jülich, Germany
| | - R Velotta
- Department of Physics Ettore Pancini, Università di Napoli Federico II , via Cintia, I-80126 Napoli, Italy
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Torres R, Siegel T, Brugnera L, Procino I, Underwood JG, Altucci C, Velotta R, Springate E, Froud C, Turcu ICE, Ivanov MY, Smirnova O, Marangos JP. Extension of high harmonic spectroscopy in molecules by a 1300 nm laser field. Opt Express 2010; 18:3174-3180. [PMID: 20174156 DOI: 10.1364/oe.18.003174] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
The emerging techniques of molecular spectroscopy by high order harmonic generation have hitherto been conducted only with Ti:Sapphire lasers which are restricted to molecules with high ionization potentials. In order to gain information on the molecular structure, a broad enough range of harmonics is required. This implies using high laser intensities which would saturate the ionization of most molecular systems of interest, e.g. organic molecules. Using a laser at 1300 nm, we are able to extend the technique to molecules with relatively low ionization potentials (approximately 11 eV), observing wide harmonic spectra reaching up to 60 eV. This energy range improves spatial resolution of the high harmonic spectroscopy to the point where interference minima in harmonic spectra of N(2)O and C(2)H(2) can be observed.
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Affiliation(s)
- R Torres
- Blackett Laboratory, Imperial College London, Prince Consort Road, London SW7 2BW, UK
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Xia J, Altucci C, Amoruso S, Bruzzese R, Velotta R, Wang X. Generation of high energy, 30 fs pulses at 527 nm by hollow-fiber compression technique. Opt Express 2008; 16:3527-3536. [PMID: 18542445 DOI: 10.1364/oe.16.003527] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
The compression of 300-fs-long, chirp-free laser pulses at 527 nm down to 30 fs is reported. The laser pulses, originated from a frequency-doubled, mode-locked Nd:glass laser, were compressed by a 0.7-m-long, 150-microm-bore-diameter, argon-filled hollow fiber, and a pair of SF10 prisms with a final energy of 160 microJ. These are the shortest, high energy pulses ever produced by direct pulse compression at the central wavelength of 527 nm. The spectral broadening of the pulses propagating inside the hollow fiber was experimentally examined for various filling-gas pressures and input pulse energies. The spectral width of the pulses was broadened up to 25 nm, and 27 nm for argon- and krypton-filled hollow fiber, respectively, at a gas pressure lower than 2 bar. The physical limitations of the hollow-fiber pulse compression technique applied in the visible range are also studied.
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Affiliation(s)
- J Xia
- Università di Napoli Federico II, via Cintia, 26 Ed. G - 80126 Napoli, Italy
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6
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Procino I, Velotta R, Altucci C, Amoruso S, Bruzzese R, Wang X, Tosa V, Sansone G, Vozzi C, Nisoli M. Hollow-fiber compression of visible, 200 fs laser pulses to 40 fs pulse duration. Opt Lett 2007; 32:1866-8. [PMID: 17603596 DOI: 10.1364/ol.32.001866] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/16/2023]
Abstract
We demonstrate the use of a very simple, compact, and versatile method, based on the hollow-fiber compression technique, to shorten the temporal length of visible laser pulses of 100-300 fs to pulse durations shorter than approximately 50 fs. In particular, 200 fs, frequency-doubled, Nd:glass laser pulses (527 nm) were spectrally broadened to final bandwidths as large as 25 nm by nonlinear propagation through an Ar-filled hollow fiber. A compact, dispersive, prism-pair compressor was then used to produce as short as 40 fs, 150 microJ pulses. A very satisfactory agreement between numerical simulations and measurements is found.
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Affiliation(s)
- I Procino
- Consorzio Nazionale Interuniversatario per le Scienze Fisiche della Materia, Coherentia Consiglio Nazionale delle Ricerche, Dipartimento di Scienze Fisiche, Università Federico II di Napoli, via Cintia, 80126 Napoli, Italy
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7
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Torres R, Kajumba N, Underwood JG, Robinson JS, Baker S, Tisch JWG, de Nalda R, Bryan WA, Velotta R, Altucci C, Turcu ICE, Marangos JP. Probing orbital structure of polyatomic molecules by high-order harmonic generation. Phys Rev Lett 2007; 98:203007. [PMID: 17677693 DOI: 10.1103/physrevlett.98.203007] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/04/2006] [Indexed: 05/16/2023]
Abstract
The effects of electronic structure and symmetry are observed in laser driven high-order harmonic generation for laser aligned conjugated polyatomic molecular systems. The dependence of the harmonic yield on the angle between the molecular axis and the polarization of the driving laser field is seen to contain the fingerprint of the highest occupied molecular orbitals in acetylene and allene, a good quantitative agreement with calculations employing the strong field approximation was found. These measurements support the extension of the recently proposed molecular orbital imaging techniques beyond simple diatomic molecules to larger molecular systems.
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Affiliation(s)
- R Torres
- Blackett Laboratory, Imperial College London, London SW7 2BW, United Kingdom
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Sansone G, Benedetti E, Calegari F, Vozzi C, Avaldi L, Flammini R, Poletto L, Villoresi P, Altucci C, Velotta R, Stagira S, De Silvestri S, Nisoli M. Isolated Single-Cycle Attosecond Pulses. Science 2006; 314:443-6. [PMID: 17053142 DOI: 10.1126/science.1132838] [Citation(s) in RCA: 355] [Impact Index Per Article: 19.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022]
Abstract
We generated single-cycle isolated attosecond pulses around approximately 36 electron volts using phase-stabilized 5-femtosecond driving pulses with a modulated polarization state. Using a complete temporal characterization technique, we demonstrated the compression of the generated pulses for as low as 130 attoseconds, corresponding to less than 1.2 optical cycles. Numerical simulations of the generation process show that the carrier-envelope phase of the attosecond pulses is stable. The availability of single-cycle isolated attosecond pulses opens the way to a new regime in ultrafast physics, in which the strong-field electron dynamics in atoms and molecules is driven by the electric field of the attosecond pulses rather than by their intensity profile.
