Molecular simulation of alkyl monolayers on the Si(111)surface

The structure of twelve-carbon monolayers on the H-terminated Si(111) surface is investigated by molecular simulation method. The best substitution percent on Si(111) surface obtained via molecular mechanics calculation is equal to 50%, and the (8×8) simulated cell can be used to depict the structure of alkyl monolayer on Si surface. After two-dimensional cell containing alkyl chains and four-layer Si(111) crystal at the substitution 50% is constructed, the densely packed and well-ordered monolayer on Si(111) surface can be shown through energy minimization in the suitable-size simulation cell. These simulation results are in good agreement with the experiments. These conclusions show that molecular simulation can provide otherwise inaccessible mesoscopic information at the molecular level, and can be considered as an adjunct to experiments.     

Molecular simulation of alkyl monolayers on the Si(111) surface YUAN

The preparation of monolayers on silicon surface is of growing interest for potential applica-tions in biosensor or semiconductor technology[1—5]. The alkyl modified Si(111) surfaces[6—10] can be obtained using the thermal, catalyzed, or photochemical reaction of hydrogen-terminated sili-con with alkenes, Grignard reagents, and so on. At the same time, the monolayer properties on Si(111) surface have been studied by a variety of experimental methods[8—10] such as X-ray photo-electron spect…     

Molecular Simulation study of Alkyl Monolayers on Si(III) Surface

The preparation of monolayers on silicon surface is of growing interest for potential applications in biosensor or semiconductor technology. Different experimental technique can be used to investigate the alkyl modified Si(III) surfaces1-4, such as X-ray photoelectron spectroscopy (XPS), Fourier transform infrared absorption spectra(FTIR), scanning electron microscopy (SEM), Auger electron spectroscopy (AES), scanning tunneling microscope (STM), and so on. These experimental results…     

醇类在Si-H表面形成单分子膜的特性

以界面电容分析法为主并结合XPS、AFM技术研究了醇类分子在Si(111)-H表面上形成的有机单分子膜的特性。并探讨了嫁接反应中影响单分子膜特性的某些因素和单分子膜的稳定性及其对硅表面氧化的钝化作用。在所选择的反应条件下，不同链长醇分子修饰的硅表面上，嫁接分子所占体积分数约为80％，平带电位约为-1．00V(vs.SSE)。研究表明，这类膜稳定性和对硅表面氧化的钝化作用非常有限。     

Molecular modeling of alkyl monolayers on the Si(100)-2 x 1 surface

Molecular modeling was used to simulate various surfaces derived from the addition of 1-alkenes and 1-alkynes to Si=Si dimers on the Si(100)-2 x 1 surface. The primary aim was to better understand the interactions between adsorbates on the surface and distortions of the underlying silicon crystal due to functionalization. Random addition of ethylene and acetylene was used to determine how the addition of an adduct molecule affects subsequent additions for coverages up to one molecule per silicon dimer, that is, 100% coverage. Randomization subdues the effect that the relative positions of the adsorbates have on the enthalpy of the system. For ethylene and acetylene, the enthalpy of reaction changes less than 3 and 5 kcal/mol, respectively, from the first reacted species up to 100% coverage. As a result, a (near-)complete coverage is predicted, which is in line with experimental data. When 1-alkenes and 1-alkynes add by [2 + 2] addition, the hydrocarbon chains interact differently depending on the direction they project from the surface. These effects were investigated for four-carbon chains: 1-butene and 1-butyne. As expected, the chains that would otherwise intersect bend to avoid each other, raising the enthalpy of the system. For alkyl chains longer than four carbons, the chains are able to reorient themselves in a favorable manner, thus, resulting in a steady reduction in reaction enthalpy of about 2 kcal/mol for each additional methylene unit.     

Electrochemical oxidative formation of ordered monolayers of thiol molecules on Au(111) surface

