Dynamics of Monolayer–Island Transitions in 2,7‐Dioctyl‐benzothienobenzthiophene Thin Films

The order in molecular monolayers is a crucial aspect for their technological application. However, the preparation of defined monolayers by spin‐coating is a challenge, since the involved processes are far from thermodynamic equilibrium. In the work reported herein, the dynamic formation of dioctyl‐benzothienobenzothiophene monolayers is explored as a function of temperature by using X‐ray scattering techniques and atomic force microscopy. Starting with a disordered monolayer after the spin‐coating process, post‐deposition self‐reassembly at room temperature transforms the initially amorphous layer into a well‐ordered bilayer structure with a molecular herringbone packing, whereas at elevated temperature the formation of crystalline islands occurs. At the temperature of the liquid‐crystalline crystal–smectic transition, rewetting of the surface follows resulting in a complete homogeneous monolayer. By subsequent controlled cooling to room temperature, cooling‐rate‐dependent kinetics is observed; at rapid cooling, a stable monolayer is preserved at room temperature, whereas slow cooling causes bilayer structures. Increasing the understanding and control of monolayer formation is of high relevance for achieving ordered functional monolayers with defined two‐dimensional packing, for future applications in the field of organic electronics.     

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…     

Fast construction of assembly trees for molecular graphs

A number of modeling and simulation algorithms using internal coordinates rely on hierarchical representations of molecular systems. Given the potentially complex topologies of molecular systems, though, automatically generating such hierarchical decompositions may be difficult. In this article, we present a fast general algorithm for the complete construction of a hierarchical representation of a molecular system. This two-step algorithm treats the input molecular system as a graph in which vertices represent atoms or pseudo-atoms, and edges represent covalent bonds. The first step contracts all cycles in the input graph. The second step builds an assembly tree from the reduced graph. We analyze the complexity of this algorithm and show that the first step is linear in the number of edges in the input graph, whereas the second one is linear in the number of edges in the graph without cycles, but dependent on the branching factor of the molecular graph. We demonstrate the performance of our algorithm on a set of specifically tailored difficult cases as well as on a large subset of molecular graphs extracted from the protein data bank. In particular, we experimentally show that both steps behave linearly in the number of edges in the input graph (the branching factor is fixed for the second step). Finally, we demonstrate an application of our hierarchy construction algorithm to adaptive torsion-angle molecular mechanics.     

Self‐Assembled Monolayers into the 21st Century: Recent Advances and Applications

The modification of an interface on a molecular level with more than one molecular ‘building block' is essentially an example of the ‘bottom–up' fabrication principle of nanotechnology. The fabrication of such integrated molecular systems in electrochemistry has seen rapid progress in recent years via the development of sensing interfaces fabricated using self‐assembled monolayers (SAMs). This review outlines recent advances and applications of self‐assembled monolayers for modifying electrodes with an emphasis on the development of integrated molecular systems. First, some basic issues regarding fabricating integrated molecular systems, such as the role of the surface topography of the electrode and patterning surfaces, are discussed. Subsequently an overview of recent developments in pH, inorganic and bio sensing involving the use of SAMs is given. Finally emerging trends in using molecular building blocks in the fabrication of integrated molecular systems, such as nanotubes, dendrimers and nanoparticles, are reviewed.     

Nanoscopic Structure of a Metallo‐supramolecular Polyelectrolyte–Amphiphile Complex,Elucidated by X‐ray Scattering and Molecular Modeling

A combination of molecular modeling and X‐ray scattering was used to elucidate the structure of the metallosupramolecular polyelectrolyte–amphiphile complex (PAC) self‐assembled from Fe^II, 1,4‐bis(2,2′:6′,2″‐terpyridin‐4′‐yl)benzene, and dihexadecyl phosphate (DHP). An approximate structure of the semi‐ordered material was derived from the analysis of the X‐ray scattering data. The experimental data provided sufficient input for obtaining a useful starting configuration for molecular modeling. Various models of the supramolecular architecture are presented and discussed in terms of their total energies and scattering patterns. In an iterative approach each level of the structural hierarchy was refined until satisfactory agreement of calculated and experimental scattering patterns was reached. The remarkable sensitivity of the simulated scattering curves to even the smallest structural changes at all length scales restricts the arbitrariness of modeling. The final model of PAC consists of flat lamellae of alternating strata of interdigitated DHP monolayers and nematically ordered polyelectrolyte chains.     