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Affiliation(s)
- G Sansone
- National Laboratory for Ultrafast and Ultraintense Optical Science-CNR-Istituto Nazionale per la Fisica della Materia, Department of Physics, Politecnico, Piazza Leonardo da Vinci 32, 20133 Milano, Italy
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9
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Vozzi C, Calegari F, Benedetti E, Caumes JP, Sansone G, Stagira S, Nisoli M, Torres R, Heesel E, Kajumba N, Marangos JP, Altucci C, Velotta R. Controlling two-center interference in molecular high harmonic generation. Phys Rev Lett 2005; 95:153902. [PMID: 16241726 DOI: 10.1103/physrevlett.95.153902] [Citation(s) in RCA: 36] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/24/2005] [Indexed: 05/05/2023]
Abstract
We experimentally investigate the process of intramolecular quantum interference in high-order harmonic generation in impulsively aligned CO2 molecules. The recombination interference effect is clearly seen through the order dependence of the harmonic yield in an aligned sample. The experimental results can be well modeled assuming that the effective de Broglie wavelength of the returning electron wave is not significantly altered by the Coulomb field of the molecular ion. We demonstrate that such interference effects can be effectively controlled by changing the ellipticity of the driving laser field.
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Affiliation(s)
- C Vozzi
- Dipartimento di Fisica, Politecnico, National Laboratory for Ultrafast and Ultraintense Optical Science-CNR-INFM, Milano, Italy
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10
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Martirosyan AE, Altucci C, de Lisio C, Porzio A, Solimeno S, Tosa V. Fringe pattern of the field diffracted by axicons. J Opt Soc Am A Opt Image Sci Vis 2004; 21:770-776. [PMID: 15139429 DOI: 10.1364/josaa.21.000770] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
The far-field intensity pattern of laser beams diffracted by axicons is extensively characterized both theoretically and experimentally. The regular structure of the pattern, consisting of high-contrast fringes, is explained. The experimental results have been interpreted by representing the diffracted field as generated by an extended virtual source shaped as a circle centered on the optical axis of the incident laser beam. The simulations include modifications to the diffraction pattern arising from the laser radiation diffraction limit at the axicon tip, and they reproduce well the measured intensity profile at different distances from the axicon.
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Affiliation(s)
- A E Martirosyan
- Institute for Physical Research, Armenian Academy of Sciences, Ashtarak, Armenia
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11
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Nisoli M, Priori E, Sansone G, Stagira S, Cerullo G, De Silvestri S, Altucci C, Bruzzese R, de Lisio C, Villoresi P, Poletto L, Pascolini M, Tondello G. High-brightness high-order harmonic generation by truncated bessel beams in the sub-10-fs regime. Phys Rev Lett 2002; 88:033902. [PMID: 11801059 DOI: 10.1103/physrevlett.88.033902] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2001] [Indexed: 05/23/2023]
Abstract
Low-divergence, high-brightness harmonic emission has been generated by using a fundamental beam with a truncated Bessel intensity profile. Such a beam is directly obtained by using the hollow-fiber compression technique, which indeed allows one to optimize both temporal and spatial characteristics of the high-order harmonic generation process. This is particularly important for the applications of radiation, where extreme temporal resolution and high brightness are required.
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Affiliation(s)
- M Nisoli
- Istituto Nazionale per la Fisica della Materia, Centro di Elettronica Quantistica e Strumentazione Elettronica-C.N.R., Dipartimento di Fisica, Politecnico, Milano, Italy.
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12
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Altucci C, Bruzzese R, de Lisio C, Tosa V, Barbiero P, Poletto L, Tondello G, Villoresi P, Nisoli M, Stagira S, Cerullo G, De Silvestri S, Svelto O. Beam divergence of high-order harmonics generated in the few-optical cycle regime. ACTA ACUST UNITED AC 2001. [DOI: 10.1051/jp4:2001268] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
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Villoresi P, Ceccherini P, Poletto L, Tondello G, Altucci C, Bruzzese R, Nisoli M, Stagira S, Cerullo G, Svelto O. Spectral features and modeling of high-order harmonics generated by sub-10-fs pulses. Phys Rev Lett 2000; 85:2494-2497. [PMID: 10978090 DOI: 10.1103/physrevlett.85.2494] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/1999] [Indexed: 05/23/2023]
Abstract
Harmonic radiation generated in a neon gas jet by sub-10-fs laser pulses was investigated both experimentally and theoretically. The spectral profile of the harmonics with respect to the order, their intensity and relative spectral shifts were measured as a function of the position of the gas jet. The results point out spectral features typical of the quasi-single-cycle excitation regime. A nonadiabatic three-dimensional numerical model was developed, which provides harmonic spectra in remarkable agreement with the experiments.
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Affiliation(s)
- P Villoresi
- Istituto Nazionale Fisica della Materia, Laboratorio di Elettronica Quantistica-D.E.I., Universita di Padova, Padova, Italy
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Beneduce C, Bruzzese R, Solimeno S, Sorrentino GS, Vigilante F, Altucci C. Radiation scattering in intense-field harmonic-generation experiments. Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics 1995; 52:1993-2012. [PMID: 9963620 DOI: 10.1103/physreve.52.1993] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
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Altucci C, Bruzzese R, Solimeno S. Kinetic description of plasmas produced in multiphoton-ionization processes. Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics 1994; 49:3316-3334. [PMID: 9961599 DOI: 10.1103/physreve.49.3316] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
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