Electrochemical oxidative formation of thiolate monolayers on a Au(111) surface in KOH ethanol solutions of various thiol concentrations is described. The formation process was investigated by electrochemistry, in situ scanning tunneling microscopy (STM), and surface X‐ray diffraction (SXRD). The reductive charge in the linear sweep voltammogram after keeping the potential at +0.1 V increased with holding time and reached the saturated value of 103 µC cm^?2, corresponding to the full monolayer coverage of the ( ) structure. The desorption peak shifted negatively with holding time even after the monolayer was formed, suggesting that ordering of the monolayer requires a much longer time than full coverage adsorption. The herringbone structure, corresponding to the ( × 23) structure, was observed on the Au(111) surface in KOH ethanol solution by in situ STM, which shows that a clean surface was exposed. When hexanethiol ethanol solution was added into the ethanol solution at ?450 mV so that the final thiol concentration was higher than ca. 5 µM, generation of vacancy islands (VIs) was observed, which shows the potentiostatic monolayer formation. When the potential was scanned positively from ?950 mV where a clean reconstructed Au(111) surface was exposed, generation of VIs was observed accompanied by anodic current flow. During both oxidative adsorption and reductive desorption of the monolayer, the shape of the steps of the gold surface changed drastically, which suggests that the gold atoms on the surface are extremely mobile during the monolayer formation. SXRD measurement confirmed the surface reconstruction lifting upon monolayer formation. © 2009 The Japan Chemical Journal Forum and Wiley Periodicals, Inc. Chem Rec 9: 199–209; 2009: Published online in Wiley InterScience ( www.interscience.wiley.com ) DOI 10.1002/tcr.200900002     

Molecular modeling of alkyl and alkenyl monolayers on hydrogen-terminated Si(111)

On H-Si(111) surfaces monolayer formation with 1-alkenes results in alkyl monolayers with a Si-C-C linkage, while 1-alkynes yield alkenyl monolayers with a Si-C═C linkage. Recently, considerable structural differences between both types of monolayers were observed, including an increased thickness, improved packing, and higher surface coverage for the alkenyl monolayers. The precise origin thereof could experimentally not be clarified yet. Therefore, octadecyl and octadecenyl monolayers on Si(111) were studied in detail by molecular modeling via PCFF molecular mechanics calculations on periodically repeated slabs of modified surfaces. After energy minimization the packing energies, structural properties, close contacts, and deformations of the Si surfaces of monolayers structures with various substitution percentages and substitution patterns were analyzed. For the octadecyl monolayers all data pointed to a substitution percentage close to 50-55%, which is due the size of the CH(2) groups near the Si surface. This agrees with literature and the experimentally determined coverage of octadecyl monolayers. For the octadecenyl monolayers the minimum in packing energy per chain is calculated around 60% coverage, i.e., close to the experimentally observed value of 65% [Scheres et al. Langmuir 2010, 26, 4790], and this packing energy is less dependent on the substitution percentage than calculated for alkyl layers. Analysis of the chain conformations, close contacts, and Si surface deformation clarifies this, since even at coverages above 60% a relatively low number of close contacts and a negligible deformation of the Si was observed. In order to evaluate the thermodynamic feasibility of the monolayer structures, we estimated the binding energies of 1-alkenes and 1-alkynes to the hydrogen-terminated Si surface at a range of surface coverages by composite high-quality G3 calculations and determined the total energy of monolayer formation by adding the packing energies and the binding energies. It was shown that due to the significantly larger reaction exothermicity of the 1-alkynes, thermodynamically even a substitution percentage as high as 75% is possible for octadecenyl chains. However, because sterically (based on the van der Waals footprint) a coverage of 69% is the maximum for alkyl and alkenyl monolayers, the optimal substitution percentage of octadecenyl monolayers will be presumably close to this latter value, and the experimentally observed 65% is likely close to what is experimentally maximally obtainable with alkenyl monolayers.     

Molecular dynamics simulation of surface morphology and thermodynamic properties of polyaniline nanostructured film

To develop predictive models in nanostructured films, there is an ongoing research to validate molecular dynamics (MD) simulation results with experimental data. The morphology and surface topography of polyaniline (PANI) nanostructured film coated on a TiO₂ nanocrystalline surface were investigated by scanning electron microscopy and atomic force microscopy, respectively. The atomistic model of the simulated PANI was generated using energy minimization with a condensed‐phase optimized molecular potential for atomistic studies force field function to reach a thermodynamic equilibrium state. Various parameters of PANI such as density, energy, cavity size, and free volume distributions are calculated. MD simulation has also been used to obtain specific volume (V) as a function of temperature (T). It is demonstrated that this V–T curve can be used to determinate glass transition temperature T_g, reliably. Although experimental data available for the PANI film are very limited, simulation results such as density and T_g are in good agreement with the experimental values reported in the literature. Comparison of the surface topography of PANI demonstrates a reasonable trend between atomic force microscopy image analysis and the MD simulation results at various temperatures. Copyright © 2014 John Wiley & Sons, Ltd.     