Analysis for low molecular weight phenolic compounds in a red wine aged in oak chips

The evolution of low molecular weight polyphenols in a red wine aging in different systems (barrels, oak chips and oak staves) made of different oak species was studied. All were placed under the same aging conditions in a wine cellar participating the Cigales Appellation of Origin programme (Spain). The wine aged in contact with oak chips experienced a quicker aging and loss of certain compounds, and a greater number of polymerisations than the wine aged in barrels. The discriminant analysis showed that samples of the same source wine aged in barrels, oak chips and oak staves tended to group together according to the aging system when wood from different botanical species is used (American, French or Hungarian).     

分子基逻辑材料*

在适当的条件下分子开关将输入的信息转换为输出信号,利用这一特点,可在分子体系根据二进位布尔逻辑规则实现信号转换。目前,用化学体系进行基本的布尔逻辑功能执行 (PASS、YES、NOT、AND、NAND、OR、NOR、XNOR和INH)都已成为可能。在此基础上,逻辑门的整合与编程,以及更进一步的复杂分子运算开始受到人们的关注。迄今为止,以高灵敏性的荧光输出信号为主,人们在分子水平上设计实现了多种复杂的逻辑电路,包括组合逻辑电路和时序逻辑电路等,并开始涉及信息处理的安全平台设计。本文主要介绍了近年来利用分子荧光开关体系模拟数字逻辑电路过程中所取得的最新进展,对分子逻辑电路研究的热点和问题进行了展望。     

Rigid Lipid Membranes and Nanometer Clefts: Motifs for the Creation of Molecular Landscapes

Amphiphilic lipids associate in water spontaneously to form micelles, vesicles, monolayers, or biological membranes. These aggregates are soft and their shape can be changed easily. They behave like complex fluids because they are merely held together by weak, nondirected forces. The most important characteristic of these monolayers is their ability to dissolve hydrophobic molecules in the form of freely movable monomers. The fluid molecular layers are not suitable to anchor the components of chain reactions. However, if the alkyl chains are replaced by rigid skeletons or if the head groups are connected through intermolecular interactions, the aggregates become rigid and their fluid solvent character is lost. The construction of chiral surfaces by synkinesis (synthesis of noncovalent compounds) and of enzyme‐type surface clefts of defined size can now be carried out by using rigid lipid membranes. Monolayers and nanometer pores on solid substrates attain sharp edges, and upright nanometer columns on smooth surfaces no longer dissipate. Five examples illustrate the advantages of using rigid molecular assemblies: 1) Cationic domains of rigid edge amphiphiles in fluid membranes act as manipulable ion channels. 2) Spherical micelles, micellar helical fibers, and vesicular tubes can be dried and stored as stable material. Molecular landscapes form on smooth surfaces. 3) α,ω‐Diamide bolaamphiphiles form rigid nanometer‐thick walls on smooth surfaces and these barriers cannot be penetrated by amines. Around steroids and porphyrins, they form rigid nanometer clefts whose walls and water‐filled centers can be functionalized. 4) The structure of rigid oligophenylene‐ and quinone monolayers on electrodes can be changed drastically and reversibly by changing the potential. 5) 10¹⁰ Porphyrin cones on a 1‐cm² gold electrode can be controlled individually by AFM‐ and STM‐tips and investigated by electrochemical, photochemical, and mechanical means. In summary, rigid monolayers and bilayers allow the formation of a great variety of membrane structures that cannot be obtained from classical fluid alkyl amphiphiles.     

Studies of protection of iron corrosion by rosin imidazoline self‐assembled monolayers

A type of rosin imidazoline (IM) has been synthesized using rosin acid and diethylenetriamine (DETA) as raw materials. The monolayers of IM were assembled on the surface of iron. The monolayers of the IM inhibitor were characterized by electrochemical impedance spectroscopy (EIS), electrochemical polarization curves and double‐layer capacitance. Surface analysis was carried out to establish the mechanism of corrosion inhibition of iron by X‐ray photoelectron spectroscopy (XPS) and scanning electron microscopy. The IM inhibitor showed good inhibition efficiency for iron in 0.1 M H₂SO₄. The inhibition mechanism of IM inhibitor was interpreted using molecular simulation. Copyright © 2006 John Wiley & Sons, Ltd.     

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(lll) 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 ε 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 dynamics and phase transitions in phospholipid monolayers at liquid-liquid interfaces

Stablen-hexadecane/water andn-tetradecane/water macroemulsions containing monolayers of natural (egg yolk lecithin, EY) and synthetic (dimyristoylphosphatidylcholine, DMPC) phospholipids at liquid-liquid interfaces were prepared. The existence of the monolayers was proved by studying the reduction kinetics of a surface-active spin probe with ascorbate anions. Spin labeled derivatives of stearic acid in which the nitroxide group is locared at different distances from the polar head (5-, 12-, and 16-doxylstearic acids) were used to study the temperature dependences of the molecular ordering, rotational mobility, and local polarity in the monolayers in emulsions and also in bilayers in liposomes obtained from the same lipids. In the EY monolayers, the degree of spin probe solubilization is higher, while the order parameters (S) and rotational correlation times (τ) are lower than those in EY bilayers. The differences between these parameters for mono- and bilayers increase with an increase in the distance of the reporter group from the aqueous phase. In the DMPC monolayers, a first-order phase transition was detected by measuring the temperature dependences ofS and τ. The temperature region of the phase transition in monolayers is shifted to lower temperatures with respect to that for bilayers and depends on the nature of the oil phase. It was concluded that the phospholipid monolayers in emulsions incorporate hydrocarbon molecules, whose concentration in the DMPC monolayers increases on going from the low-temperature (gel) to the high-temperature (liquid crystal) phase. Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 3, pp. 418–425, March, 1998.     

A core-shell strategy for constructing a single-molecule junction

Understanding the effects of intermolecular interactions on the charge-transport properties of metal/molecule/metal junctions is an important step towards using individual molecules as building blocks for electronic devices. This work reports a systematic electron-transport investigation on a series of "core-shell"-structured oligo(phenylene ethynylene) (Gn-OPE) molecular wires. By using dendrimers of different generations as insulating "shells", the intermolecular π-π interactions between the OPE "cores" can be precisely controlled in single-component monolayers. Three techniques are used to evaluate the electron-transport properties of the Au/Gn-OPE/Au molecular junctions, including crossed-wire junction, scanning tunneling spectroscopy (STS), and scanning tunneling microscope (STM) break-junction techniques. The STM break-junction measurement reveals that the electron-transport pathways are strongly affected by the size of the side groups. When the side groups are small, electron transport could occur through three pathways, including through single-molecule junctions, double-molecule junctions, and molecular bridges between adjacent molecules formed by aromatic π-π coupling. The dendrimer shells effectively prohibit the π-π coupling effect, but at the same time, very large dendrimer side groups may hinder the formation of Au-S bonds. A first-generation dendrimer acts as an optimal shell that only allows electron transport through the single-molecule junction pathway, and forbids the other undesired pathways. It is demonstrated that the dendrimer-based core-shell strategy allows the single-molecule conductance to be probed in a homogenous monolayer without the influence of intermolecular π-π interactions.     

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…     

In silico engineering of tailored ink-binding ability at molecular printboards.

Molecular recognition between guest ink molecules and beta-cyclodextrin (beta-CD) cavities at self-assembled monolayers provides a molecular printboard for nanopatterning applications. We recently used molecular dynamics (MD) simulations to describe the specificity of ink-printboard binding and here extend the simulations to include charged cyclodextrin hosts, necessary to broaden the chemistry of molecular printboards and bind charged inks such as the ferrocenium cation. Shifting to high pH, or alternatively grafting a charged sidearm onto beta-CD, created three distinct types of anionic beta-CD cavity and we used electronic structure calculations and MD simulations to measure host-guest charge transfer and binding strengths. We find that steric recognition of uncharged organic molecules is retained at the charged printboards, and that improved guest-host electrostatic contacts can strengthen binding of larger inks while penalising small inks, enhancing the level of discrimination. A prudent choice of complementary host-guest shape and charge states thus provides a means of tuning both ink binding strength and specificity at molecular printboards.     

An Electrically Driven and Readable Molecular Monolayer Switch Based on a Solid Electrolyte

The potential application of molecular switches as active elements in information storage has been demonstrated through numerous works. Importantly, such switching capabilities have also been reported for self‐assembled monolayers (SAMs). SAMs of electroactive molecules have recently been exploited as electrochemical switches. Typically, the state of these switches could be read out through their optical and/or magnetic response. These output reading processes are difficult to integrate into devices, and furthermore, there is a need to use liquid environments for switching the redox‐active molecular systems. In this work, both of these challenges were overcome by using an ionic gel as the electrolyte medium, which led to an unprecedented solid‐state device based on a single molecular layer. Moreover, electrochemical impedance has been successfully exploited as the output of the system.     