Molecular orbital study for Na, Mg, and Al adsorption on the Si (111) surface

We investigated the interactions between the Si(111) surface and the Na, Mg, and Al atoms using cluster model calculations. Calculations were performed at levels of complete-active-space self-consistent-field (CASSCF) and multi-reference singly and doubly excited configuration interaction (MRSDCI) calculations using the model core potential method. Our calculations revealed that the most favorable sites of Na, Mg, and Al adsorption on Si(111) are on top (T₁), bridge (B₂), and 3-fold filled (T₄) sites, respectively. The nature of chemical bonds between these metal atoms and the dangling bonds of the surface Si atoms are found to be essentially covalent.     

聚乙烯在石墨表面结晶的分子动力学模拟

采用分子动力学方法模拟了聚乙烯在石墨(001)表面的吸附和结晶过程;直观的给出了聚乙烯链被石墨(001)面吸附并诱导形成有序的片层晶体的过程;发现结晶温度对得到的有序结构中的聚乙烯链相对石墨表面的特定取向有影响(300 K和600 K时的取向方向不同);表面覆盖率影响聚乙烯吸附层的厚度,对取向的方向无影响.     

Pyrrole-substituted alkyl silanes as new adhesion promoters on oxidic substrates

ω-(Pyrrol-1-yl alkyl) dimethylchlorosilanes with different chain length were synthesized and characterized with IR, NMR and elemental analysis. The growth of self-assembled monolayers of ω-(pyrrol-1-yl alkyl) dimethylchlorosilanes on oxide surfaces has been investigated. The order gradually improved with adsorption time and highly ordered SAMs were obtained for nearly 2 days adsorption time. Characterization of the films has been performed with contact angle measurements, ellipsometry, SPR and grazing incident FTIR. The chemical deposition of polypyrrole on the modified surface was investigated. The thickness of polypyrrole layer was influenced by the concentration of monomer, the deposition time, and the ratio of monomer to oxidant.     

Iron(II) spin crossover complexes with branched long alkyl chain

The bzimpy iron(II) complexes, 1-3, containing branched long alkyl chains were synthesized and characterized in detail. The temperature-dependant magnetic susceptibility of 1 showed gradual spin crossover behavior from low spin to high spin state, while 2 retained only low spin state in the same condition. Interestingly, 3 displayed an abrupt spin transition in temperature range from T_1/2↑ = 236 K to T_1/2↓ = 230 K with the thermal hysteresis loop about 6 K. The differential scanning calorimetric analysis of 3 revealed two species of liquid crystal phase transitions at 236 K and 351 K, respectively.     

Molecular dynamics simulation of the free surface of liquid formamide

Molecular dynamics simulations of liquid formamide (HCONH₂) were carried out using the GROMOS software. The formamide molecule is represented by all of its atoms with all internal degrees of freedom. In contrast to other simulations dealing with bulk properties, this study focuses on the interface liquid–vacuum for the first time. We show that the molecular plane is tilted out of the surface, exposing the HCO group to the vacuum. © 1997 John Wiley & Sons, Inc. Int J Quant Chem 63 : 1123–1131, 1997     

Size Effects for the Adsorption of Alkali Metal Atoms on the Si(001) Surface

The adsorptions of a series of alkali metal(AM) atoms, Li, Na, K, Rb and Cs, on a Si(001)-2×2 surface at 0.25 monolayer coverage have been investigated systematically by means of density functional theory calculations. The effects of the size of AM atoms on the Si(001) surface are focused in the present work by examining the most stable adsorption site, diffusion path, band structure, charge transfer, and the change of work function for different adsorbates. Our results suggest that, when the interactions among AM atoms are neglectable, these AM atoms can be divided into three classes. For Li and Na atoms, they show unique site preferences, and correspond to the strongest and weakest AM–Si interactions, respectively. In particular, the band structure calculation indicates that the nature of Li–Si interaction differs significantly from others. For the adsorptions of other AM atoms with larger size(namely, K, Rb and Cs), the similarities in the atomic and electronic structures are observed, implying that the atom size has little influence on the adsorption behavior for these large AM atoms on the Si(001) surface.     

Sr掺杂对CaO(100)表面吸附甲醇影响的分子模拟

借助分子模拟手段,研究了锶掺杂对氧化钙表面甲醇吸附行为的影响。构建了甲醇在CaO(100)和CaO(100)-Sr表面吸附的模型,计算了甲醇在氧化钙表面的吸附能和解离活化能,分析了甲醇在氧化钙表面成键的态密度以及锶掺杂前后甲醇在氧化钙表面电荷布局和差分电荷密度,评估了锶掺杂量对氧化钙表面甲醇吸附性能的影响。结果表明,锶掺杂能够显著强化氧化钙对甲醇的吸附性能,降低甲醇的解离活化能,且吸附性能随锶掺杂量的增加而增强;甲醇在氧化钙表面吸附时活化,锶掺杂后活化程度增加。     

Microwave-promoted solvent-free synthesis of N-(diphenylmethylene)glycine alkyl esters

The efficient synthesis of N-(diphenylmethylene) glycine alkyl esters was achieved for the first microwave irradiation under solvent-free condition,using PEG or quaternary ammonium salts as phase transfer catalysts(PTCs).Under the optimum conditions, N-(diphenylmethylene) glycine alkyl esters were obtained in excellent yields in most cases.     

Si（NCO）^＋2结构与稳定性的密度泛函理论研究

使用密度泛函（DFT）方法对Si(NCO)^ 2的可能异构体进行了计算研究,在UB3LYP／6－311G（d)理论级别下得到了6种异构体的能量和振动频率,结果表明,以2个NCO基团直接与Si^ 配位形成的异体最为稳定,理论计算得到一个以2个CO分子对称方式吸附于SiN^2 两侧而形成的络合物,这个络合物是否存在需进一步证实,在UB3LYP／6－311g(D) Ez级别下,反应Si^ 2NOC→Si(NCO)^ 2的焓变为－751．94kJ/mol,说明此反应在能量上相当有利。     

Density and viscosity studies of poly(ethylene-oxide) alkyl alcohols

Density and viscosity of binary systems water-nonionic surfactants poly(ethylen-oxide) alkyl alcohols type, [C_nH_2n+1(OCH₂CH₂)_mOH, C_nE_m], have been studied. The partial molar volumes in the dilute solution range and the viscosity B-coefficients were calculated. The nonionic surfactants partial molar volumes were compared with those of ethylene glycol and poly(ethylenglycol) (PEG). The comparison shows that the ethoxy unit volume, (OCH₂CH₂), seems to be independent of the particular system. The consequences of this are discussed. A model for interpreting the experimental B values has been proposed. The model treats the macroscopic viscosity as the superimposition of different local effects. The following surfactants have been considered: C₅E₁, C₅E₂, C₆E₁, C₆E₂, C₆E₃, C₆E₄.     

Ab Initio molecular dynamics study of ethylene adsorption onto Si(001) surface: Short‐time fourier transform analysis of structural coordinate autocorrelation function

The reaction dynamics of ethylene adsorption onto the Si(001) surface have been studied by combining density functional theory‐based molecular dynamics simulations with molecular adsorption sampling scheme for investigating all kinds of reaction pathways and corresponding populations. Based on the calculated results, three possible reaction pathways—the indirect adsorption, the direct adsorption, and the repelling reaction—have been found. First, the indirect adsorption, in which the ethylene (C₂H_4(ads)) forms the π‐bonded C₂H_4(ads) with the buckled‐down Si atom to adsorb on the Si(001) surface and then turns into the di‐σ‐bonded C₂H_4(ads), is the major reaction pathway. The short‐time Fourier transform analysis of structural coordinate autocorrelation function is performed to further investigate the evolution of different vibrational modes along this indirect reaction pathway. This analysis illustrates that the Infrared (IR) inactive peak of the C?C stretching mode of the π‐bonded C₂H_4(ads) shifts to the IR inactive peak of the C? C stretching mode of di‐σ‐bonded C₂H_4(ads), which is in a good agreement with the IR inactive peak of the C?C stretching mode vanished in the vibrational spectrum at 150 K (Nagao et al., J. Am. Chem. Soc. 2004 , 126, 9922). Second, the direct adsorption, in which the di‐σ‐bonded C₂H_4(ads) is formed directly with the Si intradimer or the Si interdimer on the Si(001) surface, is the less significant reaction pathway. This reaction pathway leads to the C? C stretching mode and the C? H stretching mode of the di‐σ‐bonded C₂H_4(ads) appeared in the vibrational spectra at 48 and 150 K, respectively (Nagao et al., J. Am. Chem. Soc. 2004 , 126, 9922). Finally, the repelling reaction, in which the C₂H_4(g) first interacts with the Si dimer and then is repelled by Si atoms, is the least important reaction pathway. Consequently, neither the π‐bonded C₂H_4(ads) nor the di‐σ‐bonded C₂H_4(ads) is formed on the Si(001) surface. © 2013 Wiley Periodicals, Inc.