RESONANCE RAMAN SPECTRA AND MOLECULAR ORIENTATION DISTRIBUTION OF INTERFACIAL MONOLAYERS

An orientation distribution model has been suggested for interfacial monomolecular lay-ers by taking account of the orientational uniaxiality of long-chain amphiphilic molecules inmonolayers. The resonance Raman spectra of azo-containing monolayers are the oreticallytreated on the basis of the model. Order parameters and (P_4> are obtained from polar-ized Raman measurements, giving rise to distribution graphs. These analyses indicate thatthe orientation distribution alters upon the increase of adsorption amount and displays inter-esting variation among different interfacial monolayers. The aggregate aspects of the 2-dimensional condensed states are also discussed from the viewpoint of molecular orientation.     

Applications of self-assembled monolayers in materials chemistry

Self-assembly provides a simple route to organise suitable organic molecules on noble metal and selected nanocluster surfaces by using monolayers of long chain organic molecules with various functionalities like -SH,-COOH,-NH₂, silanes etc. These surfaces can be effectively used to build-up interesting nano level architectures. Flexibility with respect to the terminal functionalities of the organic molecules allows the control of the hydrophobicity or hydrophilicity of metal surface, while the selection of length scale can be used to tune the distant-dependent electron transfer behaviour. Organo-inorganic materials tailored in this fashion are extremely important in nanotechnology to construct nanoelctronic devices, sensor arrays, supercapacitors, catalysts, rechargeable power sources etc. by virtue of their size and shape-dependent electrical, optical or magnetic properties. The interesting applications of monolayers and monolayer-protected clusters in materials chemistry are discussed using recent examples of size and shape control of the properties of several metallic and semiconducting nanoparticles. The potential benefits of using these nanostructured systems for molecular electronic components are illustrated using Au and Ag nanoclusters with suitable bifunctional SAMs.     

Investigation of nanocomposite PNIPAm-g-graphene with pre-lower critical solution temperature rapid thermal response function for chip adaptive cooling: A molecular dynamics and computational fluid dynamics simulations

Temperature-sensitive hydrogels have been widely used for rapid adaptive cooling in electronic device thermal management with promising applications. However, existing temperature-sensitive hydrogels can only regulate the flow in the chip cooling system after the ambient temperature reaches their lower critical solution temperature (LCST). Before reaching LCST, effective rapid heat dissipation for electronic chips is not achievable. This study aims to develop a temperature-sensitive hydrogel that can provide assisted adaptive cooling for electronic chips before reaching its LCST. This requires the hydrogel to have a thermal conductivity far surpassing existing hydrogel materials. Using the temperature-sensitive hydrogel PNIPAm and graphene molecules as base materials, this research utilized molecular dynamics simulations to graft graphene molecules onto PNIPAm molecules in different ways, resulting in the temperature-sensitive hydrogel material PNIPAm-g-graphene. Non-equilibrium molecular dynamics (NEMD) was employed to calculate the thermal conductivity of this material under different temperature conditions. The results indicate that the thermal conductivity of PNIPAm-g-graphene can reach up to 1.95474 W/m K (graphene grafted at  CH₃ functional group, temperature at 280 K). Compared to the thermal conductivity of PNIPAm under the same conditions (0.45 W/m K), the increase in thermal conductivity is significant, demonstrating excellent thermal conductivity compared to PNIPAm. Subsequently, this study analyzed the underlying mechanisms of different thermal conductivities in materials obtained by grafting graphene molecules at different points using the method of overlap in Phonon Density of States Curves (PDOS) from the perspective of interfacial thermal conduction. Finally, through computational fluid dynamics (CFD) simulations, this study investigates the chip's adaptive cooling performance with PNIPAm-g-graphene material. The results show that, compared to traditional temperature-sensitive hydrogels, PNIPAm-g-graphene can achieve efficient adaptive cooling of chip hotspots before the cooling fluid temperature reaches its LCST value. This finding is significant for the field of chip cooling. The study proposes a new method for rapid, adaptive cooling of chip hotspots and explores its feasibility from the perspectives of molecular dynamics and CFD simulation. It holds importance in the thermal management of electronic devices and the rapid adaptive cooling of electronic chips.